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Merge pull request #73 from jts/snpeff_nolog
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added -noLog option to snpEff
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rdeborja authored Mar 29, 2021
2 parents 3bcf52a + 40ebe72 commit 21fd71f
Showing 1 changed file with 3 additions and 2 deletions.
5 changes: 3 additions & 2 deletions workflow/rules/annotation.smk
Original file line number Diff line number Diff line change
Expand Up @@ -86,9 +86,10 @@ rule run_snpeff:
params:
script="snpEff",
db="MN908947.3",
aa_letter="-hgvs1LetterAa"
aa_letter="-hgvs1LetterAa",
no_log="-noLog"
shell:
"{params.script} {params.aa_letter} {params.db} {input} > {output}"
"{params.script} {params.no_log} {params.aa_letter} {params.db} {input} > {output}"


rule convert_annotated_vcf_to_aa_table:
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