explicit keyword argument for picard mergevcfs (#12)

snakemake · Oct 27, 2019 · f0d91c5 · f0d91c5
1 parent eefc281
commit f0d91c5
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/bio/picard/mergevcfs/test/Snakefile b/bio/picard/mergevcfs/test/Snakefile
@@ -1,6 +1,6 @@
 rule merge_vcfs:
     input:
-        ["snvs.chr1.vcf", "snvs.chr2.vcf"]
+        vcfs=["snvs.chr1.vcf", "snvs.chr2.vcf"]
     output:
         "snvs.vcf"
     log:

diff --git a/bio/picard/mergevcfs/wrapper.py b/bio/picard/mergevcfs/wrapper.py
@@ -9,7 +9,7 @@
 from snakemake.shell import shell
 
 
-inputs = " ".join("INPUT={}".format(f) for f in snakemake.input)
+inputs = " ".join("INPUT={}".format(f) for f in snakemake.input.vcfs)
 log = snakemake.log_fmt_shell(stdout=False, stderr=True)
 extra = snakemake.params.get("extra", "")