Commit f4b98142 authored by peguerin's avatar peguerin
Browse files

try checkpoint

parent d42bc550
......@@ -19,5 +19,5 @@ rule illuminapairedend:
s_min=config["illuminapairedend"]["s_min"],
gathered=lambda wildcards: '../results/02_assembly/01_illuminapairedend/' + wildcards.run + '.fastq',
shell:
'''illuminapairedend -r {input.R2} {input.R1} --score-min={params.s_min} > {output.fq} 2> {log}; cat {output.fq} >> {params.gathered}'''
'''illuminapairedend -r {input.R2} {input.R1} --score-min={params.s_min} > {output.fq} 2> {log};'''
......@@ -3,7 +3,7 @@ __license__ = "MIT"
## scatter a fastq file
checkpoint split_fastq:
rule split_fastq:
input:
R1=config["fichiers"]["folder_fastq"]+'{run}_R1.fastq.gz',
R2=config["fichiers"]["folder_fastq"]+'{run}_R2.fastq.gz'
......
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