Merge pull request #360 from eolaniru/Fixfb_ref

Fix: fb_reference
nf-core · Aug 13, 2024 · 8923d21 · 8923d21
2 parents 2dd8465 + 7582f30
commit 8923d21
Showing 1 changed file with 5 additions and 1 deletion.
diff --git a/subworkflows/local/align_cellrangermulti.nf b/subworkflows/local/align_cellrangermulti.nf
@@ -43,7 +43,11 @@ workflow CELLRANGER_MULTI_ALIGN {
                 vdj: meta.feature_type == "vdj"
                     return [ meta, fastq ]
                 ab: meta.feature_type == "ab"
-                    return [ meta, fastq ]
+                    if (params.fb_reference){
+                        return [ meta, fastq ]
+                    } else {
+                        error ("Antibody reference was not specified. Please provide a reference file for feature barcoding (e.g. antibody measurements).\nPlease refer to https://www.10xgenomics.com/support/software/cell-ranger/latest/analysis/inputs/cr-feature-ref-csv for more details.")
+                    }
                 beam: meta.feature_type == "beam"
                     return [ meta, fastq ]
                 crispr: meta.feature_type == "crispr"