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use SLURM_CLUSTERS env var

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this seems to be more reliable for queue checking than using the clusterOptions directive. See https://github.com/nextflow-io/nextflow/issues/807
This commit is contained in:
phue 2021-04-06 11:35:01 +02:00
parent 7c5a0871a3
commit 60ae267e43
1 changed files with 5 additions and 2 deletions
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5
conf/biohpc_gen.config
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@ -5,12 +5,15 @@ params {
config_profile_url = 'https://collab.lmu.de/display/BioHPCGenomics/BioHPC+Genomics' config_profile_url = 'https://collab.lmu.de/display/BioHPCGenomics/BioHPC+Genomics'
} }
env {
SLURM_CLUSTERS='biohpc_gen'
}
process { process {
executor = 'slurm' executor = 'slurm'
queue = { task.memory <= 1536.GB ? (task.time > 2.d || task.memory > 384.GB ? 'biohpc_gen_production' : 'biohpc_gen_normal') : 'biohpc_gen_highmem' } queue = { task.memory <= 1536.GB ? (task.time > 2.d || task.memory > 384.GB ? 'biohpc_gen_production' : 'biohpc_gen_normal') : 'biohpc_gen_highmem' }
beforeScript = 'module use /dss/dssfs01/pr53da/pr53da-dss-0000/spack/modules/x86_avx2/linux*' beforeScript = 'module use /dss/dssfs01/pr53da/pr53da-dss-0000/spack/modules/x86_avx2/linux*'
module = 'charliecloud/0.22:miniconda3' module = 'charliecloud/0.22:miniconda3'
clusterOptions = '-M biohpc_gen'
} }
charliecloud { charliecloud {