# HG changeset patch
# User bgruening
# Date 1635955806 0
# Node ID b3c045bed2db5c4211e5f43ff283b1da554467d9
# Parent eb87bd7a51689d19102e05ab9ebba756c1500ba5
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/canu commit 9e1d3a4dcabeec3c52e08372753d32d684dbed59"
diff -r eb87bd7a5168 -r b3c045bed2db canu.xml
--- a/canu.xml Mon Feb 15 12:30:59 2021 +0000
+++ b/canu.xml Wed Nov 03 16:10:06 2021 +0000
@@ -4,7 +4,7 @@
canu
- 2.1.1
+ 2.2
0
@@ -42,7 +42,7 @@
#if $stopOnLowCoverage
stopOnLowCoverage=$stopOnLowCoverage
#end if
- #if $minInputCoverage
+ #if $minInputCoverage ##and $stage in ["all", "trim-assemble", "assemble"]
minInputCoverage=$minInputCoverage
#end if
contigFilter='
@@ -56,21 +56,25 @@
genomeSize='$genomeSize'
minThreads=\${GALAXY_SLOTS:-4}
maxThreads=\${GALAXY_SLOTS:-4}
- redMemory=\${GALAXY_MEMORY_MB:-4096}M
+ redMemory=\${GALAXY_MEMORY_MB:-6144}M
redThreads=\${GALAXY_SLOTS:-4}
obtovlThreads=\${GALAXY_SLOTS:-4}
utgovlThreads=\${GALAXY_SLOTS:-4}
batThreads=\${GALAXY_SLOTS:-4}
- batMemory=\${GALAXY_MEMORY_MB:-4096}M
- cormhapMemory=\${GALAXY_MEMORY_MB:-4096}M
- obtovlMemory=\${GALAXY_MEMORY_MB:-4096}M
- utgovlMemory=\${GALAXY_MEMORY_MB:-4096}M
+ batMemory=\${GALAXY_MEMORY_MB:-6144}M
+ cormhapMemory=\${GALAXY_MEMORY_MB:-6144}M
+ obtovlMemory=\${GALAXY_MEMORY_MB:-6144}M
+ utgovlMemory=\${GALAXY_MEMORY_MB:-6144}M
corThreads=\${GALAXY_SLOTS:-4}
- corMemory=\${GALAXY_MEMORY_MB:-4096}M
+ corMemory=\${GALAXY_MEMORY_MB:-6144}M
cnsThreads=\${GALAXY_SLOTS:-4}
- cnsMemory=\${GALAXY_MEMORY_MB:-4096}M
- oeaMemory=\${GALAXY_MEMORY_MB:-4096}M
+ cnsMemory=\${GALAXY_MEMORY_MB:-6144}M
+ oeaMemory=\${GALAXY_MEMORY_MB:-6144}M
oeaThreads=\${GALAXY_SLOTS:-4}
+ merylThreads=\${GALAXY_SLOTS:-4}
+ merylMemory=\${GALAXY_MEMORY_MB:-6144}M
+ corovlThreads=\${GALAXY_SLOTS:-4}
+ corovlMemory=\${GALAXY_MEMORY_MB:-6144}M
useGrid=false
#for $haplotype in $haplotypes:
@@ -165,7 +169,7 @@