Change SETUP from 1 to 2.14

sanger-tol · Dec 5, 2024 · c1e52e8 · c1e52e8
1 parent b084e7c
commit c1e52e8
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Showing 3 changed files with 2 additions and 8 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -36,7 +36,7 @@ jobs:
         uses: tj-actions/branch-names@v8
 
       - name: Install Nextflow
-        uses: nf-core/setup-nextflow@v1
+        uses: nf-core/setup-nextflow@v2.14
         with:
           version: "${{ matrix.NXF_VER }}"
 

diff --git a/conf/base.config b/conf/base.config
@@ -248,12 +248,6 @@ process {
         memory = { check_max( 100.GB    * task.attempt, 'memory'  ) }
     }
 
-    withName: FKUTILS_FKPROF {
-        cpus   = { check_max( 25        * task.attempt, 'cpus'    ) }
-        memory = { check_max( 1.GB     * ( reference.size() < 2e9 ? 50 : Math.ceil( ( reference.size() / 1e+9 ) * 20 ) * Math.ceil( task.attempt * 1 ) ), 'memory'  ) }
-        time   = { check_max( 36.h      * task.attempt, 'time'    ) }
-    }
-
     //
     // GENERAL MODULE LIMITS
     //      Based on reports from SummaryStats

diff --git a/subworkflows/local/yaml_input.nf b/subworkflows/local/yaml_input.nf
@@ -226,7 +226,7 @@ workflow YAML_INPUT {
     motif_len                        = selfcomp_data.motif_len
     mummer_chunk                     = selfcomp_data.mummer_chunk
 
-    synteny_paths                     = group.synteny
+    synteny_paths                    = group.synteny
 
     intron_size                      = intron_size.size