Mercurial > repos > kkonganti > cfsan_centriflaken
diff 0.2.1/workflows/conf/centriflaken_hy.config @ 35:dc9258195982
"planemo upload"
author | kkonganti |
---|---|
date | Wed, 29 Jun 2022 16:31:26 -0400 |
parents | 4f9f145d1946 |
children | d7c07f2456b4 |
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--- a/0.2.1/workflows/conf/centriflaken_hy.config Wed Jun 29 15:27:50 2022 -0400 +++ b/0.2.1/workflows/conf/centriflaken_hy.config Wed Jun 29 16:31:26 2022 -0400 @@ -2,13 +2,13 @@ workflow_blueprint_by = 'Narjol.Gonzalez-Escalona@fda.hhs.gov' workflow_built_by = 'Kranti.Konganti@fda.hhs.gov' workflow_version = '0.2.0' - centrifuge_x = '/tool/tool-data/cfsan-centriflaken-db/0/centrifuge/2022-04-12/ab' + centrifuge_x = '/data/cfsan-centriflaken-db/0/centrifuge/2022-04-12/ab' centrifuge_extract_bug = 'Escherichia coli' centrifuge_save_aligned = false centrifuge_save_unaligned = false centrifuge_out_fmt_sam = false centrifuge_ignore_quals = false - kraken2_db = '/tool/tool-data/cfsan-centriflaken-db/0/kraken2/standard-210914' + kraken2_db = '/data/cfsan-centriflaken-db/0/kraken2/standard-210914' kraken2_confidence = '0.0' kraken2_quick = false kraken2_use_mpa_style = false @@ -39,7 +39,7 @@ ectyper_perc_opcov = 95 ectyper_perc_hpcov = 50 serotypefinder_run = (params.centrifuge_extract_bug ==~ /(?i)Salmonella/ ? false : true) - serotypefinder_db = '/tool/tool-data/cfsan-centriflaken-db/0/serotypefinder/2.0.2' + serotypefinder_db = '/data/cfsan-centriflaken-db/0/serotypefinder/2.0.2' serotypefinder_min_cov = 0.80 serotypefinder_min_threshold = 0.85 serotypefinder_x = true @@ -53,10 +53,10 @@ mlst_mincov = 10 mlst_minscore = 50 amrfinderplus_run = false - amrfinderplus_db = '/tool/tool-data/cfsan-centriflaken-db/0/amrfinderplus/3.10.24/latest' + amrfinderplus_db = '/data/cfsan-centriflaken-db/0/amrfinderplus/3.10.24/latest' amrfinderplus_genes = true abricate_run = true - abricate_datadir = '/tool/tool-data/cfsan-centriflaken-db/0/abricate/1.0.1/db' + abricate_datadir = '/data/cfsan-centriflaken-db/0/abricate/1.0.1/db' abricate_minid = 90 abricate_mincov = 80 abricate_summary_run = true