From dc3fc525bdeb4c93f16bb28cabb2d88c656767c9 Mon Sep 17 00:00:00 2001
From: Thomas Faraut <Thomas.Faraut@inra.fr>
Date: Wed, 3 Jul 2019 16:11:18 +0200
Subject: [PATCH] some memory and trhead parameter reconfiguration
---
cluster.yaml | 6 +++---
snakecnv/align.snk | 4 ++--
2 files changed, 5 insertions(+), 5 deletions(-)
diff --git a/cluster.yaml b/cluster.yaml
index 53cc397..b18784e 100644
--- a/cluster.yaml
+++ b/cluster.yaml
@@ -51,8 +51,8 @@ bed2fasta:
h_vmem: 16
bwamap:
- time: "36:00:00"
+ time: "72:00:00"
markduplicates:
- mem: 32
- h_vmem: 32
+ mem: 64
+ h_vmem: 64
diff --git a/snakecnv/align.snk b/snakecnv/align.snk
index d8067cc..f634d62 100644
--- a/snakecnv/align.snk
+++ b/snakecnv/align.snk
@@ -48,7 +48,7 @@ rule bwamap:
output:
bam = temp("bwa/{sample}.bam")
threads:
- get_threads("bwamap", 4)
+ get_threads("bwamap", 8)
log:
stdout = "logs/map_{sample}.o",
stderr = "logs/map_{sample}.e"
@@ -91,4 +91,4 @@ rule markduplicate:
"""
picard MarkDuplicates I={input.bam} O={output.bam} M={output.metrics} REMOVE_DUPLICATES=true 1> {log.stdout} \
2> {log.stderr};
- """
\ No newline at end of file
+ """
--
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