Hello, I've encountered a problem in the process defined atNFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYwhile processing some single-end ONT whole-genome shotgun long reads from gut microbiome. I suspect there was an error in the GTDB-Tk classification where the expected output files were not written ...
usage: gtdbtk classify_wf (--genome_dir GENOME_DIR | --batchfile BATCHFILE) --out_dir OUT_DIR [-x EXTENSION] [--min_perc_aa MIN_PERC_AA] [--prefix PREFIX] [--cpus CPUS] [--force] [--scratch_dir SCRATCH_DIR] [-r] [-d] [-h] 参数: classify_wf -> Classify genomes by pla...
Update GTDBTK/CLASSIFYWF: Fix bash failing if nothing to move in output directory "
gtdbtk classify_wf --genome_dir bin \ --out_dir classify_wf \ --extension gz \ --prefix bin \ --cpus 8 主要结果文件描述:此处全为细菌基因组,因此均为bin.bac120开头的结果 物种注释 bin.bac120.summary.tsv user_genome classification fastani_reference fastani_reference_radius fastani_taxonomy ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18 MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18 MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/...
Description of the bug params.gtdbtk_pplacer_cpus can be set, but it currently is not used in the process GTDBTK_CLASSIFYWF. Re: Slack question I am happy to make a PR if someone knows/has thoughts on where I should add it. Meaning, shou...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...
gtdbtk classify_wf --genome_dir ./data --out_dir./result--extension .fna --cpus 18MESSAGE: [Errno 2] No such file or directory: '/home/wentao/miniconda3/envs/gtdbtk/share/gtdbtk-1.7.0/db/markers/pfam/individual_hmms/PF01868.17.hmm ...