Merge pull request #348 from nf-core/test_full_fix

Update test full profile
nf-core · Nov 13, 2024 · 2768b2b · 2768b2b
2 parents 398f8de + 55eb8a0
commit 2768b2b
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -27,6 +27,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### Changed
 
+- [[#348](https://github.com/nf-core/differentialabundance/pull/348)] - Update test_full profile matrix file and indentation of profiles in nextflow.config ([@nschcolnicov](https://github.com/nschcolnicov), review by [@WackerO](https://github.com/WackerO) and [@pinin4fjords](https://github.com/pinin4fjords))
+
 ## v1.5.0 - 2024-05-08
 
 ### `Added`

diff --git a/conf/test_full.config b/conf/test_full.config
@@ -17,7 +17,7 @@ params {
     // Input data
     input = 'https://raw.githubusercontent.com/nf-core/test-datasets/differentialabundance/testdata/rnaseq_featurecounts_sample_preparations.tsv'
     contrasts = 'https://raw.githubusercontent.com/nf-core/test-datasets/differentialabundance/testdata/rnaseq_featurecounts_contrast_file.csv'
-    matrix = 'https://raw.githubusercontent.com/nf-core/test-datasets/differentialabundance/testdata/rnaseq_featurecounts_merged_gene_counts.txt'
+    matrix = 'https://raw.githubusercontent.com/nf-core/test-datasets/differentialabundance/testdata/rnaseq_featurecounts_merged_gene_counts.tsv'
     gtf = 'https://ftp.ensembl.org/pub/release-81/gtf/mus_musculus/Mus_musculus.GRCm38.81.gtf.gz'
 
     // Configure inputs

diff --git a/nextflow.config b/nextflow.config
@@ -324,18 +324,18 @@ profiles {
         executor.cpus           = 4
         executor.memory         = 8.GB
     }
-    test      { includeConfig 'conf/test.config'      }
-    test_nogtf { includeConfig 'conf/test_nogtf.config' }
-    test_full { includeConfig 'conf/test_full.config' }
-    affy { includeConfig 'conf/affy.config' }
-    maxquant { includeConfig 'conf/maxquant.config' }
-    rnaseq { includeConfig 'conf/rnaseq.config' }
-    rnaseq_limma { includeConfig 'conf/rnaseq_limma.config' }
+    test              { includeConfig 'conf/test.config'              }
+    test_nogtf        { includeConfig 'conf/test_nogtf.config'        }
+    test_full         { includeConfig 'conf/test_full.config'         }
+    affy              { includeConfig 'conf/affy.config'              }
+    maxquant          { includeConfig 'conf/maxquant.config'          }
+    rnaseq            { includeConfig 'conf/rnaseq.config'            }
+    rnaseq_limma      { includeConfig 'conf/rnaseq_limma.config'      }
     test_rnaseq_limma { includeConfig 'conf/test_rnaseq_limma.config' }
-    soft {includeConfig 'conf/soft.config'}
-    test_affy { includeConfig 'conf/test_affy.config' }
-    test_maxquant { includeConfig 'conf/test_maxquant.config' }
-    test_soft {includeConfig 'conf/test_soft.config' }
+    soft              { includeConfig 'conf/soft.config'              }
+    test_affy         { includeConfig 'conf/test_affy.config'         }
+    test_maxquant     { includeConfig 'conf/test_maxquant.config'     }
+    test_soft         { includeConfig 'conf/test_soft.config'         }
 }
 
 // Load nf-core custom profiles from different Institutions