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galaxy_config: universe_wsgi.ini
# Define resources to be used for individual programs on multicore machines.
# These can be defined specifically for memory and processor availability.
# Distributed systems
# - Specify usage for memory intensive programs
# - Define cores that can be used for multicore programs.
resources:
default:
memory: 2G
cores: 4
jvm_opts: ["-Xms750m", "-Xmx2000m"]
bcbio_variation:
dir: /usr/local/share/java/bcbio_variation
bcbio_coverage:
dir: /usr/local/share/java/bcbio_coverage
cores: 4
qsignature:
cores: 1
mem: 8g
bowtie:
cores:
tophat:
cores:
star:
mem: 3g
cores: 4
bwa:
cores: 4
AlienTrimmer:
jvm_opts: ["-Xms750m", "-Xmx2000m"]
dir: /usr/local/share/java/AlienTrimmer
samtools:
cores: 4
memory: 1G
sailfish:
cores: 4
memory: 1G
novoalign:
cores: 4
memory: 4G
miraligner:
jvm_opts: ["-Xms750m", "-Xmx8000m"]
gemini:
cores: 4
gatk:
cores: 2
dir: /usr/local/share/java/gatk
jvm_opts: ["-Xms750m", "-Xmx2000m"]
gatk-vqsr:
jvm_opts: ["-Xms1000m", "-Xmx2500m"]
picard:
cores: 1
dir: /usr/local/share/java/picard
snpEff:
dir: /usr/local/share/java/snpeff
jvm_opts: ["-Xms750m", "-Xmx3g"]
varscan:
dir: /usr/local/share/java/varscan
mutect:
dir: /usr/local/share/java/mutect
cram:
dir: /usr/local/share/java/cram
stampy:
dir: ~/install/stampy-1.0.18
cortex:
dir: ~/install/CORTEX_release_v1.0.5.14
vcftools:
dir: ~/install/vcftools_0.1.9
oncofuse:
jvm_opts: ["-Xms750m", "-Xmx2000m"]
dir: /usr/local/share/java/oncofuse
|
