Commit ecd507d4 authored by peguerin's avatar peguerin
Browse files

doc chunk illuminapairend & merge

parent 23ebc881
......@@ -21,12 +21,12 @@ checkpoint illuminapairedend:
shell:
'''illuminapairedend -r {input.R2} {input.R1} --score-min={params.s_min} > {output.fq} 2> {log};'''
## function to get list of chunk files for each run
def get_chunks(wildcards):
meschunks = expand(rules.illuminapairedend.output.fq, **wildcards, chunk=listChunks)
return meschunks
## gather `chunk` files into a single `run` fastq file
rule merge_chunks:
input:
get_chunks
......
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