Add patch for spaceranger/count

nf-core · Oct 24, 2024 · 1d3d7bc · 1d3d7bc
1 parent 05d90b6
commit 1d3d7bc
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Showing 6 changed files with 191 additions and 55 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -47,7 +47,6 @@ process {
     }
 
     withName: SPACERANGER_COUNT {
-        ext.args = '--create-bam false'
         publishDir = [
             path: { "${params.outdir}/${meta.id}/spaceranger" },
             mode: params.publish_dir_mode,

diff --git a/modules.json b/modules.json
@@ -25,7 +25,8 @@
                     "spaceranger/count": {
                         "branch": "master",
                         "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
-                        "installed_by": ["modules"]
+                        "installed_by": ["modules"],
+                        "patch": "modules/nf-core/spaceranger/count/spaceranger-count.diff"
                     },
                     "untar": {
                         "branch": "master",

diff --git a/modules/nf-core/spaceranger/count/meta.yml b/modules/nf-core/spaceranger/count/meta.yml
diff --git a/modules/nf-core/spaceranger/count/modules.json b/modules/nf-core/spaceranger/count/modules.json
diff --git a/modules/nf-core/spaceranger/count/spaceranger-count.diff b/modules/nf-core/spaceranger/count/spaceranger-count.diff
diff --git a/modules/nf-core/spaceranger/count/tests/nextflow.config b/modules/nf-core/spaceranger/count/tests/nextflow.config