From 26779a4420f5d71d55a7bb99ff85ee1863740401 Mon Sep 17 00:00:00 2001 From: sofstam Date: Thu, 7 Apr 2022 16:27:19 +0200 Subject: [PATCH] Remove db_name from nextflow.config --- conf/test.config | 4 ++-- nextflow.config | 1 - nextflow_schema.json | 7 +++++-- 3 files changed, 7 insertions(+), 5 deletions(-) diff --git a/conf/test.config b/conf/test.config index 6e82300..d392306 100644 --- a/conf/test.config +++ b/conf/test.config @@ -25,10 +25,10 @@ params { input = 'https://raw.githubusercontent.com/nf-core/test-datasets/taxprofiler/samplesheet.csv' databases = 'https://raw.githubusercontent.com/nf-core/test-datasets/taxprofiler/database.csv' run_kraken2 = true - run_malt = true + run_malt = false run_metaphlan3 = true run_centrifuge = true shortread_clipmerge = true longread_clip = false - shortread_complexityfilter = true + shortread_complexityfilter = false } diff --git a/nextflow.config b/nextflow.config index 37f886f..b4a8d91 100644 --- a/nextflow.config +++ b/nextflow.config @@ -86,7 +86,6 @@ params { // centrifuge run_centrifuge = false - centrifuge_db_name = 'minigut_cf' centrifuge_save_unaligned = false centrifuge_save_aligned = false centrifuge_sam_format = false diff --git a/nextflow_schema.json b/nextflow_schema.json index 2ed80ed..23eb83b 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -358,7 +358,10 @@ "shortread_complexityfilter_prinseqplusplus_mode": { "type": "string", "default": "entropy", - "enum": ["entropy", "dust"] + "enum": [ + "entropy", + "dust" + ] }, "shortread_complexityfilter_prinseqplusplus_dustscore": { "type": "number", @@ -369,4 +372,4 @@ "default": false } } -} +} \ No newline at end of file