X-Git-Url: https://git.arvados.org/rnaseq-cwl-training.git/blobdiff_plain/9126e9209dec22eae0093204c060cbe4c139f720..9063886579520bf9b71e270835fb95a7a5f35822:/assets/answers/ep5/part4/featureCounts.cwl

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+cwlVersion: v1.2
+class: CommandLineTool
+
+### 4. Combining results
+inputs:
+  gtf: File
+  counts_input_bam:
+   - File
+   - File[]
+
+baseCommand: featureCounts
+
+arguments: [-T, $(runtime.cores),
+            -a, $(inputs.gtf),
+            -o, featurecounts.tsv,
+            $(inputs.counts_input_bam)]
+
+outputs:
+  featurecounts:
+    type: File
+    outputBinding:
+      glob: featurecounts.tsv
+
+hints:
+  DockerRequirement:
+    dockerPull: quay.io/biocontainers/subread:1.5.0p3--0