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McCleary

Beatrix McCleary Hamburg

McCleary is a shared-use resource for the Yale School of Medicine (YSM), life science researchers elsewhere on campus and projects related to the Yale Center for Genome Analysis. It consists of a variety of compute nodes networked over ethernet and mounts several shared filesystems.

McCleary is named for Beatrix McCleary Hamburg, who received her medical degree in 1948 and was the first female African American graduate of Yale School of Medicine. The McCleary HPC cluster is Yale's first direct-to-chip liquid cooled cluster, moving the YCRC and the Yale research computing community into a more environmentally friendly future.


Info

Farnam or Ruddle user? Farnam and Ruddle were both retired in summer 2023. See our explainer for what you need to know about using McCleary and how it differs from Farnam and Ruddle.

Access the Cluster

Once you have an account, the cluster can be accessed via ssh or through the Open OnDemand web portal.

System Status and Monitoring

For system status messages and the schedule for upcoming maintenance, please see the system status page. For a current node-level view of job activity, see the cluster monitor page (VPN only).

Partitions and Hardware

McCleary is made up of several kinds of compute nodes. We group them into (sometimes overlapping) Slurm partitions meant to serve different purposes. By combining the --partition and --constraint Slurm options you can more finely control what nodes your jobs can run on.

Info

YCGA sequence data user? To avoid being charged for your cpu usage for YCGA-related work, make sure to submit jobs to the ycga partition with -p ycga.

Job Submission Limits

  • You are limited to 4 interactive app instances (of any type) at one time. Additional instances will be rejected until you delete older open instances. For OnDemand jobs, closing the window does not terminate the interactive app job. To terminate the job, click the "Delete" button in your "My Interactive Apps" page in the web portal.

  • Job submissions are limited to 200 jobs per hour. See the Rate Limits section in the Common Job Failures page for more info.

Public Partitions

See each tab below for more information about the available common use partitions.

Use the day partition for most batch jobs. This is the default if you don't specify one with --partition.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the day partition are subject to the following limits:

Limit Value
Maximum job time limit 1-00:00:00
Maximum CPUs per group 512
Maximum memory per group 6000G
Maximum CPUs per user 256
Maximum memory per user 3000G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
26 8358 64 983 icelake, avx512, 8358, nogpu, bigtmp, common
14 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, common

Use the devel partition to jobs with which you need ongoing interaction. For example, exploratory analyses or debugging compilation.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the devel partition are subject to the following limits:

Limit Value
Maximum job time limit 06:00:00
Maximum CPUs per user 4
Maximum memory per user 32G
Maximum submitted jobs per user 1

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
10 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, common

Use the week partition for jobs that need a longer runtime than day allows.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the week partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00
Maximum CPUs per group 192
Maximum memory per group 2949G
Maximum CPUs per user 192
Maximum memory per user 2949G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
14 8358 64 983 icelake, avx512, 8358, nogpu, bigtmp, common
2 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, common

Use the long partition for jobs that need a longer runtime than week allows.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=7-00:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the long partition are subject to the following limits:

Limit Value
Maximum job time limit 28-00:00:00
Maximum CPUs per group 36
Maximum CPUs per user 36

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
3 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, common

Use the transfer partition to stage data for your jobs to and from cluster storage.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the transfer partition are subject to the following limits:

Limit Value
Maximum job time limit 1-00:00:00
Maximum CPUs per user 1
Maximum running jobs per user 2

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 72 8 227 milan, 72F3, nogpu, standard, common

Use the gpu partition for jobs that make use of GPUs. You must request GPUs explicitly with the --gpus option in order to use them. For example, --gpus=gtx1080ti:2 would request 2 GeForce GTX 1080Ti GPUs per node.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the gpu partition are subject to the following limits:

Limit Value
Maximum job time limit 2-00:00:00
Maximum GPUs per group 24
Maximum GPUs per user 12

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
14 6326 32 206 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, common
1 8358 64 983 a100 4 80 icelake, avx512, 8358, doubleprecision, bigtmp, common, a100-80g
1 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, bigtmp, common, a100-80G
1 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
6 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, common, bigtmp, rtx5000
3 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
1 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, common, bigtmp, a100
8 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, common, gtx1080ti
9 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, oldest, common, gtx1080ti

Use the gpu_devel partition to debug jobs that make use of GPUs, or to develop GPU-enabled code.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the gpu_devel partition are subject to the following limits:

Limit Value
Maximum job time limit 06:00:00
Maximum CPUs per user 4
Maximum memory per user 32G
Maximum submitted jobs per user 1

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 E5-2623_v4 8 38 gtx1080ti 4 11 broadwell, E5-2623_v4, singleprecision, common, gtx1080ti

Use the bigmem partition for jobs that have memory requirements other partitions can't handle.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the bigmem partition are subject to the following limits:

Limit Value
Maximum job time limit 1-00:00:00
Maximum CPUs per user 32
Maximum memory per user 3960G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
4 6346 32 3960 icelake, avx512, 6346, nogpu, bigtmp, common
3 6240 36 1486 cascadelake, avx512, 6240, nogpu, pi, bigtmp
2 6234 16 1486 cascadelake, avx512, 6234, nogpu, common, bigtmp

Use the scavenge partition to run preemptable jobs on more resources than normally allowed. For more information about scavenge, see the Scavenge documentation.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the scavenge partition are subject to the following limits:

Limit Value
Maximum job time limit 1-00:00:00
Maximum CPUs per user 1000
Maximum memory per user 20000G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
48 8362 64 479 icelake, avx512, 8362, nogpu, standard, pi
1 8358 64 983 a100 4 40 icelake, avx512, 8358, doubleprecision, bigtmp, pi, a100
20 6326 32 206 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, common
2 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, pi, a100
1 8358 64 983 a100 4 80 icelake, avx512, 8358, doubleprecision, bigtmp, common, a100-80g
4 6326 32 479 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, pi
4 6346 32 3960 icelake, avx512, 6346, nogpu, bigtmp, common
40 8358 64 983 icelake, avx512, 8358, nogpu, bigtmp, common
4 6346 32 1991 icelake, avx512, 6346, nogpu, pi
4 6240 36 352 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
42 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
4 6240 36 730 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
19 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, common
9 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
2 6240 36 167 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
1 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
6 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, common, bigtmp, rtx5000
10 8268 48 352 cascadelake, avx512, 8268, nogpu, bigtmp, pi
1 6248r 48 352 cascadelake, avx512, 6248r, nogpu, pi, bigtmp
1 6240 36 352 v100 4 16 cascadelake, avx512, 6240, pi, v100
3 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
1 6240 36 352 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
2 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, a100
1 6420 36 730 a100 4 40 cascadelake, avx512, 6420, doubleprecision, pi, bigtmp, a100
1 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, common, bigtmp, a100
1 6240 36 163 rtx3090 4 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
1 6240 36 163 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
6 6240 36 1486 cascadelake, avx512, 6240, nogpu, pi, bigtmp
2 6240 36 163 rtx2080ti 4 11 cascadelake, avx512, 6240, singleprecision, pi, bigtmp, rtx2080ti
8 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, pi, bigtmp, rtx5000
1 6242 32 981 rtx8000 2 48 cascadelake, avx512, 6242, doubleprecision, pi, bigtmp, rtx8000
2 6234 16 1486 cascadelake, avx512, 6234, nogpu, common, bigtmp
1 6226r 32 163 rtx3090 4 24 cascadelake, avx512, 6226r, doubleprecision, pi, rtx3090
1 6132 28 730 skylake, avx512, 6132, nogpu, standard, bigtmp, pi
2 6132 28 163 skylake, avx512, 6132, nogpu, standard, bigtmp, pi
2 5122 8 163 rtx2080 4 8 skylake, avx512, 5122, singleprecision, pi, rtx2080
39 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi
3 E5-2660_v4 28 227 p100 2 16 broadwell, E5-2660_v4, doubleprecision, pi, p100
11 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, common, gtx1080ti
1 E5-2637_v4 8 101 titanv 4 12 broadwell, E5-2637_v4, doubleprecision, pi, bigtmp, titanv
9 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, oldest, common, gtx1080ti
1 E7-4820_v4 40 1486 broadwell, E7-4820_v4, nogpu, pi

Use the scavenge_gpu partition to run preemptable jobs on more GPU resources than normally allowed. For more information about scavenge, see the Scavenge documentation.

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the scavenge_gpu partition are subject to the following limits:

Limit Value
Maximum job time limit 1-00:00:00
Maximum GPUs per group 100
Maximum GPUs per user 64

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 8358 64 983 a100 4 40 icelake, avx512, 8358, doubleprecision, bigtmp, pi, a100
20 6326 32 206 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, common
2 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, pi, a100
1 8358 64 983 a100 4 80 icelake, avx512, 8358, doubleprecision, bigtmp, common, a100-80g
1 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, bigtmp, pi, a100-80G
1 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, bigtmp, common, a100-80G
4 6326 32 479 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, pi
1 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
6 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, common, bigtmp, rtx5000
1 6240 36 352 v100 4 16 cascadelake, avx512, 6240, pi, v100
3 5222 8 163 rtx3090 4 24 cascadelake, avx512, 5222, doubleprecision, common, rtx3090
1 6240 36 352 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
2 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, a100
1 6420 36 730 a100 4 40 cascadelake, avx512, 6420, doubleprecision, pi, bigtmp, a100
1 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, common, bigtmp, a100
1 6240 36 163 rtx3090 4 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
1 6240 36 163 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
2 6240 36 163 rtx2080ti 4 11 cascadelake, avx512, 6240, singleprecision, pi, bigtmp, rtx2080ti
8 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, pi, bigtmp, rtx5000
1 6242 32 981 rtx8000 2 48 cascadelake, avx512, 6242, doubleprecision, pi, bigtmp, rtx8000
1 6226r 32 163 rtx3090 4 24 cascadelake, avx512, 6226r, doubleprecision, pi, rtx3090
2 5122 8 163 rtx2080 4 8 skylake, avx512, 5122, singleprecision, pi, rtx2080
3 E5-2660_v4 28 227 p100 2 16 broadwell, E5-2660_v4, doubleprecision, pi, p100
11 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, common, gtx1080ti
1 E5-2637_v4 8 101 titanv 4 12 broadwell, E5-2637_v4, doubleprecision, pi, bigtmp, titanv
9 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, oldest, common, gtx1080ti

Private Partitions

With few exceptions, jobs submitted to private partitions are not considered when calculating your group's Fairshare. Your group can purchase additional hardware for private use, which we will make available as a pi_groupname partition. These nodes are purchased by you, but supported and administered by us. After vendor support expires, we retire compute nodes. Compute nodes can range from $10K to upwards of $50K depending on your requirements. If you are interested in purchasing nodes for your group, please contact us.

PI Partitions (click to expand)

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_breaker partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
23 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_bunick partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, a100

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_butterwick partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 352 a100 4 40 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, a100

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_chenlab partition are subject to the following limits:

Limit Value
Maximum job time limit 14-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 8268 48 352 cascadelake, avx512, 8268, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=1-00:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_cryo_realtime partition are subject to the following limits:

Limit Value
Maximum job time limit 14-00:00:00
Maximum GPUs per user 12
Maximum running jobs per user 2

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, common, gtx1080ti

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=1-00:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_cryoem partition are subject to the following limits:

Limit Value
Maximum job time limit 4-00:00:00
Maximum CPUs per user 32
Maximum GPUs per user 12
Maximum running jobs per user 2

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
6 6326 32 206 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, common

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_deng partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 E5-2660_v4 28 227 p100 2 16 broadwell, E5-2660_v4, doubleprecision, pi, p100

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_dewan partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_dijk partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 352 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_dunn partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_edwards partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_falcone partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
1 6240 36 352 v100 4 16 cascadelake, avx512, 6240, pi, v100
1 6240 36 1486 cascadelake, avx512, 6240, nogpu, pi, bigtmp

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_galvani partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
7 8268 48 352 cascadelake, avx512, 8268, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_gerstein partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 6132 28 730 skylake, avx512, 6132, nogpu, standard, bigtmp, pi
2 6132 28 163 skylake, avx512, 6132, nogpu, standard, bigtmp, pi
11 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi
1 E7-4820_v4 40 1486 broadwell, E7-4820_v4, nogpu, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_gerstein_gpu partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 8358 64 983 a100 4 40 icelake, avx512, 8358, doubleprecision, bigtmp, pi, a100
1 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, bigtmp, pi, a100-80G
1 6240 36 163 rtx3090 4 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
1 6240 36 163 rtx3090 8 24 cascadelake, avx512, 6240, doubleprecision, pi, bigtmp, rtx3090
2 E5-2660_v4 28 227 p100 2 16 broadwell, E5-2660_v4, doubleprecision, pi, p100
1 E5-2637_v4 8 101 titanv 4 12 broadwell, E5-2637_v4, doubleprecision, pi, bigtmp, titanv

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_gruen partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_hall partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
2 6326 32 984 a100 4 40 icelake, avx512, 6326, doubleprecision, pi, a100
40 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_hall_bigmem partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 1486 cascadelake, avx512, 6240, nogpu, pi, bigtmp

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_jadi partition are subject to the following limits:

Limit Value
Maximum job time limit 365-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_jetz partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 8358 64 1991 icelake, avx512, 8358, nogpu, bigtmp, pi
4 6240 36 352 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi
4 6240 36 730 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_kleinstein partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_krishnaswamy partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6420 36 730 a100 4 40 cascadelake, avx512, 6420, doubleprecision, pi, bigtmp, a100

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_ma partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 8268 48 352 cascadelake, avx512, 8268, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_medzhitov partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 167 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_miranker partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 6248r 48 352 cascadelake, avx512, 6248r, nogpu, pi, bigtmp

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_ohern partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
4 8358 64 984 icelake, avx512, 8358, nogpu, bigtmp, pi
2 E5-2680_v4 28 227 broadwell, E5-2680_v4, nogpu, standard, oldest, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_reinisch partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
2 5122 8 163 rtx2080 4 8 skylake, avx512, 5122, singleprecision, pi, rtx2080

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_sestan partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 8358 64 1991 icelake, avx512, 8358, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_sigworth partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 163 rtx2080ti 4 11 cascadelake, avx512, 6240, singleprecision, pi, bigtmp, rtx2080ti

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_sindelar partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
1 6240 36 163 rtx2080ti 4 11 cascadelake, avx512, 6240, singleprecision, pi, bigtmp, rtx2080ti
1 E5-2637_v4 8 101 gtx1080ti 4 11 broadwell, E5-2637_v4, singleprecision, common, gtx1080ti

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=1-00:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_tomography partition are subject to the following limits:

Limit Value
Maximum job time limit 4-00:00:00
Maximum CPUs per user 32
Maximum GPUs per user 24
Maximum running jobs per user 2

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
8 5222 8 163 rtx5000 4 16 cascadelake, avx512, 5222, doubleprecision, pi, bigtmp, rtx5000
1 6242 32 981 rtx8000 2 48 cascadelake, avx512, 6242, doubleprecision, pi, bigtmp, rtx8000

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_townsend partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 180 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_tsang partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
4 8358 64 983 icelake, avx512, 8358, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_ya-chi_ho partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
1 8268 48 352 cascadelake, avx512, 8268, nogpu, bigtmp, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

GPU jobs need GPUs!

Jobs submitted to this partition do not request a GPU by default. You must request one with the --gpus option.

Job Limits

Jobs submitted to the pi_yong_xiong partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) GPU Type GPUs/Node vRAM/GPU (GB) Node Features
4 6326 32 479 a5000 4 24 icelake, avx512, 6326, doubleprecision, a5000, pi
1 6226r 32 163 rtx3090 4 24 cascadelake, avx512, 6226r, doubleprecision, pi, rtx3090

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the pi_zhao partition are subject to the following limits:

Limit Value
Maximum job time limit 7-00:00:00

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 6240 36 163 cascadelake, avx512, 6240, nogpu, bigtmp, standard, pi

YCGA Partitions

The following partitions are intended for projects related to the Yale Center for Genome Analysis. Please do not use these partitions for other proejcts. Access is granted on a group basis. If you need access to these partitions, please contact us to get approved and added.

YCGA Partitions (click to expand)

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the ycga partition are subject to the following limits:

Limit Value
Maximum job time limit 2-00:00:00
Maximum CPUs per group 512
Maximum memory per group 3934G
Maximum CPUs per user 256
Maximum memory per user 1916G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
40 8362 64 479 icelake, avx512, 8362, nogpu, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
2 8362 64 479 icelake, avx512, 8362, nogpu, standard, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the ycga_bigmem partition are subject to the following limits:

Limit Value
Maximum job time limit 4-00:00:00
Maximum CPUs per user 64
Maximum memory per user 1991G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
4 6346 32 1991 icelake, avx512, 6346, nogpu, pi

Request Defaults

Unless specified, your jobs will run with the following options to salloc and sbatch options for this partition.

--time=01:00:00 --nodes=1 --ntasks=1 --cpus-per-task=1 --mem-per-cpu=5120

Job Limits

Jobs submitted to the ycga_long partition are subject to the following limits:

Limit Value
Maximum job time limit 14-00:00:00
Maximum CPUs per group 64
Maximum memory per group 479G
Maximum CPUs per user 32
Maximum memory per user 239G

Available Compute Nodes

Requests for --cpus-per-task and --mem can't exceed what is available on a single compute node.

Count CPU Type CPUs/Node Memory/Node (GiB) Node Features
6 8362 64 479 icelake, avx512, 8362, nogpu, standard, pi

Public Datasets

We host datasets of general interest in a loosely organized directory tree in /gpfs/gibbs/data:

├── alphafold-2.3
├── alphafold-2.2 (deprecated)
├── alphafold-2.0 (deprecated)
├── annovar
│   └── humandb
├── cryoem
├── db
│   ├── annovar
│   ├── blast
│   ├── busco
│   └── Pfam
└── genomes
    ├── 1000Genomes
    ├── 10xgenomics
    ├── Aedes_aegypti
    ├── Bos_taurus
    ├── Chelonoidis_nigra
    ├── Danio_rerio
    ├── Drosophila_melanogaster
    ├── Gallus_gallus
    ├── hisat2
    ├── Homo_sapiens
    ├── Macaca_mulatta
    ├── Mus_musculus
    ├── Monodelphis_domestica
    ├── PhiX
    └── Saccharomyces_cerevisiae
    └── tmp
└── hisat2
    └── mouse

If you would like us to host a dataset or questions about what is currently available, please contact us.

YCGA Data

Data associated with YCGA projects and sequenceers are located on the YCGA storage system, accessible at /gpfs/ycga.

For more information on accessing this data as well as sequencing data retention polices, see the YCGA Data documentation.

Storage

McCleary has access to a number of GPFS filesystems. /vast/palmer is McCleary's primary filesystem where Home and Scratch60 directories are located. Every group on McCleary also has access to a Project allocation on the Gibbs filesytem on /gpfs/gibbs. For more details on the different storage spaces, see our Cluster Storage documentation.

You can check your current storage usage & limits by running the getquota command. Your ~/project and ~/palmer_scratch directories are shortcuts. Get a list of the absolute paths to your directories with the mydirectories command. If you want to share data in your Project or Scratch directory, see the permissions page.

For information on data recovery, see the Backups and Snapshots documentation.

Warning

Files stored in palmer_scratch are purged if they are older than 60 days. You will receive an email alert one week before they are deleted. Artificial extension of scratch file expiration is forbidden without explicit approval from the YCRC. Please purchase storage if you need additional longer term storage.

Partition Root Directory Storage File Count Backups Snapshots
home /vast/palmer/home.mccleary 125GiB/user 500,000 Yes >=2 days
project /gpfs/gibbs/project 1TiB/group, increase to 4TiB on request 5,000,000 No >=2 days
scratch /vast/palmer/scratch 10TiB/group 15,000,000 No No

Last update: February 7, 2024