INFO:root:{"type": "status update", "index": 0, "title": "Aligning", "status": 2, "msg": ""} DEBUG:root:/home/sweaver/programming/hivtrace/edge/bin/bealign -q -r HXB2_prrt -m HIV_BETWEEN_F -R raw_reference.fas /tmp/hivtrace-nepbat70/raw_reference.fas_output.bam INFO:root:{"type": "status update", "index": 0, "title": "Aligning", "status": 2, "msg": ""} DEBUG:root:/home/sweaver/programming/hivtrace/edge/bin/bealign -q -r HXB2_prrt -m HIV_BETWEEN_F -R raw_reference.fas /tmp/hivtrace-zclrb7ha/raw_reference.fas_output.bam INFO:root:{"type": "status update", "index": 0, "title": "Aligning", "status": 3, "msg": ""} INFO:root:{"type": "status update", "index": 1, "title": "BAM to FASTA conversion", "status": 2, "msg": ""} DEBUG:root:/home/sweaver/programming/hivtrace/edge/bin/bam2msa /tmp/hivtrace-zclrb7ha/raw_reference.fas_output.bam /tmp/hivtrace-zclrb7ha/raw_reference.fas_output.fasta INFO:root:{"type": "status update", "index": 1, "title": "BAM to FASTA conversion", "status": 3, "msg": ""} INFO:root:{"type": "status update", "index": 3, "title": "Computing pairwise TN93 distances", "status": 2, "msg": ""} DEBUG:root:tn93 -q -o /tmp/hivtrace-zclrb7ha/raw_reference.fas_user.tn93output.csv -t .015 -a resolve -l 500 -g .05 -f csv /tmp/hivtrace-zclrb7ha/raw_reference.fas_output.fasta INFO:root:{"type": "status update", "index": 3, "title": "Computing pairwise TN93 distances", "status": 3, "msg": ""} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": ""} DEBUG:root:/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv -i /tmp/hivtrace-zclrb7ha/raw_reference.fas_user.tn93output.csv -t .015 -f plain -j -o -n remove -s /tmp/hivtrace-zclrb7ha/raw_reference.fas_output.fasta INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 19, in __init__\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 19, in __init__\n self._launch(process_obj)\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 19, in __init__\n self._launch(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 66, in _launch\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 19, in __init__\n self._launch(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 66, in _launch\n self.pid = os.fork()\n"} INFO:root:{"type": "status update", "index": 4, "title": "Inferring, filtering, and analyzing molecular transmission network", "status": 2, "msg": "Running edge filtering on 2586 clusters with 3 or more edges\n\nFiltering a set of 19645 edges (2418/2586 clusters) \nFiltering a set of 19645 edges (2418/2586 clusters). Pass 0, 20528 triangles, 3060 filtered edges\nFiltering a set of 16585 edges (2418/2586 clusters). Pass 1, 3552 triangles, 172 filtered edges\nFiltering a set of 16413 edges (2418/2586 clusters). Pass 2, 3315 triangles, 29 filtered edges\nFiltering a set of 16384 edges (2418/2586 clusters). Pass 3, 3275 triangles, 8 filtered edges\nFiltering a set of 16376 edges (2418/2586 clusters). Pass 4, 3264 triangles, 2 filtered edges\nFiltering a set of 16374 edges (2418/2586 clusters). Pass 5, 3261 triangles, 1 filtered edges\nFiltering a set of 16373 edges (2418/2586 clusters). Pass 6, 3260 triangles, 0 filtered edges\nFiltering a set of 64 edges (2419/2586 clusters) \nFiltering a set of 64 edges (2419/2586 clusters). Pass 0, 201 triangles, 11 filtered edges\nFiltering a set of 66 edges (2420/2586 clusters) \nFiltering a set of 66 edges (2420/2586 clusters). Pass 0, 220 triangles, 23 filtered edges\nFiltering a set of 43 edges (2420/2586 clusters). Pass 1, 59 triangles, 5 filtered edges\nFiltering a set of 38 edges (2420/2586 clusters). Pass 2, 52 triangles, 1 filtered edges\nFiltering a set of 37 edges (2420/2586 clusters). Pass 3, 51 triangles, 0 filtered edges\nFiltering a set of 66 edges (2421/2586 clusters) \nFiltering a set of 66 edges (2421/2586 clusters). Pass 0, 220 triangles, 30 filtered edges\nFiltering a set of 36 edges (2421/2586 clusters). Pass 1, 26 triangles, 5 filtered edges\nFiltering a set of 31 edges (2421/2586 clusters). Pass 2, 20 triangles, 0 filtered edges\nFiltering a set of 66 edges (2422/2586 clusters) \nFiltering a set of 66 edges (2422/2586 clusters). Pass 0, 220 triangles, 33 filtered edges\nFiltering a set of 33 edges (2422/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 67 edges (2423/2586 clusters) \nFiltering a set of 67 edges (2423/2586 clusters). Pass 0, 204 triangles, 31 filtered edges\nFiltering a set of 68 edges (2424/2586 clusters) \nFiltering a set of 68 edges (2424/2586 clusters). Pass 0, 178 triangles, 43 filtered edges\nFiltering a set of 68 edges (2425/2586 clusters) \nFiltering a set of 68 edges (2425/2586 clusters). Pass 0, 170 triangles, 8 filtered edges\nFiltering a set of 68 edges (2426/2586 clusters) \nFiltering a set of 68 edges (2426/2586 clusters). Pass 0, 144 triangles, 27 filtered edges\nFiltering a set of 41 edges (2426/2586 clusters). Pass 1, 10 triangles, 4 filtered edges\nFiltering a set of 37 edges (2426/2586 clusters). Pass 2, 6 triangles, 0 filtered edges\nFiltering a set of 68 edges (2427/2586 clusters) \nFiltering a set of 68 edges (2427/2586 clusters). Pass 0, 153 triangles, 18 filtered edges\nFiltering a set of 50 edges (2427/2586 clusters). Pass 1, 33 triangles, 10 filtered edges\nFiltering a set of 40 edges (2427/2586 clusters). Pass 2, 22 triangles, 2 filtered edges\nFiltering a set of 38 edges (2427/2586 clusters). Pass 3, 20 triangles, 0 filtered edges\nFiltering a set of 69 edges (2428/2586 clusters) \nFiltering a set of 69 edges (2428/2586 clusters). Pass 0, 204 triangles, 30 filtered edges\nFiltering a set of 39 edges (2428/2586 clusters). Pass 1, 24 triangles, 6 filtered edges\nFiltering a set of 33 edges (2428/2586 clusters). Pass 2, 13 triangles, 3 filtered edges\nFiltering a set of 30 edges (2428/2586 clusters). Pass 3, 9 triangles, 1 filtered edges\nFiltering a set of 29 edges (2428/2586 clusters). Pass 4, 8 triangles, 0 filtered edges\nFiltering a set of 69 edges (2429/2586 clusters) \nFiltering a set of 69 edges (2429/2586 clusters). Pass 0, 115 triangles, 2 filtered edges\nFiltering a set of 67 edges (2429/2586 clusters). Pass 1, 9 triangles, 1 filtered edges\nFiltering a set of 66 edges (2429/2586 clusters). Pass 2, 8 triangles, 0 filtered edges\nFiltering a set of 70 edges (2430/2586 clusters) \nFiltering a set of 70 edges (2430/2586 clusters). Pass 0, 190 triangles, 12 filtered edges\nFiltering a set of 71 edges (2431/2586 clusters) \nFiltering a set of 71 edges (2431/2586 clusters). Pass 0, 123 triangles, 4 filtered edges\nFiltering a set of 67 edges (2431/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 71 edges (2432/2586 clusters) \nFiltering a set of 71 edges (2432/2586 clusters). Pass 0, 158 triangles, 21 filtered edges\nFiltering a set of 50 edges (2432/2586 clusters). Pass 1, 8 triangles, 1 filtered edges\nFiltering a set of 49 edges (2432/2586 clusters). Pass 2, 7 triangles, 0 filtered edges\nFiltering a set of 71 edges (2433/2586 clusters) \nFiltering a set of 71 edges (2433/2586 clusters). Pass 0, 226 triangles, 13 filtered edges\nFiltering a set of 58 edges (2433/2586 clusters). Pass 1, 41 triangles, 6 filtered edges\nFiltering a set of 52 edges (2433/2586 clusters). Pass 2, 35 triangles, 0 filtered edges\nFiltering a set of 72 edges (2434/2586 clusters) \nFiltering a set of 72 edges (2434/2586 clusters). Pass 0, 172 triangles, 17 filtered edges\nFiltering a set of 55 edges (2434/2586 clusters). Pass 1, 1 triangles, 0 filtered edges\nFiltering a set of 73 edges (2435/2586 clusters) \nFiltering a set of 73 edges (2435/2586 clusters). Pass 0, 167 triangles, 22 filtered edges\nFiltering a set of 74 edges (2436/2586 clusters) \nFiltering a set of 74 edges (2436/2586 clusters). Pass 0, 222 triangles, 15 filtered edges\nFiltering a set of 59 edges (2436/2586 clusters). Pass 1, 78 triangles, 10 filtered edges\nFiltering a set of 49 edges (2436/2586 clusters). Pass 2, 53 triangles, 6 filtered edges\nFiltering a set of 43 edges (2436/2586 clusters). Pass 3, 40 triangles, 2 filtered edges\nFiltering a set of 41 edges (2436/2586 clusters). Pass 4, 36 triangles, 2 filtered edges\nFiltering a set of 39 edges (2436/2586 clusters). Pass 5, 33 triangles, 0 filtered edges\nFiltering a set of 75 edges (2437/2586 clusters) \nFiltering a set of 75 edges (2437/2586 clusters). Pass 0, 125 triangles, 24 filtered edges\nFiltering a set of 75 edges (2438/2586 clusters) \nFiltering a set of 75 edges (2438/2586 clusters). Pass 0, 224 triangles, 10 filtered edges\nFiltering a set of 65 edges (2438/2586 clusters). Pass 1, 136 triangles, 7 filtered edges\nFiltering a set of 58 edges (2438/2586 clusters). Pass 2, 101 triangles, 7 filtered edgesTraceback (most recent call last):\n File \"/home/sweaver/programming/hivtrace/edge/bin/hivnetworkcsv\", line 7, in \n exec(compile(f.read(), __file__, 'exec'))\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 107, in \n make_hiv_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/scripts/hivnetworkcsv\", line 13, in make_hiv_network\n network = build_a_network()\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 647, in build_a_network\n total_removed += handle_a_cluster (current_edge_set, cluster_count, len (edges_by_clusters))\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/networkbuild.py\", line 582, in handle_a_cluster\n edge_stats = network.test_edge_support(referenced_sequence_data, *network.find_all_simple_cycles(edge_set, maximum_number = maximum_number, ignore_this_set = supported_triangles), supported_cycles = supported_triangles)\n File \"/home/sweaver/programming/hivtrace/hivclustering/hivclustering/mtnetwork.py\", line 2213, in test_edge_support\n pool = multiprocessing.Pool()\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 119, in Pool\n context=self.get_context())\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 175, in __init__\n self._repopulate_pool()\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 236, in _repopulate_pool\n self._wrap_exception)\n File \"/usr/lib64/python3.6/multiprocessing/pool.py\", line 255, in _repopulate_pool_static\n w.start()\n File \"/usr/lib64/python3.6/multiprocessing/process.py\", line 105, in start\n self._popen = self._Popen(self)\n File \"/usr/lib64/python3.6/multiprocessing/context.py\", line 277, in _Popen\n return Popen(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 19, in __init__\n self._launch(process_obj)\n File \"/usr/lib64/python3.6/multiprocessing/popen_fork.py\", line 66, in _launch\n self.pid = os.fork()\nOSError: [Errno 12] Cannot allocate memory\n"}