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edna
snakemake_only_obitools
Commits
e505a0e5
Commit
e505a0e5
authored
Nov 14, 2019
by
peguerin
Browse files
add config
parent
b195ab19
Changes
2
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00-rules/filtered.smk
View file @
e505a0e5
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@@ -18,8 +18,8 @@ rule goodlength_samples:
log:
'../99-log/06-goodlength_samples/{sample}.log'
params:
count=config["good_length_samples"]["count"],
seq_length=config["good_length_samples"]["seq_length"]
count=config["good_length_samples"]["count"],
seq_length=config["good_length_samples"]["seq_length"]
shell:
'''obigrep -p 'count>{params.count}' -s '^[ACGT]+$' -p 'seq_length>{params.seq_length}' {input} > {output} 2> {log}'''
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02-demultiplex/Snakefile
View file @
e505a0e5
__author__ = "Pierre-Edouard Guerin"
__license__ = "MIT"
configfile: "../config.yaml"
SAMPLES, = glob_wildcards('01-raw/{sample}.fasta')
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