Updated pfr params

GallVp · Jul 3, 2024 · bba1787 · bba1787
1 parent 2857a6b
commit bba1787
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Showing 5 changed files with 8 additions and 3 deletions.
diff --git a/.gitignore b/.gitignore
@@ -6,3 +6,6 @@ results/
 testing/
 testing*
 *.pyc
+
+*.stdout
+*.stderr
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -3,7 +3,7 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## v0.1.0dev - [02-July-2024]
+## v0.1.0dev - [03-July-2024]
 
 Initial release of gallvp/prepngs, created with the [nf-core](https://nf-co.re/) template.
 

diff --git a/conf/test_full.config b/conf/test_full.config
@@ -17,4 +17,5 @@ params {
     // Input data
     input                       = 'https://raw.githubusercontent.com/GallVp/prepngs/dev/assets/samplesheet.csv'
     min_trimmed_reads           = 10
+    save_group_fasta            = true
 }
diff --git a/pfr/params.json b/pfr/params.json
@@ -1,8 +1,8 @@
 {
-    "input": "",
+    "input": "/workspace/prepngs/testdata/samplesheet.csv",
     "outdir": "./results",
     "cat_by_group": true,
-    "save_group_fasta": false,
+    "save_group_fasta": true,
     "skip_trimming": false,
     "save_trimmed_fail": true,
     "min_trimmed_reads": 10000,

diff --git a/pfr_prepngs b/pfr_prepngs
@@ -37,6 +37,7 @@ if [ $full_test_flag -eq 1 ]; then
         main.nf \
         -c pfr/profile.config \
         -profile pfr,apptainer,test_full \
+        --outdir ./results \
         -resume
 else
     nextflow \