Updating testing

sanger-tol · Dec 9, 2024 · 8805be5 · 8805be5
1 parent 69fe17d
commit 8805be5
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Showing 3 changed files with 10 additions and 3 deletions.
diff --git a/conf/test.config b/conf/test.config
@@ -29,4 +29,5 @@ params {
     sample      = "CurationPretextTest"
     teloseq     = "TTAGGG"
     aligner     = "bwamem2"
+    outdir      = CPretext_testing
 }
diff --git a/conf/test_full.config b/conf/test_full.config
@@ -12,13 +12,21 @@
 
 cleanup = true
 
+process {
+    resourceLimits = [
+        cpus: 4,
+        memory: '10.GB',
+        time: '1.h'
+    ]
+}
+
 params {
     config_profile_name        = 'Full test profile'
     config_profile_description = 'Full test dataset to check pipeline function'
 
     // Input data for full size test
     // Limit resources so that this can run on GitHub Actions
-    max_cpus    = 4
+    max_cpus    = 1
     max_memory  = '10.GB'
     max_time    = '6.h'
 

diff --git a/subworkflows/local/generate_maps.nf b/subworkflows/local/generate_maps.nf
@@ -49,8 +49,6 @@ workflow GENERATE_MAPS {
     )
     ch_versions         = ch_versions.mix( GENERATE_CRAM_CSV.out.versions )
 
-    GENERATE_CRAM_CSV.out.csv.view()
-
     //
     // LOGIC: make branches for different hic aligner.
     //
-Original file line number
+Diff line change
@@ Expand Up / @@ -49,8 +49,6 @@ workflow GENERATE_MAPS { @@
         )
         ch_versions         = ch_versions.mix( GENERATE_CRAM_CSV.out.versions )
-        GENERATE_CRAM_CSV.out.csv.view()
         //
         // LOGIC: make branches for different hic aligner.
         //
@@ Expand Down @@