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FIX: Strict syntax for utd_juno #1079

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Merged
maxulysse merged 6 commits into from
Jun 16, 2026
Merged

FIX: Strict syntax for utd_juno #1079

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b6cba48
FIX: Strict syntax for utd_juno
maxulysse Apr 7, 2026
a286c23
code polish
maxulysse Apr 7, 2026
0421110
Merge branch 'master' into utd_juno
maxulysse Apr 14, 2026
b376fdd
add warning
maxulysse Apr 15, 2026
bc6eb49
Merge branch 'master' into utd_juno
maxulysse May 29, 2026
9fa1eec
Merge branch 'master' into utd_juno
jfy133 Jun 11, 2026
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110 changes: 56 additions & 54 deletions conf/utd_juno.config
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Original file line number Diff line number Diff line change
Expand Up @@ -4,57 +4,29 @@ params {
config_profile_contact_github = '@eternal-flame-ad'
config_profile_contact_email = 'anne.fu@utdallas.edu'
config_profile_url = 'https://hpc.utdallas.edu/systems-resources/juno/'

warning_message = {
System.out.println("WARNING: !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!")
System.out.println("WARNING:")
System.out.println("WARNING: THIS CONFIG IS NO LONGER MAINTAINED.")
System.out.println("WARNING:")
System.out.println("WARNING: THIS CONFIG IS SOON TO BE DEPRECATED DUE TO AN UPCOMING VERSION NEXTFLOW THAT WILL NOT BE BACKWARDS COMPATIBLE.")
System.out.println("WARNING:")
System.out.println("WARNING: PLEASE GET IN CONTACT WITH THE NF-CORE COMMUNITY (https://nf-co.re/join) ASAP")
System.out.println("WARNING: TO ALLOW CONTINUED USE OF YOUR CONFIG WITH NF-CORE PIPELINES")
System.out.println("WARNING:")
System.out.println("WARNING: !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!")
}.call()
}

env {
SINGULARITY_CACHEDIR="/home/$USER/scratch/singularity"
SINGULARITY_CACHEDIR="/home/${System.getenv('USER')}/scratch/singularity"
}


def select_queue_and_flags = { cpus, memory, time, accelerator ->
var accelerator_count = 0;
var accelerator_ty = null;
if (accelerator != null) {
if (accelerator instanceof Number) {
accelerator_count = accelerator;
} else if (accelerator instanceof Map) {
accelerator_ty = accelerator.type;
accelerator_count = accelerator.limit;
} else {
throw new IllegalArgumentException("Invalid `accelerator` directive value: $accelerator [${accelerator.getClass().getName()}]")
}
}

if (accelerator_count > 0) {
if (["h100", "nvidia_h100", "nvidia-h100", "nvidia_h100_80gb_hbm3"].contains(accelerator_ty)) {
// if this is a long task with a single accelarator, probably need the whole GPU
if (accelerator_count == 1 && time >= 2.h) {
return ['queue': 'h100', 'flags': "--gres=nvidia_h100_80gb_hbm3=${accelerator_count}"];
} else {
return ['queue': 'h100-2.40gb', 'flags': "--gres=nvidia_h100_80gb_hbm3=${accelerator_count}"];
}
}

if (["a30", "nvidia_a30", "nvidia-a30", "nvidia_a30_2g", "nvidia_a30_4g"].contains(accelerator_ty)) {
if (accelerator_count >= 4) {
return ['queue': 'a30-4.6gb', 'flags': "--gres=nvidia_a30=${accelerator_count}"];
} else if (accelerator_count >= 2) {
return ['queue': 'a30-2.12gb', 'flags': "--gres=nvidia_a30_2g=${accelerator_count}"];
} else if (accelerator_count >= 1) {
return ['queue': 'a30', 'flags': "--gres=nvidia_a30_1g=${accelerator_count}"];
}
}
}

if (memory >= 384.GB && memory <= 512.GB) {
return ['queue': 'h100', 'flags': ""];
}

if (memory >= 512.GB) {
return ['queue': 'a30', 'flags': ""];
}

return ['queue': 'normal', 'flags': ''];
singularity {
enabled = true
autoMounts = true
cacheDir = "/home/${System.getenv('USER')}/scratch/singularity"
}

executor {
Expand All @@ -64,19 +36,49 @@ executor {
jobName = { "${task.process.split(':').last()}" }
}

singularity {
enabled = true
autoMounts = true
cacheDir = "/home/$USER/scratch/singularity"
}

process {
executor = 'slurm'
queue = {
select_queue_and_flags(task.cpus, task.memory, task.time, task.get('accelerator')).queue
if (task.get('accelerator')?.type in ['h100', 'nvidia_h100', 'nvidia-h100', 'nvidia_h100_80gb_hbm3']) {
if (task.get('accelerator')?.limit == 1 && task.time >= 2.h) {
return 'h100'
}
return 'h100-2.40gb'
}
if (task.get('accelerator')?.type in ['a30', 'nvidia_a30', 'nvidia-a30', 'nvidia_a30_2g', 'nvidia_a30_4g']) {
if (task.get('accelerator')?.limit >= 4) {
return 'a30-4.6gb'
}
if (task.get('accelerator')?.limit >= 2) {
return 'a30-2.12gb'
}
return 'a30'
}
if (task.memory >= 384.GB && task.memory <= 512.GB) {
return 'h100'
}
if (task.memory >= 512.GB) {
return 'a30'
}
return 'normal'
}
clusterOptions = {
select_queue_and_flags(task.cpus, task.memory, task.time, task.get('accelerator')).flags
if (task.get('accelerator')?.type in ['h100', 'nvidia_h100', 'nvidia-h100', 'nvidia_h100_80gb_hbm3']) {
if (task.get('accelerator')?.limit == 1 && task.time >= 2.h) {
return "--gres=nvidia_h100_80gb_hbm3=${task.get('accelerator')?.limit}"
}
return "--gres=nvidia_h100_80gb_hbm3=${task.get('accelerator')?.limit}"
}
if (task.get('accelerator')?.type in ['a30', 'nvidia_a30', 'nvidia-a30', 'nvidia_a30_2g', 'nvidia_a30_4g']) {
if (task.get('accelerator')?.limit >= 4) {
return "--gres=nvidia_a30=${task.get('accelerator')?.limit}"
}
if (task.get('accelerator')?.limit >= 2) {
return "--gres=nvidia_a30_2g=${task.get('accelerator')?.limit}"
}
return "--gres=nvidia_a30_1g=${task.get('accelerator')?.limit}"
}
return ''
}
withLabel: gpu {
containerOptions = '--nv'
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