INFO     12/09 16:33:31   antiSMASH version: 8.dev-cf2fc5ee(changed)
INFO     12/09 16:33:31   diamond using executable: /usr/bin/diamond-aligner (2.1.3)
INFO     12/09 16:33:34   hmmpfam2 using executable: /usr/bin/hmm2pfam (2.3.2)
INFO     12/09 16:33:34   fasttree using executable: /usr/bin/fasttree
INFO     12/09 16:33:34   hmmsearch using executable: /usr/bin/hmmsearch (3.3.2)
INFO     12/09 16:33:34   hmmpress using executable: /usr/bin/hmmpress (3.3.2)
INFO     12/09 16:33:35   hmmscan using executable: /usr/bin/hmmscan (3.3.2)
INFO     12/09 16:33:35   meme using executable: /usr/bin/meme (4.11.2)
INFO     12/09 16:33:36   fimo using executable: /usr/bin/fimo (4.11.2)
INFO     12/09 16:33:37   prodigal using executable: /usr/bin/prodigal (V2.6.3)
INFO     12/09 16:33:37   blastp using executable: /usr/bin/blastp (2.12.0+)
INFO     12/09 16:33:40   makeblastdb using executable: /usr/bin/makeblastdb (2.12.0+)
DEBUG    12/09 16:33:40   Checking prerequisites for antismash.detection.hmm_detection
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/hmm_detection/data/bgc_seeds.hmm.h3p'
DEBUG    12/09 16:33:40   Checking prerequisites for antismash.detection.genefunctions
DEBUG    12/09 16:33:40   Found file '/databases/resfam/Resfams.hmm'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/extras.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/extras.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/extras.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/extras.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/halogenases/data/FDH.hmm'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/halogenases/data/FDH.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/halogenases/data/FDH.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/halogenases/data/FDH.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/halogenases/data/FDH.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/databases/mite/1.3/metadata.json'
DEBUG    12/09 16:33:40   Found file '/databases/mite/1.3/mite.fasta'
DEBUG    12/09 16:33:40   Found file '/databases/mite/1.3/mite.db.dmnd'
DEBUG    12/09 16:33:40   Found file '/databases/mite/1.3/mite.db.dmnd'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/smcogs.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/smcogs.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/smcogs.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/genefunctions/tools/data/smcogs.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/databases/resfam/Resfams.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/databases/resfam/Resfams.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/databases/resfam/Resfams.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/databases/resfam/Resfams.hmm.h3p'
DEBUG    12/09 16:33:40   Checking prerequisites for antismash.detection.nrps_pks_domains
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/abmotifs.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/abmotifs.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/abmotifs.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/abmotifs.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/dockingdomains.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/dockingdomains.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/dockingdomains.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/dockingdomains.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/ksdomains.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/ksdomains.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/ksdomains.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/ksdomains.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/nrpspksdomains.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/nrpspksdomains.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/nrpspksdomains.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/detection/nrps_pks_domains/data/nrpspksdomains.hmm.h3p'
DEBUG    12/09 16:33:40   Found file '/databases/nrps_pks/transATor/2023.02.23/transATor.hmm.h3f'
DEBUG    12/09 16:33:40   Found file '/databases/nrps_pks/transATor/2023.02.23/transATor.hmm.h3i'
DEBUG    12/09 16:33:40   Found file '/databases/nrps_pks/transATor/2023.02.23/transATor.hmm.h3m'
DEBUG    12/09 16:33:40   Found file '/databases/nrps_pks/transATor/2023.02.23/transATor.hmm.h3p'
DEBUG    12/09 16:33:40   Checking prerequisites for antismash.modules.active_site_finder
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-KR.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-KS_N.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-KS_C.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-AT.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-ACP.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-DH.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/Thioesterase.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/PKSI-ER.hmm2'
DEBUG    12/09 16:33:40   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/active_site_finder/data/p450.hmm2'
DEBUG    12/09 16:33:40   Checking prerequisites for antismash.modules.cluster_compare
DEBUG    12/09 16:33:40   Found file '/databases/clustercompare/mibig/4.0/data.json'
DEBUG    12/09 16:33:40   Found file '/databases/clustercompare/mibig/4.0/proteins.fasta'
DEBUG    12/09 16:33:40   Found file '/databases/clustercompare/mibig/4.0/proteins.dmnd'
DEBUG    12/09 16:33:43   Found file '/databases/clustercompare/mibig/4.0/proteins.dmnd'
DEBUG    12/09 16:33:43   Checking prerequisites for antismash.modules.clusterblast
DEBUG    12/09 16:33:43   Found file '/databases/knownclusterblast/4.0/clusters.txt'
DEBUG    12/09 16:33:43   Found file '/databases/knownclusterblast/4.0/proteins.fasta'
DEBUG    12/09 16:33:43   Found file '/databases/knownclusterblast/4.0/proteins.dmnd'
DEBUG    12/09 16:33:43   Found file '/databases/knownclusterblast/4.0/proteins.dmnd'
DEBUG    12/09 16:33:43   Found file '/databases/clusterblast/clusters.txt'
DEBUG    12/09 16:33:43   Found file '/databases/clusterblast/proteins.fasta'
DEBUG    12/09 16:33:43   Found file '/databases/clusterblast/proteins.dmnd'
DEBUG    12/09 16:33:45   Found file '/databases/clusterblast/proteins.dmnd'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/clusterblast/data/sub/proteins.fasta'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/clusterblast/data/sub/proteins.fasta.phr'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/clusterblast/data/sub/proteins.fasta.pin'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/clusterblast/data/sub/proteins.fasta.psq'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/clusterblast/data/sub/clusters.txt'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.lanthipeptides
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.pdb'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.phr'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.pin'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.pot'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.psq'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.ptf'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/asdb/4.0/cores.fa.pto'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.pdb'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.phr'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.pin'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.pot'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.psq'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.ptf'
DEBUG    12/09 16:33:45   Found file '/databases/comparippson/mibig/4.0/cores.fa.pto'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.lassopeptides
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.nrps_pks
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/data/terminals/cterm.fasta
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/data/terminals/nterm.fasta
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/at_analysis/data/AT_domains_muscle.fasta
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/c_analysis/data/Rausch_C_203.fa
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/kr_analysis/data/KRdomains_muscle.fasta
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/minowa/data/AT_domains_muscle.fasta
DEBUG    12/09 16:33:45   Found existing cache for /usr/local/lib/python3.11/dist-packages/antismash/modules/nrps_pks/minowa/data/CAL_domains_muscle.fasta
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.rrefinder
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/rrefinder/data/RREFam.hmm.h3f'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/rrefinder/data/RREFam.hmm.h3i'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/rrefinder/data/RREFam.hmm.h3m'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/rrefinder/data/RREFam.hmm.h3p'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.sactipeptides
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.t2pks
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/KSIII.fasta'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/KSIII.phr'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/KSIII.pin'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/KSIII.psq'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/AT.fasta'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/AT.phr'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/AT.pin'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/AT.psq'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/LIG.fasta'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/LIG.phr'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/LIG.pin'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/LIG.psq'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/t2pks.hmm.h3f'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/t2pks.hmm.h3i'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/t2pks.hmm.h3m'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/t2pks/data/t2pks.hmm.h3p'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.terpene
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/terpene/data/all_profiles.hmm'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/terpene/data/all_profiles.hmm.h3f'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/terpene/data/all_profiles.hmm.h3i'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/terpene/data/all_profiles.hmm.h3m'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/terpene/data/all_profiles.hmm.h3p'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.thiopeptides
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/thiopeptides/data/thiopep3.hmm.h3f'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/thiopeptides/data/thiopep3.hmm.h3i'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/thiopeptides/data/thiopep3.hmm.h3m'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/modules/thiopeptides/data/thiopep3.hmm.h3p'
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.modules.tta
DEBUG    12/09 16:33:45   Checking prerequisites for antismash.outputs.html
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/outputs/html/css/bacteria.css'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/outputs/html/css/fungi.css'
DEBUG    12/09 16:33:45   Found file '/usr/local/lib/python3.11/dist-packages/antismash/outputs/html/css/plants.css'
DEBUG    12/09 16:33:45   Checking options for antismash.detection.hmm_detection
DEBUG    12/09 16:33:45   Checking options for antismash.detection.genefunctions
DEBUG    12/09 16:33:45   Checking options for antismash.detection.nrps_pks_domains
DEBUG    12/09 16:33:45   Checking options for antismash.modules.active_site_finder
DEBUG    12/09 16:33:45   Checking options for antismash.modules.cluster_compare
DEBUG    12/09 16:33:45   Checking options for antismash.modules.clusterblast
DEBUG    12/09 16:33:45   Checking options for antismash.modules.lanthipeptides
DEBUG    12/09 16:33:45   Checking options for antismash.modules.lassopeptides
DEBUG    12/09 16:33:45   Checking options for antismash.modules.nrps_pks
DEBUG    12/09 16:33:45   Checking options for antismash.modules.rrefinder
DEBUG    12/09 16:33:45   Checking options for antismash.modules.sactipeptides
DEBUG    12/09 16:33:45   Checking options for antismash.modules.t2pks
DEBUG    12/09 16:33:45   Checking options for antismash.modules.terpene
DEBUG    12/09 16:33:45   Checking options for antismash.modules.thiopeptides
DEBUG    12/09 16:33:45   Checking options for antismash.modules.tta
DEBUG    12/09 16:33:45   Checking options for antismash.outputs.html
DEBUG    12/09 16:33:45   Attempting to reuse previous results in: /input/GCF_003111765.1.json.gz
DEBUG    12/09 16:33:59   Removing existing region genbank files
DEBUG    12/09 16:33:59   Reusing output directory: /output/GCF_003111765.1
DEBUG    12/09 16:33:59   Preprocessing 1 sequences
DEBUG    12/09 16:33:59   Removing sequences smaller than 1000 bases
INFO     12/09 16:33:59   Analysing record: NZ_CP027862.1
INFO     12/09 16:33:59   Detecting secondary metabolite clusters
DEBUG    12/09 16:33:59   Regenerating results for antismash.detection.hmm_detection
DEBUG    12/09 16:33:59   Checking if antismash.detection.hmm_detection should be run
INFO     12/09 16:33:59   Running antismash.detection.hmm_detection
DEBUG    12/09 16:33:59   2 protoclusters found
DEBUG    12/09 16:33:59   0 subregions found
INFO     12/09 16:33:59   2 region(s) detected in record
DEBUG    12/09 16:33:59   Regenerating results for antismash.detection.genefunctions
DEBUG    12/09 16:33:59   Checking if antismash.detection.genefunctions should be run
INFO     12/09 16:33:59   Running antismash.detection.genefunctions
DEBUG    12/09 16:33:59   Adding detection results from antismash.detection.genefunctions to record
DEBUG    12/09 16:33:59   annotating CDS features with extras info: 0 CDSes
DEBUG    12/09 16:33:59   annotating CDS features with halogenases info: 0 CDSes
DEBUG    12/09 16:33:59   annotating CDS features with MITE info: 0 CDSes
DEBUG    12/09 16:33:59   annotating CDS features with resist info: 0 CDSes
DEBUG    12/09 16:33:59   annotating CDS features with smcogs info: 14 CDSes
DEBUG    12/09 16:33:59   Regenerating results for antismash.detection.nrps_pks_domains
DEBUG    12/09 16:33:59   Checking if antismash.detection.nrps_pks_domains should be run
INFO     12/09 16:33:59   Running antismash.detection.nrps_pks_domains
DEBUG    12/09 16:33:59   Marking NRPS/PKS CDS features and domains in clusters
DEBUG    12/09 16:33:59   Adding detection results from antismash.detection.nrps_pks_domains to record
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.active_site_finder
DEBUG    12/09 16:33:59   Checking if antismash.modules.active_site_finder should be run
INFO     12/09 16:33:59   Running antismash.modules.active_site_finder
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.cluster_compare
DEBUG    12/09 16:33:59   Checking if antismash.modules.cluster_compare should be run
INFO     12/09 16:33:59   Running antismash.modules.cluster_compare
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.clusterblast
DEBUG    12/09 16:33:59   Regenerating clusterblast subresults: subcluster
DEBUG    12/09 16:33:59   Regenerating clusterblast subresults: knowncluster
DEBUG    12/09 16:33:59   Checking if antismash.modules.clusterblast should be run
INFO     12/09 16:33:59   Running antismash.modules.clusterblast
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.lanthipeptides
DEBUG    12/09 16:33:59   Reusing Lanthipeptide results: 1 clusters contained 18 total motifs
DEBUG    12/09 16:33:59   Checking if antismash.modules.lanthipeptides should be run
INFO     12/09 16:33:59   Running antismash.modules.lanthipeptides
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.lassopeptides
DEBUG    12/09 16:33:59   Checking if antismash.modules.lassopeptides should be run
INFO     12/09 16:33:59   Running antismash.modules.lassopeptides
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.nrps_pks
DEBUG    12/09 16:33:59   Checking if antismash.modules.nrps_pks should be run
INFO     12/09 16:33:59   Running antismash.modules.nrps_pks
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.rrefinder
DEBUG    12/09 16:33:59   Checking if antismash.modules.rrefinder should be run
INFO     12/09 16:33:59   Running antismash.modules.rrefinder
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.sactipeptides
DEBUG    12/09 16:33:59   Checking if antismash.modules.sactipeptides should be run
INFO     12/09 16:33:59   Running antismash.modules.sactipeptides
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.t2pks
DEBUG    12/09 16:33:59   Checking if antismash.modules.t2pks should be run
INFO     12/09 16:33:59   Running antismash.modules.t2pks
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.terpene
DEBUG    12/09 16:33:59   Checking if antismash.modules.terpene should be run
INFO     12/09 16:33:59   Running antismash.modules.terpene
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.tfbs_finder
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.thiopeptides
DEBUG    12/09 16:33:59   Reusing Thiopeptide results: 0 clusters contained 0 total motifs
DEBUG    12/09 16:33:59   Checking if antismash.modules.thiopeptides should be run
INFO     12/09 16:33:59   Running antismash.modules.thiopeptides
DEBUG    12/09 16:33:59   Regenerating results for antismash.modules.tta
DEBUG    12/09 16:33:59   Checking if antismash.modules.tta should be run
INFO     12/09 16:33:59   Running antismash.modules.tta
INFO     12/09 16:33:59   Writing results
DEBUG    12/09 16:33:59   Writing json results to '/output/GCF_003111765.1/GCF_003111765.1.json'
DEBUG    12/09 16:33:59   Record NZ_CP027862.1 has results for modules: hmm_detection, genefunctions, nrps_pks_domains, active_site_finder, cluster_compare, clusterblast, lanthipeptides, lassopeptides, nrps_pks, rrefinder, sactipeptides, t2pks, terpene, tfbs_finder, thiopeptides, tta
DEBUG    12/09 16:33:59   Converting antismash.detection.hmm_detection results to json
DEBUG    12/09 16:33:59   Converting antismash.detection.genefunctions results to json
DEBUG    12/09 16:33:59   Converting antismash.detection.nrps_pks_domains results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.active_site_finder results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.cluster_compare results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.clusterblast results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.lanthipeptides results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.lassopeptides results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.nrps_pks results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.rrefinder results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.sactipeptides results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.t2pks results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.terpene results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.tfbs_finder results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.thiopeptides results to json
DEBUG    12/09 16:33:59   Converting antismash.modules.tta results to json
DEBUG    12/09 16:34:05   Annotating record NZ_CP027862.1 with results from: hmm_detection, genefunctions, nrps_pks_domains, active_site_finder, cluster_compare, clusterblast, lanthipeptides, lassopeptides, nrps_pks, rrefinder, sactipeptides, t2pks, terpene, tfbs_finder, thiopeptides, tta
DEBUG    12/09 16:34:05    Adding results from antismash.modules.active_site_finder
DEBUG    12/09 16:34:05    Adding results from antismash.modules.cluster_compare
DEBUG    12/09 16:34:05    Adding results from antismash.modules.clusterblast
DEBUG    12/09 16:34:05    Adding results from antismash.modules.lanthipeptides
DEBUG    12/09 16:34:05    Adding results from antismash.modules.lassopeptides
DEBUG    12/09 16:34:05    Adding results from antismash.modules.nrps_pks
DEBUG    12/09 16:34:05    Adding results from antismash.modules.rrefinder
DEBUG    12/09 16:34:05    Adding results from antismash.modules.sactipeptides
DEBUG    12/09 16:34:05    Adding results from antismash.modules.t2pks
DEBUG    12/09 16:34:05    Adding results from antismash.modules.terpene
DEBUG    12/09 16:34:05    Adding results from antismash.modules.tfbs_finder
DEBUG    12/09 16:34:05    Adding results from antismash.modules.thiopeptides
DEBUG    12/09 16:34:05    Adding results from antismash.modules.tta
DEBUG    12/09 16:34:05   Writing non-HTML output files
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.detection.hmm_detection
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.detection.genefunctions
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.detection.nrps_pks_domains
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.modules.active_site_finder
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.modules.cluster_compare
DEBUG    12/09 16:34:05    Writing relevant output files for antismash.modules.clusterblast
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.lanthipeptides
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.lassopeptides
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.nrps_pks
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.rrefinder
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.sactipeptides
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.t2pks
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.terpene
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.tfbs_finder
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.thiopeptides
DEBUG    12/09 16:34:13    Writing relevant output files for antismash.modules.tta
DEBUG    12/09 16:34:13   Creating results page
DEBUG    12/09 16:34:20   Results page using antismash.js from local copy: /databases/as-js/0.16/antismash.js
DEBUG    12/09 16:35:34   Writing cluster-specific genbank files
DEBUG    12/09 16:35:35   Writing final genbank file to '/output/GCF_003111765.1/GCF_003111765.1.gbk'
DEBUG    12/09 16:35:38   Zipping output to '/output/GCF_003111765.1/GCF_003111765.1.zip'
