Update pipelines chunk number

mazzalab · Sep 18, 2023 · b84d602 · b84d602
1 parent dc10e9e
commit b84d602
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/pipeline/fix_wipe_pairs_reads_parallel.smk b/pipeline/fix_wipe_pairs_reads_parallel.smk
@@ -32,7 +32,7 @@ checkpoint split_fastq:
         "Splitting {input} into chunks."
     shell:'''
         mkdir data/{wildcards.sample}_chunks
-        split -l 2000 --numeric-suffixes {input} data/{wildcards.sample}_chunks/chunk --additional-suffix=.fastq
+        split -l 500000000 --numeric-suffixes {input} data/{wildcards.sample}_chunks/chunk --additional-suffix=.fastq
         '''
 
 rule wipe_fastq_parallel:

diff --git a/pipeline/fix_wipe_single_reads_parallel.smk b/pipeline/fix_wipe_single_reads_parallel.smk
@@ -33,7 +33,7 @@ checkpoint split_fastq:
         "Splitting {input} into chunks."
     shell:'''
         mkdir data/{wildcards.sample}_chunks
-        split -l 2000 --numeric-suffixes {input} data/{wildcards.sample}_chunks/chunk --additional-suffix=.fastq
+        split -l 500000000 --numeric-suffixes {input} data/{wildcards.sample}_chunks/chunk --additional-suffix=.fastq
         '''