millironx/nf-configs
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nuig.config first commit

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Barry digby 2021-04-28 17:28:01 +01:00
parent fb40b27eab
commit 8340e89768
5 changed files with 34 additions and 2 deletions
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2
.github/workflows/main.yml vendored
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@ -16,7 +16,7 @@ jobs:
needs: test_all_profiles
strategy:
matrix:
profile: ['abims', 'awsbatch', 'bi','bigpurple', 'binac', 'biohpc_gen', 'cbe', 'ccga_dx', 'ccga_med', 'cfc', 'cfc_dev', 'crick', 'denbi_qbic', 'ebc', 'eddie', 'eva', 'genotoul', 'genouest', 'gis', 'google', 'hebbe', 'icr_davros', 'ifb_core', 'imperial', 'imperial_mb', 'jax', 'kraken', 'mpcdf', 'munin', 'oist', 'pasteur', 'phoenix', 'prince', 'sanger', 'seg_globe', 'shh', 'uct_hpc', 'uppmax', 'utd_ganymede', 'uzh']
profile: ['abims', 'awsbatch', 'bi','bigpurple', 'binac', 'biohpc_gen', 'cbe', 'ccga_dx', 'ccga_med', 'cfc', 'cfc_dev', 'crick', 'denbi_qbic', 'ebc', 'eddie', 'eva', 'genotoul', 'genouest', 'gis', 'google', 'hebbe', 'icr_davros', 'ifb_core', 'imperial', 'imperial_mb', 'jax', 'kraken', 'mpcdf', 'munin', 'nuig', 'oist', 'pasteur', 'phoenix', 'prince', 'sanger', 'seg_globe', 'shh', 'uct_hpc', 'uppmax', 'utd_ganymede', 'uzh']
steps:
- uses: actions/checkout@v1
- name: Install Nextflow

1
README.md
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@ -120,6 +120,7 @@ Currently documentation is available for the following systems:
* [KRAKEN](docs/kraken.md)
* [MPCDF](docs/mpcdf.md)
* [MUNIN](docs/munin.md)
* [NUIG](docs/nuig.md)
* [OIST](docs/oist.md)
* [PASTEUR](docs/pasteur.md)
* [PHOENIX](docs/phoenix.md)

30
conf/nuig.conf Normal file
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@ -0,0 +1,30 @@
//Profile config names for nf-core/configs
params {
config_profile_description = 'National University of Ireland, Galway SLURM cluster profile provided by nf-core/configs'
config_profile_contact = 'Barry Digby (@BarryDigby)'
config_profile_url = 'https://github.com/nf-core/configs/blob/master/docs/nuig.md'
}
singularity {
enabled = true
autoMounts = true
cacheDir = '/data/containers'
}
process {
beforeScript = 'module load singularity/3.4.1'
containerOptions = '-B /data/'
executor = 'slurm'
queue = { task.cpus > 8 ? 'highmem' : 'normal' }
}
/*
NUIG SLURM is not configured to use the memory parameter, please do not include
However, the highmem queue has 128GB memory and the normal queue has 64GB.
*/
params {
max_time = '120.d'
max_cpus = '16'
}

0
docs/nuig.md Normal file
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3
nfcore_custom.config
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@ -29,7 +29,7 @@ profiles {
icr_davros { includeConfig "${params.custom_config_base}/conf/icr_davros.config" }
ifb_core { includeConfig "${params.custom_config_base}/conf/ifb_core.config" }
imperial { includeConfig "${params.custom_config_base}/conf/imperial.config" }
imperial_mb { includeConfig "${params.custom_config_base}/conf/imperial_mb.config" }
imperial_mb { includeConfig "${params.custom_config_base}/conf/imperial_mb.config" }
genotoul { includeConfig "${params.custom_config_base}/conf/genotoul.config" }
google { includeConfig "${params.custom_config_base}/conf/google.config" }
denbi_qbic { includeConfig "${params.custom_config_base}/conf/denbi_qbic.config" }
@ -39,6 +39,7 @@ profiles {
kraken { includeConfig "${params.custom_config_base}/conf/kraken.config" }
mpcdf { includeConfig "${params.custom_config_base}/conf/mpcdf.config" }
munin { includeConfig "${params.custom_config_base}/conf/munin.config" }
nuig { includeConfig "${params.custom_config_base}/conf/nuig.config" }
oist { includeConfig "${params.custom_config_base}/conf/oist.config" }
pasteur { includeConfig "${params.custom_config_base}/conf/pasteur.config" }
phoenix { includeConfig "${params.custom_config_base}/conf/phoenix.config" }