diff --git a/dot_nextflow/config.tmpl b/dot_nextflow/config.tmpl index 75af6c1..f76e329 100644 --- a/dot_nextflow/config.tmpl +++ b/dot_nextflow/config.tmpl @@ -2,75 +2,99 @@ tower { enabled = true accessToken = '{{ (bitwarden "item" "d41ac952-d8b5-4d20-a42a-ad8e0174d152").login.password }}' } -{{ if (eq .cluster "scinet") }} -params { - {{ if (eq .chezmoi.hostname "ceres") }} - max_memory = 768.GB - max_cpus = 40 - max_time = 1000.h - {{ end }} - {{ if (or (eq .chezmoi.hostname "Atlas-login-1") (eq .chezmoi.hostname "Atlas-login-2")) }} - max_memory = 1539.GB - max_cpus = 24 - max_time = 14.d - {{ end }} -} +profiles { + aahz { + params { + config_profile_description = 'KSU VDL Molecular NGS Big Server profile' + config_profile_contact = 'Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>' + config_profile_url = null -process { - scratch = true - executor = 'slurm' - clusterOptions = '--account=fabadru' - {{ if (or (eq .chezmoi.hostname "Atlas-login-1") (eq .chezmoi.hostname "Atlas-login-2")) }} - cpus = 12 - memory = 192.GB - time = 7.d - withLabel: process_high_memory { - queue = 'bigmem' - memory = 1536.GB + max_memory = 745.GB + max_cpus = 78 + max_time = 7.d + } + singularity { + enabled = true + autoMounts = true + envWhitelist = 'NCBI_API_KEY' + } + process { + executor = 'local' + } } - withLabel: process_long { - time = 14.d + atlas { + params { + config_profile_description = 'Mississippi State University Atlas Cluster profile' + config_profile_contact = 'Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>' + config_profile_url = 'https://www.hpc.msstate.edu/computing/atlas/' + + max_memory = 1539.GB + max_cpus = 24 + max_time = 14.d + } + singularity { + enabled = true + autoMounts = true + envWhitelist = 'NCBI_API_KEY' + } + process { + scratch = true + executor = 'slurm' + clusterOptions = '--account=fabadru' + + withLabel: process_high_memory { + queue = 'bigmem' + } + } } - withLabel: process_medium { - cpus = 12 - memory = 192.GB - time = 7.d + ceres { + params { + config_profile_description = 'USDA ARS SCInet Ceres Cluster profile' + config_profile_contact = 'Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>' + config_profile_url = 'https://scinet.usda.gov/guide/ceres/#partitions-or-queues' + + max_memory = 768.GB + max_cpus = 40 + max_time = 1000.h + } + singularity { + enabled = true + autoMounts = true + envWhitelist = 'NCBI_API_KEY' + } + process { + scratch = true + executor = 'slurm' + queue = 'short' + + withLabel: process_high_memory { + queue = 'mem' + } + withLabel: process_long { + queue = 'long' + } + withLabel: process_medium { + queue = 'medium' + } + } } - withLabel: process_high { - cpus = 24 - memory = 384.GB - time = 14.d - } - {{ end }} - {{ if (eq .chezmoi.hostname "ceres") }} - queue = 'short' - cpus = 18 - memory = 54.GB - time = 24.h - withLabel: process_high_memory { - queue = 'mem' - memory = 640.GB - } - withLabel: process_long { - queue = 'long' - time = 21.d - } - withLabel: process_medium { - queue = 'medium' - cpus = 36 - time = 7.d - } - withLabel: process_high { - queue = 'long' - cpus = 36 - time = 21.d - } - {{ end }} - withLabel: process_low { - cpus = 2 - memory = 4.GB - time = 1.h - {{ if (eq .chezmoi.hostname "ceres") }}queue = 'short'{{ end }} + tananda { + params { + config_profile_description = 'KSU VDL Molecular NGS Desktop profile' + config_profile_contact = 'Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>' + config_profile_url = null + + max_memory = 14.GB + max_cpus = 12 + max_time = 4.h + } + docker { + enabled = true + userEmulation = true + envWhitelist = 'NCBI_API_KEY' + } + process { + executor = 'local' + } } } -{{ end }}