09/01/2020 05:20:51 AM - humann.humann - INFO: Running humann v3.0.0.alpha.4
09/01/2020 05:20:51 AM - humann.humann - INFO: Output files will be written to: /data/Desktop/erp002469/kneaddata_output/deconta/humann_output
09/01/2020 05:20:51 AM - humann.humann - INFO: Writing temp files to directory: /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg
09/01/2020 05:20:51 AM - humann.utilities - INFO: File ( /data/Desktop/erp002469/kneaddata_output/deconta/ERR260171_1_kneaddata.fastq.gz ) is of format:  fastq.gz
09/01/2020 05:20:51 AM - humann.utilities - INFO: Decompressing gzipped file ...
09/01/2020 05:25:46 AM - humann.utilities - DEBUG: Check software, metaphlan, for required version, 3.0
09/01/2020 05:25:55 AM - humann.utilities - INFO: Using metaphlan version 3.0
09/01/2020 05:25:55 AM - humann.utilities - DEBUG: Check software, bowtie2, for required version, 2.2
09/01/2020 05:25:56 AM - humann.utilities - WARNING: Can not call software version for bowtie2
09/01/2020 05:25:56 AM - humann.utilities - INFO: Using bowtie2 version UNK
09/01/2020 05:25:56 AM - humann.humann - INFO: Search mode set to uniref90 because a uniref90 translated search database is selected
09/01/2020 05:25:56 AM - humann.utilities - DEBUG: Check software, diamond, for required version, 0.9.24
09/01/2020 05:25:57 AM - humann.utilities - INFO: Using diamond version 2.0.2
09/01/2020 05:25:57 AM - humann.config - INFO: 
Run config settings: 

DATABASE SETTINGS
nucleotide database folder = /home/deepchandaaws/human_db/chocophlan
protein database folder = /home/deepchandaaws/human_db/uniref
pathways database file 1 = /home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/site-packages/humann/data/pathways/metacyc_reactions_level4ec_only.uniref.bz2
pathways database file 2 = /home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/site-packages/humann/data/pathways/metacyc_pathways_structured_filtered
utility mapping database folder = /home/deepchandaaws/human_db/utility_mapping

RUN MODES
resume = False
verbose = False
bypass prescreen = False
bypass nucleotide index = False
bypass nucleotide search = False
bypass translated search = False
translated search = diamond
pick frames = off
threads = 1

SEARCH MODE
search mode = uniref90
nucleotide identity threshold = 0.0
translated identity threshold = 80.0

ALIGNMENT SETTINGS
bowtie2 options = --very-sensitive
diamond options = --top 1 --outfmt 6
evalue threshold = 1.0
prescreen threshold = 0.01
translated subject coverage threshold = 50.0
translated query coverage threshold = 90.0
nucleotide subject coverage threshold = 50.0
nucleotide query coverage threshold = 90.0

PATHWAYS SETTINGS
minpath = on
xipe = off
gap fill = on

INPUT AND OUTPUT FORMATS
input file format = fastq.gz
output file format = tsv
output max decimals = 10
remove stratified output = False
remove column description output = False
log level = DEBUG

09/01/2020 05:25:57 AM - humann.store - DEBUG: Initialize Alignments class instance to minimize memory use
09/01/2020 05:25:57 AM - humann.store - DEBUG: Initialize Reads class instance to minimize memory use
09/01/2020 05:26:24 AM - humann.humann - INFO: Load pathways database part 1: /home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/site-packages/humann/data/pathways/metacyc_reactions_level4ec_only.uniref.bz2
09/01/2020 05:26:24 AM - humann.humann - INFO: Load pathways database part 2: /home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/site-packages/humann/data/pathways/metacyc_pathways_structured_filtered
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_cellulosilyticus : 16.30% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Fusicatenibacter.s__Fusicatenibacter_saccharivorans : 7.24% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Faecalibacterium.s__Faecalibacterium_prausnitzii : 6.79% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Roseburia.s__Roseburia_faecis : 5.37% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_vulgatus : 5.04% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_sp_CAG_180 : 4.96% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Gemmiger.s__Gemmiger_formicilis : 4.60% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruminococcus.s__Ruminococcus_bicirculans : 4.23% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Roseburia.s__Roseburia_hominis : 2.86% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Anaerostipes.s__Anaerostipes_hadrus : 2.73% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Collinsella.s__Collinsella_aerofaciens : 2.59% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Phascolarctobacterium.s__Phascolarctobacterium_sp_CAG_266 : 2.49% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Blautia.s__Blautia_obeum : 2.41% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Alistipes.s__Alistipes_putredinis : 2.36% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Agathobaculum.s__Agathobaculum_butyriciproducens : 2.00% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Streptococcus.s__Streptococcus_thermophilus : 1.90% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_uniformis : 1.79% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Coprococcus.s__Coprococcus_eutactus : 1.72% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Akkermansia.s__Akkermansia_muciniphila : 1.46% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Parabacteroides.s__Parabacteroides_distasonis : 1.40% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_hallii : 1.39% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Roseburia.s__Roseburia_intestinalis : 1.26% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Alistipes.s__Alistipes_finegoldii : 1.23% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bifidobacterium.s__Bifidobacterium_longum : 1.21% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_83 : 1.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Asaccharobacter.s__Asaccharobacter_celatus : 0.86% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Parabacteroides.s__Parabacteroides_merdae : 0.77% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Dorea.s__Dorea_formicigenerans : 0.70% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Anaerotignum.s__Anaerotignum_lactatifermentans : 0.59% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Blautia.s__Ruminococcus_torques : 0.59% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Alistipes.s__Alistipes_shahii : 0.55% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Blautia.s__Blautia_wexlerae : 0.54% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_ramulus : 0.50% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Clostridium.s__Clostridium_sp_CAG_58 : 0.49% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Coprococcus.s__Coprococcus_catus : 0.48% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Clostridium.s__Clostridium_sp_CAG_253 : 0.43% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Dorea.s__Dorea_sp_CAG_317 : 0.43% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_eligens : 0.42% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_94 : 0.41% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_clarus : 0.37% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_intestinalis : 0.37% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Butyrivibrio.s__Butyrivibrio_crossotus : 0.34% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bilophila.s__Bilophila_wadsworthia : 0.34% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Dorea.s__Dorea_longicatena : 0.34% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Adlercreutzia.s__Adlercreutzia_equolifaciens : 0.29% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Coprococcus.s__Coprococcus_comes : 0.25% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bifidobacterium.s__Bifidobacterium_pseudocatenulatum : 0.20% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruthenibacterium.s__Ruthenibacterium_lactatiformans : 0.19% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_xylanisolvens : 0.18% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Flavonifractor.s__Flavonifractor_plautii : 0.17% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Roseburia.s__Roseburia_inulinivorans : 0.17% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Alistipes.s__Alistipes_inops : 0.16% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_145 : 0.16% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_fragilis : 0.15% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Barnesiella.s__Barnesiella_intestinihominis : 0.14% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Faecalitalea.s__Faecalitalea_cylindroides : 0.14% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruminococcus.s__Ruminococcus_lactaris : 0.12% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_ventriosum : 0.12% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lachnospiraceae_unclassified.s__Eubacterium_rectale : 0.11% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eggerthella.s__Eggerthella_lenta : 0.10% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Roseburia.s__Roseburia_sp_CAG_303 : 0.09% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Escherichia.s__Escherichia_coli : 0.09% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_caccae : 0.09% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Oscillibacter.s__Oscillibacter_sp_CAG_241 : 0.09% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruminococcus.s__Ruminococcus_bromii : 0.09% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eubacterium.s__Eubacterium_sp_CAG_38 : 0.08% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lawsonibacter.s__Lawsonibacter_asaccharolyticus : 0.08% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Allisonella.s__Allisonella_histaminiformans : 0.08% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Intestinimonas.s__Intestinimonas_butyriciproducens : 0.07% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lactobacillus.s__Lactobacillus_delbrueckii : 0.05% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_thetaiotaomicron : 0.05% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Gordonibacter.s__Gordonibacter_pamelaeae : 0.05% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Streptococcus.s__Streptococcus_parasanguinis : 0.05% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Bacteroides.s__Bacteroides_ovatus : 0.04% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Butyricimonas.s__Butyricimonas_synergistica : 0.03% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Odoribacter.s__Odoribacter_splanchnicus : 0.03% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Collinsella.s__Collinsella_stercoris : 0.03% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Streptococcus.s__Streptococcus_salivarius : 0.03% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruminococcaceae_unclassified.s__Ruminococcaceae_bacterium_D16 : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Holdemania.s__Holdemania_filiformis : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lachnoclostridium.s__Lachnoclostridium_sp_An131 : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Enterorhabdus.s__Enterorhabdus_caecimuris : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lachnoclostridium.s__Clostridium_lavalense : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Eisenbergiella.s__Eisenbergiella_tayi : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Ruminococcaceae_unclassified.s__Clostridium_leptum : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Anaerotruncus.s__Anaerotruncus_colihominis : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Enorma.s__[Collinsella]_massiliensis : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lachnospira.s__Lachnospira_pectinoschiza : 0.02% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Coprobacter.s__Coprobacter_fastidiosus : 0.01% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Actinomyces.s__Actinomyces_sp_ICM47 : 0.01% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Lachnoclostridium.s__Clostridium_bolteae : 0.01% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Actinomyces.s__Actinomyces_odontolyticus : 0.01% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Found g__Dielma.s__Dielma_fastidiosa : 0.01% of mapped reads
09/01/2020 05:26:24 AM - humann.search.prescreen - INFO: Total species selected from prescreen: 93
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprococcus.s__Coprococcus_eutactus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dorea.s__Dorea_longicatena_CAG_42.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_145.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_ovatus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Clostridium.s__Clostridium_sp_CAG_253.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_vulgatus_CAG_6.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_intestinalis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_fragilis_CAG_47.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_eligens_CAG_72.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_faecis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprococcus.s__Coprococcus_eutactus_CAG_665.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Alistipes.s__Alistipes_putredinis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruminococcus.s__Ruminococcus_bromii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Butyrivibrio.s__Butyrivibrio_crossotus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprococcus.s__Coprococcus_catus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lachnospira.s__Lachnospira_pectinoschiza.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Phascolarctobacterium.s__Phascolarctobacterium_sp_CAG_266.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruminococcaceae_unclassified.s__Clostridium_leptum.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Streptococcus.s__Streptococcus_salivarius_CAG_79.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Fusicatenibacter.s__Fusicatenibacter_saccharivorans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_xylanisolvens.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lachnoclostridium.s__Lachnoclostridium_sp_An131.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bilophila.s__Bilophila_wadsworthia.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_inulinivorans_CAG_15.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_intestinalis_CAG_13.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lachnoclostridium.s__Clostridium_bolteae.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Flavonifractor.s__Flavonifractor_plautii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Faecalibacterium.s__Faecalibacterium_prausnitzii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Holdemania.s__Holdemania_filiformis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lachnospiraceae_unclassified.s__Eubacterium_rectale.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Blautia.s__Ruminococcus_torques.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_fragilis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_sp_CAG_303.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprococcus.s__Coprococcus_comes.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Alistipes.s__Alistipes_putredinis_CAG_67.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_intestinalis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_hallii_CAG_12.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bifidobacterium.s__Bifidobacterium_longum_CAG_69.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eisenbergiella.s__Eisenbergiella_tayi.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Streptococcus.s__Streptococcus_salivarius.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_83.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Clostridium.s__Clostridium_sp_CAG_58.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Akkermansia.s__Akkermansia_muciniphila.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Intestinimonas.s__Intestinimonas_butyriciproducens.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Actinomyces.s__Actinomyces_sp_ICM47.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_uniformis_CAG_3.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Streptococcus.s__Streptococcus_parasanguinis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bifidobacterium.s__Bifidobacterium_longum.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lachnoclostridium.s__Clostridium_lavalense.centroids.v296_201901.ffn.gz
09/01/2020 05:26:24 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_sp_CAG_38.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_clarus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_uniformis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Streptococcus.s__Streptococcus_thermophilus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_inulinivorans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Alistipes.s__Alistipes_finegoldii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Parabacteroides.s__Parabacteroides_merdae.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Gemmiger.s__Gemmiger_formicilis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Agathobaculum.s__Agathobaculum_butyriciproducens.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruminococcaceae_unclassified.s__Ruminococcaceae_bacterium_D16.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_thetaiotaomicron.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_sp_CAG_180.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Streptococcus.s__Streptococcus_thermophilus_CAG_236.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_hallii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_eligens.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Barnesiella.s__Barnesiella_intestinihominis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_caccae.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_94.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Blautia.s__Blautia_wexlerae.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lawsonibacter.s__Lawsonibacter_asaccharolyticus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_cellulosilyticus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Butyrivibrio.s__Butyrivibrio_crossotus_CAG_259.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Anaerotignum.s__Anaerotignum_lactatifermentans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_ramulus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eubacterium.s__Eubacterium_ventriosum.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Anaerotruncus.s__Anaerotruncus_colihominis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprobacter.s__Coprobacter_fastidiosus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Lactobacillus.s__Lactobacillus_delbrueckii.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Allisonella.s__Allisonella_histaminiformans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Anaerostipes.s__Anaerostipes_hadrus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dorea.s__Dorea_formicigenerans_CAG_28.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Parabacteroides.s__Parabacteroides_distasonis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dielma.s__Dielma_fastidiosa.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruminococcus.s__Ruminococcus_lactaris.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bacteroides.s__Bacteroides_vulgatus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dorea.s__Dorea_longicatena.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruthenibacterium.s__Ruthenibacterium_lactatiformans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Roseburia.s__Roseburia_hominis.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Actinomyces.s__Actinomyces_odontolyticus.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Oscillibacter.s__Oscillibacter_sp_CAG_241.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Escherichia.s__Escherichia_coli.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dorea.s__Dorea_formicigenerans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Bifidobacterium.s__Bifidobacterium_pseudocatenulatum.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Faecalitalea.s__Faecalitalea_cylindroides.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Eggerthella.s__Eggerthella_lenta.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Blautia.s__Blautia_obeum.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Dorea.s__Dorea_sp_CAG_317.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Ruminococcus.s__Ruminococcus_bicirculans.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - DEBUG: Adding file to database: g__Coprococcus.s__Coprococcus_comes_CAG_19.centroids.v296_201901.ffn.gz
09/01/2020 05:26:25 AM - humann.search.prescreen - INFO: Creating custom ChocoPhlAn database ........
09/01/2020 05:26:25 AM - humann.utilities - DEBUG: Using software: /bin/gunzip
09/01/2020 05:26:25 AM - humann.utilities - INFO: Execute command: /bin/gunzip -c /home/deepchandaaws/human_db/chocophlan/g__Coprococcus.s__Coprococcus_eutactus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dorea.s__Dorea_longicatena_CAG_42.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_145.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_ovatus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Clostridium.s__Clostridium_sp_CAG_253.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_vulgatus_CAG_6.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_intestinalis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_fragilis_CAG_47.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_eligens_CAG_72.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_faecis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Coprococcus.s__Coprococcus_eutactus_CAG_665.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Alistipes.s__Alistipes_putredinis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruminococcus.s__Ruminococcus_bromii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Butyrivibrio.s__Butyrivibrio_crossotus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Coprococcus.s__Coprococcus_catus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lachnospira.s__Lachnospira_pectinoschiza.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Phascolarctobacterium.s__Phascolarctobacterium_sp_CAG_266.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruminococcaceae_unclassified.s__Clostridium_leptum.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Streptococcus.s__Streptococcus_salivarius_CAG_79.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Fusicatenibacter.s__Fusicatenibacter_saccharivorans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_xylanisolvens.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lachnoclostridium.s__Lachnoclostridium_sp_An131.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bilophila.s__Bilophila_wadsworthia.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_inulinivorans_CAG_15.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_intestinalis_CAG_13.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lachnoclostridium.s__Clostridium_bolteae.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Flavonifractor.s__Flavonifractor_plautii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Faecalibacterium.s__Faecalibacterium_prausnitzii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Holdemania.s__Holdemania_filiformis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lachnospiraceae_unclassified.s__Eubacterium_rectale.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Blautia.s__Ruminococcus_torques.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_fragilis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_sp_CAG_303.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Coprococcus.s__Coprococcus_comes.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Alistipes.s__Alistipes_putredinis_CAG_67.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_intestinalis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_hallii_CAG_12.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bifidobacterium.s__Bifidobacterium_longum_CAG_69.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eisenbergiella.s__Eisenbergiella_tayi.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Streptococcus.s__Streptococcus_salivarius.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_83.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Clostridium.s__Clostridium_sp_CAG_58.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Akkermansia.s__Akkermansia_muciniphila.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Intestinimonas.s__Intestinimonas_butyriciproducens.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Actinomyces.s__Actinomyces_sp_ICM47.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_uniformis_CAG_3.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Streptococcus.s__Streptococcus_parasanguinis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bifidobacterium.s__Bifidobacterium_longum.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lachnoclostridium.s__Clostridium_lavalense.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_sp_CAG_38.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_clarus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_uniformis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Streptococcus.s__Streptococcus_thermophilus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_inulinivorans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Alistipes.s__Alistipes_finegoldii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Parabacteroides.s__Parabacteroides_merdae.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Gemmiger.s__Gemmiger_formicilis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Agathobaculum.s__Agathobaculum_butyriciproducens.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruminococcaceae_unclassified.s__Ruminococcaceae_bacterium_D16.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_thetaiotaomicron.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_sp_CAG_180.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Streptococcus.s__Streptococcus_thermophilus_CAG_236.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_hallii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_eligens.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Barnesiella.s__Barnesiella_intestinihominis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_caccae.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_94.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Blautia.s__Blautia_wexlerae.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lawsonibacter.s__Lawsonibacter_asaccharolyticus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_cellulosilyticus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Butyrivibrio.s__Butyrivibrio_crossotus_CAG_259.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Anaerotignum.s__Anaerotignum_lactatifermentans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_ramulus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eubacterium.s__Eubacterium_ventriosum.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Anaerotruncus.s__Anaerotruncus_colihominis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Coprobacter.s__Coprobacter_fastidiosus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Lactobacillus.s__Lactobacillus_delbrueckii.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Allisonella.s__Allisonella_histaminiformans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Anaerostipes.s__Anaerostipes_hadrus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dorea.s__Dorea_formicigenerans_CAG_28.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Parabacteroides.s__Parabacteroides_distasonis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dielma.s__Dielma_fastidiosa.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruminococcus.s__Ruminococcus_lactaris.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bacteroides.s__Bacteroides_vulgatus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dorea.s__Dorea_longicatena.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruthenibacterium.s__Ruthenibacterium_lactatiformans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Roseburia.s__Roseburia_hominis.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Actinomyces.s__Actinomyces_odontolyticus.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Oscillibacter.s__Oscillibacter_sp_CAG_241.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Escherichia.s__Escherichia_coli.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dorea.s__Dorea_formicigenerans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Bifidobacterium.s__Bifidobacterium_pseudocatenulatum.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Faecalitalea.s__Faecalitalea_cylindroides.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Eggerthella.s__Eggerthella_lenta.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Blautia.s__Blautia_obeum.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Dorea.s__Dorea_sp_CAG_317.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Ruminococcus.s__Ruminococcus_bicirculans.centroids.v296_201901.ffn.gz /home/deepchandaaws/human_db/chocophlan/g__Coprococcus.s__Coprococcus_comes_CAG_19.centroids.v296_201901.ffn.gz
09/01/2020 05:26:40 AM - humann.humann - INFO: TIMESTAMP: Completed 	custom database creation 	:	 16	 seconds
09/01/2020 05:26:40 AM - humann.search.nucleotide - INFO: Running bowtie2-build ........
09/01/2020 05:26:40 AM - humann.utilities - DEBUG: Using software: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/bowtie2-build
09/01/2020 05:26:40 AM - humann.utilities - INFO: Execute command: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/bowtie2-build -f /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_custom_chocophlan_database.ffn /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_index
09/01/2020 06:00:31 AM - humann.humann - INFO: TIMESTAMP: Completed 	database index 	:	 2031	 seconds
09/01/2020 06:00:31 AM - humann.search.nucleotide - DEBUG: Nucleotide input file is of type: fastq
09/01/2020 06:00:31 AM - humann.utilities - DEBUG: Using software: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/bowtie2
09/01/2020 06:00:31 AM - humann.utilities - INFO: Execute command: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/bowtie2 -q -x /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_index -U /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot/tmp7f009oyz -S /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_aligned.sam --very-sensitive
09/01/2020 08:42:50 AM - humann.utilities - DEBUG: b'57712383 reads; of these:\n  57712383 (100.00%) were unpaired; of these:\n    30450514 (52.76%) aligned 0 times\n    14888645 (25.80%) aligned exactly 1 time\n    12373224 (21.44%) aligned >1 times\n47.24% overall alignment rate\n'
09/01/2020 08:42:50 AM - humann.humann - INFO: TIMESTAMP: Completed 	nucleotide alignment 	:	 9739	 seconds
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments where percent identity is not a number: 0
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments where alignment length is not a number: 0
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments where E-value is not a number: 0
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments not included based on large e-value: 0
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments not included based on small percent identity: 0
09/01/2020 09:09:17 AM - humann.utilities - DEBUG: Total alignments not included based on small query coverage: 0
09/01/2020 09:09:17 AM - humann.search.blastx_coverage - INFO: Total alignments without coverage information: 0
09/01/2020 09:09:17 AM - humann.search.blastx_coverage - INFO: Total proteins in blastx output: 271344
09/01/2020 09:09:17 AM - humann.search.blastx_coverage - INFO: Total proteins without lengths: 0
09/01/2020 09:09:17 AM - humann.search.blastx_coverage - INFO: Proteins with coverage greater than threshold (50.0): 181936
09/01/2020 09:35:16 AM - humann.search.nucleotide - DEBUG: Total nucleotide alignments not included based on filtered genes: 444214
09/01/2020 09:35:16 AM - humann.search.nucleotide - DEBUG: Total nucleotide alignments not included based on small percent identities: 25539
09/01/2020 09:35:16 AM - humann.search.nucleotide - DEBUG: Total nucleotide alignments not included based on query coverage threshold: 0
09/01/2020 09:35:16 AM - humann.search.nucleotide - DEBUG: Keeping sam file
09/01/2020 09:35:22 AM - humann.humann - INFO: TIMESTAMP: Completed 	nucleotide alignment post-processing 	:	 3152	 seconds
09/01/2020 09:35:22 AM - humann.humann - INFO: Total bugs from nucleotide alignment: 98
09/01/2020 09:35:22 AM - humann.humann - INFO: 
g__Bacteroides.s__Bacteroides_intestinalis: 1079191 hits
g__Bacteroides.s__Bacteroides_thetaiotaomicron: 69236 hits
g__Blautia.s__Blautia_obeum: 1726519 hits
g__Streptococcus.s__Streptococcus_salivarius: 7232 hits
g__Gemmiger.s__Gemmiger_formicilis: 3986265 hits
g__Bacteroides.s__Bacteroides_vulgatus: 838891 hits
g__Blautia.s__Ruminococcus_torques: 1046120 hits
g__Bacteroides.s__Bacteroides_cellulosilyticus: 3921165 hits
g__Bacteroides.s__Bacteroides_uniformis: 324826 hits
g__Faecalibacterium.s__Faecalibacterium_prausnitzii: 1696258 hits
g__Roseburia.s__Roseburia_inulinivorans: 132778 hits
g__Alistipes.s__Alistipes_putredinis: 97922 hits
g__Eubacterium.s__Eubacterium_sp_CAG_180: 487877 hits
g__Ruthenibacterium.s__Ruthenibacterium_lactatiformans: 89233 hits
g__Eubacterium.s__Eubacterium_hallii_CAG_12: 77387 hits
g__Fusicatenibacter.s__Fusicatenibacter_saccharivorans: 1018227 hits
g__Roseburia.s__Roseburia_faecis: 681780 hits
g__Phascolarctobacterium.s__Phascolarctobacterium_sp_CAG_266: 253941 hits
g__Ruminococcus.s__Ruminococcus_lactaris: 97958 hits
g__Streptococcus.s__Streptococcus_thermophilus_CAG_236: 60038 hits
g__Parabacteroides.s__Parabacteroides_distasonis: 333615 hits
g__Roseburia.s__Roseburia_intestinalis: 213127 hits
g__Agathobaculum.s__Agathobaculum_butyriciproducens: 255195 hits
g__Anaerostipes.s__Anaerostipes_hadrus: 323454 hits
g__Blautia.s__Blautia_wexlerae: 899501 hits
g__Parabacteroides.s__Parabacteroides_merdae: 182516 hits
g__Holdemania.s__Holdemania_filiformis: 14273 hits
g__Ruminococcaceae_unclassified.s__Ruminococcaceae_bacterium_D16: 86501 hits
g__Bacteroides.s__Bacteroides_xylanisolvens: 129467 hits
g__Eubacterium.s__Eubacterium_ramulus: 192450 hits
g__Ruminococcus.s__Ruminococcus_bromii: 85550 hits
g__Bacteroides.s__Bacteroides_ovatus: 103946 hits
g__Lachnospiraceae_unclassified.s__Eubacterium_rectale: 235520 hits
g__Ruminococcus.s__Ruminococcus_bicirculans: 751778 hits
g__Coprococcus.s__Coprococcus_eutactus: 246437 hits
g__Bacteroides.s__Bacteroides_vulgatus_CAG_6: 393508 hits
g__Clostridium.s__Clostridium_sp_CAG_58: 58602 hits
g__Dorea.s__Dorea_longicatena: 159730 hits
g__Roseburia.s__Roseburia_hominis: 430803 hits
g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_83: 137581 hits
g__Coprococcus.s__Coprococcus_comes: 144092 hits
g__Bacteroides.s__Bacteroides_caccae: 54487 hits
g__Oscillibacter.s__Oscillibacter_sp_CAG_241: 86272 hits
g__Flavonifractor.s__Flavonifractor_plautii: 215025 hits
g__Akkermansia.s__Akkermansia_muciniphila: 197309 hits
g__Lawsonibacter.s__Lawsonibacter_asaccharolyticus: 88436 hits
g__Anaerotignum.s__Anaerotignum_lactatifermentans: 129368 hits
g__Lachnoclostridium.s__Clostridium_lavalense: 9386 hits
g__Roseburia.s__Roseburia_intestinalis_CAG_13: 80657 hits
g__Eubacterium.s__Eubacterium_eligens_CAG_72: 26857 hits
g__Barnesiella.s__Barnesiella_intestinihominis: 27675 hits
g__Alistipes.s__Alistipes_putredinis_CAG_67: 132311 hits
g__Bacteroides.s__Bacteroides_fragilis: 142863 hits
g__Dorea.s__Dorea_formicigenerans: 222742 hits
g__Lachnospira.s__Lachnospira_pectinoschiza: 32285 hits
g__Alistipes.s__Alistipes_finegoldii: 232583 hits
g__Streptococcus.s__Streptococcus_thermophilus: 118322 hits
g__Ruminococcaceae_unclassified.s__Clostridium_leptum: 39409 hits
g__Eisenbergiella.s__Eisenbergiella_tayi: 147189 hits
g__Bacteroides.s__Bacteroides_uniformis_CAG_3: 133752 hits
g__Bilophila.s__Bilophila_wadsworthia: 195302 hits
g__Dorea.s__Dorea_sp_CAG_317: 63182 hits
g__Clostridium.s__Clostridium_sp_CAG_253: 67637 hits
g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_94: 50255 hits
g__Eubacterium.s__Eubacterium_eligens: 70824 hits
g__Eubacterium.s__Eubacterium_hallii: 226785 hits
g__Eggerthella.s__Eggerthella_lenta: 41751 hits
g__Bifidobacterium.s__Bifidobacterium_longum: 88596 hits
g__Eubacterium.s__Eubacterium_ventriosum: 72089 hits
g__Lachnoclostridium.s__Clostridium_bolteae: 60959 hits
g__Anaerotruncus.s__Anaerotruncus_colihominis: 88356 hits
g__Bacteroides.s__Bacteroides_clarus: 116639 hits
g__Coprococcus.s__Coprococcus_catus: 84440 hits
g__Firmicutes_unclassified.s__Firmicutes_bacterium_CAG_145: 12927 hits
g__Dorea.s__Dorea_longicatena_CAG_42: 17278 hits
g__Escherichia.s__Escherichia_coli: 49159 hits
g__Bifidobacterium.s__Bifidobacterium_pseudocatenulatum: 22979 hits
g__Bifidobacterium.s__Bifidobacterium_longum_CAG_69: 40219 hits
g__Butyrivibrio.s__Butyrivibrio_crossotus: 45625 hits
g__Butyrivibrio.s__Butyrivibrio_crossotus_CAG_259: 15917 hits
g__Dorea.s__Dorea_formicigenerans_CAG_28: 37400 hits
g__Coprococcus.s__Coprococcus_eutactus_CAG_665: 18897 hits
g__Intestinimonas.s__Intestinimonas_butyriciproducens: 41783 hits
g__Lachnoclostridium.s__Lachnoclostridium_sp_An131: 5083 hits
g__Coprococcus.s__Coprococcus_comes_CAG_19: 14308 hits
g__Faecalitalea.s__Faecalitalea_cylindroides: 9869 hits
g__Coprobacter.s__Coprobacter_fastidiosus: 308 hits
g__Bacteroides.s__Bacteroides_fragilis_CAG_47: 13138 hits
g__Roseburia.s__Roseburia_inulinivorans_CAG_15: 10190 hits
g__Roseburia.s__Roseburia_sp_CAG_303: 4471 hits
g__Actinomyces.s__Actinomyces_odontolyticus: 2281 hits
g__Actinomyces.s__Actinomyces_sp_ICM47: 1810 hits
g__Allisonella.s__Allisonella_histaminiformans: 7857 hits
g__Eubacterium.s__Eubacterium_sp_CAG_38: 3707 hits
g__Streptococcus.s__Streptococcus_parasanguinis: 2524 hits
g__Lactobacillus.s__Lactobacillus_delbrueckii: 571 hits
g__Streptococcus.s__Streptococcus_salivarius_CAG_79: 1405 hits
g__Dielma.s__Dielma_fastidiosa: 303 hits
09/01/2020 09:35:22 AM - humann.humann - INFO: Total gene families from nucleotide alignment: 181905
09/01/2020 09:35:22 AM - humann.humann - INFO: Unaligned reads after nucleotide alignment: 53.5728025647 %
09/01/2020 09:35:22 AM - humann.search.translated - INFO: Running diamond ........
09/01/2020 09:35:22 AM - humann.search.translated - INFO: Aligning to reference database: uniref90_201901.dmnd
09/01/2020 09:35:22 AM - humann.utilities - DEBUG: Remove file: /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot/diamond_m8_5087r63u
09/01/2020 09:35:22 AM - humann.utilities - DEBUG: Using software: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/diamond
09/01/2020 09:35:22 AM - humann.utilities - INFO: Execute command: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/diamond blastx --query /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_unaligned.fa --evalue 1.0 --threads 1 --top 1 --outfmt 6 --db /home/deepchandaaws/human_db/uniref/uniref90_201901 --out /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot/diamond_m8_5087r63u --tmpdir /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot
09/01/2020 10:03:32 AM - humann.utilities - CRITICAL: Error executing: /home/deepchandaaws/anaconda3/envs/biobakery3/bin/diamond blastx --query /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_unaligned.fa --evalue 1.0 --threads 1 --top 1 --outfmt 6 --db /home/deepchandaaws/human_db/uniref/uniref90_201901 --out /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot/diamond_m8_5087r63u --tmpdir /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot

Error message returned from diamond :
diamond v2.0.2.140 (C) Max Planck Society for the Advancement of Science
Documentation, support and updates available at http://www.diamondsearch.org

#CPU threads: 1
Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1)
Temporary directory: /data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot
Opening the database...  [0.869s]
Percentage range of top alignment score to report hits: 1
Reference = /home/deepchandaaws/human_db/uniref/uniref90_201901.dmnd
Sequences = 3372836
Letters = 1293476324
Block size = 2000000000
Opening the input file...  [0.638s]
Opening the output file...  [0s]
Loading query sequences...  [37.941s]
Masking queries...  [147.12s]
Building query seed set...  [0.13s]
The host system is detected to have 31 GB of RAM. It is recommended to increase the block size for better performance using these parameters: -b4
Algorithm: Double-indexed
Building query histograms...  [30.883s]
Allocating buffers...  [0s]
Loading reference sequences...  [15.853s]
Masking reference...  [86.33s]
Initializing temporary storage...  [0.001s]
Building reference histograms...  [41.112s]
Allocating buffers...  [0s]
Processing query block 0, reference block 0, shape 0, index chunk 0.
Building reference seed array...  [24.552s]
Building query seed array...  [21.426s]
Computing hash join...  [12.678s]
Building seed filter...  [0.425s]
Searching alignments...  [133.105s]
Processing query block 0, reference block 0, shape 0, index chunk 1.
Building reference seed array...  [30.221s]
Building query seed array...  [24.217s]
Computing hash join...  [12.798s]
Building seed filter...  [0.431s]
Searching alignments...  [118.62s]
Processing query block 0, reference block 0, shape 0, index chunk 2.
Building reference seed array...  [31.297s]
Building query seed array...  [25.07s]
Computing hash join...  [12.716s]
Building seed filter...  [0.427s]
Searching alignments...  [112.916s]
Processing query block 0, reference block 0, shape 0, index chunk 3.
Building reference seed array...  [22.397s]
Building query seed array...  [19.129s]
Computing hash join...  [12.748s]
Building seed filter...  [0.42s]
Searching alignments...  [106.861s]
Processing query block 0, reference block 0, shape 1, index chunk 0.
Building reference seed array...  [22.52s]
Building query seed array...  [17.204s]
Computing hash join...  [11.923s]
Building seed filter...  [0.38s]
Searching alignments...  [91.221s]
Processing query block 0, reference block 0, shape 1, index chunk 1.
Building reference seed array...  [29.934s]
Building query seed array...  [21.544s]
Computing hash join...  [12.103s]
Building seed filter...  [0.398s]
Searching alignments...  [90.387s]
Processing query block 0, reference block 0, shape 1, index chunk 2.
Building reference seed array...  [31.051s]
Building query seed array...  [22.418s]
Computing hash join...  [12.103s]
Building seed filter...  [0.394s]
Searching alignments...  [86.664s]
Processing query block 0, reference block 0, shape 1, index chunk 3.
Building reference seed array...  [22.213s]
Building query seed array...  [16.994s]
Computing hash join...  [12.038s]
Building seed filter...  [0.393s]
Searching alignments...  [86.124s]
Deallocating buffers...  [0.28s]
Clearing query masking...  [0.869s]
Computing alignments... 
09/01/2020 10:03:33 AM - humann.utilities - CRITICAL: TRACEBACK: 
Traceback (most recent call last):
  File "/home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/site-packages/humann/utilities.py", line 756, in execute_command
    p_out = subprocess.check_output(cmd, stderr=subprocess.STDOUT)
  File "/home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/subprocess.py", line 411, in check_output
    **kwargs).stdout
  File "/home/deepchandaaws/anaconda3/envs/biobakery3/lib/python3.7/subprocess.py", line 512, in run
    output=stdout, stderr=stderr)
subprocess.CalledProcessError: Command '['/home/deepchandaaws/anaconda3/envs/biobakery3/bin/diamond', 'blastx', '--query', '/data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/ERR260171_1_kneaddata_bowtie2_unaligned.fa', '--evalue', '1.0', '--threads', '1', '--top', '1', '--outfmt', '6', '--db', '/home/deepchandaaws/human_db/uniref/uniref90_201901', '--out', '/data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot/diamond_m8_5087r63u', '--tmpdir', '/data/Desktop/erp002469/kneaddata_output/deconta/humann_output/ERR260171_1_kneaddata_humann_temp_3m005rqg/tmpn9w3z3ot']' died with <Signals.SIGKILL: 9>.