fix: fixed issue when several output files are specified with gatk sp…

…litncigarreads wrapper (#471) * Fixed issue when several output files are specified * Small cosmetic fix
snakemake · Apr 25, 2022 · 353bf0a · 353bf0a
1 parent c3c8b72
commit 353bf0a
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/bio/gatk/splitncigarreads/wrapper.py b/bio/gatk/splitncigarreads/wrapper.py
@@ -20,6 +20,6 @@
         " --input {snakemake.input.bam}"
         " {extra}"
         " --tmp-dir {tmpdir}"
-        " --output {snakemake.output}"
+        " --output {snakemake.output[0]}"
         " {log}"
     )
diff --git a/bio/samtools/fastq/separate/wrapper.py b/bio/samtools/fastq/separate/wrapper.py
@@ -25,7 +25,7 @@
 mem = "-m {0:.0f}M".format(mem / threads) if mem and threads else ""
 
 with tempfile.TemporaryDirectory() as tmpdir:
-    tmp_prefix = Path(tmpdir) / "samtools_fastq.sort_"
+    tmp_prefix = Path(tmpdir) / "samtools_fastq.sort"
 
     shell(
         "(samtools sort -n"