Commit 3d38e067 authored by Rachel  LEGENDRE's avatar Rachel LEGENDRE
Browse files

rename log of deduplicate

parent be08160a
......@@ -461,7 +461,7 @@ if config['mark_duplicates']['do']:
mark_duplicates_output = os.path.join(analysis_dir, "03-Deduplication/{{SAMPLE}}_{{REF}}_sort{}.bam".format(biasedRegions))
mark_duplicates_metrics = os.path.join(analysis_dir, "03-Deduplication/{SAMPLE}_{REF}_sort_dedup.txt")
mark_duplicates_remove = dedup
mark_duplicates_log_std = os.path.join(analysis_dir, "03-Deduplication/logs/{SAMPLE}_{REF}}_sort_dedup.out")
mark_duplicates_log_std = os.path.join(analysis_dir, "03-Deduplication/logs/{SAMPLE}_{REF}_sort_dedup.out")
mark_duplicates_log_err = os.path.join(analysis_dir, "03-Deduplication/logs/{SAMPLE}_{REF}_sort_dedup.err")
mark_duplicates_tmpdir = config['tmpdir']
#final_output.extend(expand(mark_duplicates_output, SAMPLE=samples, REF=ref))
......
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