Commit c05d3708 authored by khalid's avatar khalid
Browse files

Resolve bug fro bowtie SE rule

parent 8ff6bd9b
......@@ -411,8 +411,8 @@ rule bowtie_SE:
params:
indexPrefix = config["bowtie_index_path"]+"/index",
mult_align_limit = config["bowtie_mult_align_limit"],
best = config["bowtie_best"],
strata = config["bowtie_strata"]
best = "--best" if (config["bowtie_best"]) else "",
strata = "--strata" if (config["bowtie_strata"]) else ""
shell:
"bowtie "
"--threads {threads} "
......
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