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Merge pull request #208 from maxibor/master

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Update shh config after CDAG departure
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Alexander Peltzer 2021-02-17 10:41:13 +01:00 committed by GitHub
commit bb8e82e9c7
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1 changed files with 8 additions and 27 deletions
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conf/shh.config
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@ -1,10 +1,10 @@
//Profile config names for nf-core/configs //Profile config names for nf-core/configs
params { params {
config_profile_description = 'Generic MPI-SHH cluster(s) profile provided by nf-core/configs.' config_profile_description = 'Generic MPI-SHH SDAG cluster profile provided by nf-core/configs.'
config_profile_contact = 'James Fellows Yates (@jfy133), Maxime Borry (@Maxibor)' config_profile_contact = 'James Fellows Yates (@jfy133), Maxime Borry (@Maxibor)'
config_profile_url = 'https://shh.mpg.de' config_profile_url = 'https://shh.mpg.de'
max_memory = 256.GB max_memory = 2.TB
max_cpus = 32 max_cpus = 128
max_time = 720.h max_time = 720.h
//Illumina iGenomes reference file path //Illumina iGenomes reference file path
igenomes_base = "/projects1/public_data/igenomes/" igenomes_base = "/projects1/public_data/igenomes/"
@ -13,14 +13,9 @@ params {
// Preform work directory cleanup after a successful run // Preform work directory cleanup after a successful run
cleanup = true cleanup = true
singularity {
enabled = true
autoMounts = true
cacheDir = "/projects1/singularity_scratch/cache/"
}
process { process {
executor = 'slurm' executor = 'slurm'
queue = { task.memory > 756.GB || task.cpus > 64 ? 'supercruncher': task.time <= 2.h ? 'short' : task.time <= 48.h ? 'medium': 'long' }
} }
executor { executor {
@ -28,24 +23,10 @@ executor {
} }
profiles { profiles {
cdag { singularity {
params { singularity.enabled = true
config_profile_description = 'CDAG MPI-SHH profile, provided by nf-core/configs.' singularity.autoMounts = true
} singularity.cacheDir = "/projects1/singularity_scratch/cache/"
// delete when CDAG will be fixed
process {
queue = 'long'
}
}
sdag {
params {
config_profile_description = 'SDAG MPI-SHH profile, provided by nf-core/configs.'
max_memory = 2.TB
max_cpus = 128
}
process {
queue = { task.memory > 756.GB || task.cpus > 64 ? 'supercruncher': task.time <= 2.h ? 'short' : task.time <= 48.h ? 'medium': 'long' }
}
} }
// Profile to deactivate automatic cleanup of work directory after a successful run. Overwrites cleanup option. // Profile to deactivate automatic cleanup of work directory after a successful run. Overwrites cleanup option.
debug { debug {