added dynamic resource disk_mb specification for rule multiqc (bottle…

…neck in aws)
BIMSBbioinfo · Oct 2, 2024 · 63dfb9c · 63dfb9c
1 parent 70270e5
commit 63dfb9c
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Showing 2 changed files with 3 additions and 1 deletion.
diff --git a/etc/settings.yaml.in b/etc/settings.yaml.in
@@ -125,6 +125,7 @@ execution:
     multiqc:
       threads: 2
       memory: 500
+      disk_mb: 20000
     coverage_bamCoverage:
       threads: 1
       memory: 4000

diff --git a/snakefile.py b/snakefile.py
@@ -563,7 +563,8 @@ def hisat2_file_arguments(args):
   group: "qc"
   output: os.path.join(MULTIQC_DIR, 'multiqc_report.html')
   resources:
-    mem_mb = config['execution']['rules']['multiqc']['memory']
+    mem_mb = config['execution']['rules']['multiqc']['memory'],
+    disk_mb = lambda wc, input: max(round(2 * input.size_mb), config['execution']['rules']['multiqc']['disk_mb'])
   log: os.path.join(LOG_DIR, f'multiqc.{MAPPER}.log')
   shell: "{MULTIQC_EXEC} -f -o {MULTIQC_DIR} {OUTPUT_DIR} >> {log} 2>&1"