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General Questions

Over Quota: My directory is full. Can I get more space?

  • HPC Storage:

    • Rarely do we increase /home directory space and ask that you please clean up any unnecessary files first.

    • To determine what is taking up space in your home directory, you can cd to our home directory, then run a du -h --max-depth=1 command to determine what’s taking up space in your home folder.

    • You may want to move files from your /home directory to your /project directory if appropriate to share with other project members, or if your data isn’t needed long term or is backed up elsewhere, you may move it to your /gscratch directory.

  • Alcova Storage:

    • Storage increases

  • If the problem persists, email arcc-help@uwyo.edu to describe your issue.

    • Any requests for quota increases must be approved by PI to which the quota increase would be billed
    Expand
    titleOver Quota: My directory is full. Can I get more space?
    How should I keep up to date with communications from ARCC?

    • Where can I check the status of ARCC Systems?

    • Where is the link to the latest announcements from arcc-announce?

    • I’m not getting messages from arcc-announce. How can I subscribe?

    • Is there documentation on known issues? Can I add something to the documentation?

      • There is a document ARCC staff maintains for known issues. The documentation of known issues on Beartooth is here, and you may e-mail us at arcc-help@uwyo.edu at any time to update documentation.

    Expand
    titleHow can I cite your department or HPC resources?

    Information for citing ARCC and our resources can be found here. Additionally, ARCC maintains a Facilities Statement available as both a 1 or 2 page document available for all researchers, here.

    Expand
    titleMy UWyo user account is locked/disabled, can ARCC restore it so I can use ARCC resources?

    My UWyo user account is locked/disabled, can ARCC restore it so I can use ARCC resources?

    • No, ARCC does not manage UWyo accounts, but to start troubleshooting, go here: Password Resets and Account Lock Outs

      • If you are an external collaborator, you will need to contact the UWIT Accounts Office to reset your password

      • Otherwise, call UW IT Helpdesk to have it unlocked at 766-HELP ( on campus: 6-4357)

      • For further information on UWyo accounts see UW Accounts FAQ

    Do I need a smart phone to use two-factor for ARCC services?

    No, there are other options:

  • You have to purchase a Yubikey and then self enroll the key or have it set up by UWIT.

    • You can enroll in any phone number or device on Duo.

    When logging into Beartooth using the landline method, type “<your password>, phone“ and your enrolled number will get a call
    Expand
    titleDo I need a smart phone to use two-factor for ARCC services?
    Does ARCC provide a document for researchers to reference in grant proposals?

    Does ARCC provide a document for researchers to reference in grant proposals?

    • Yes! ARCC maintains a facilities statement that’s available in several formats here.

    Expand
    titleAll project creations must be requested by a PI. Who counts as a PI?

    All project creations must be requested by a PI. Who counts as a PI?

    • Per ARCC Policy: “Principal Investigators (PIs) are any University of Wyoming faculty member with an extended-term position with UW.  This designation does not extend to Adjunct Faculty.”

    • Detailed information on PI qualifications may be found on our policy page here and any information on our published policy page should overrides information on the wiki which, may at times, be outdated.

    • PIs may read more about PI Responsibilities on the policy page (Under General Policies: 1 -> User Responsibilities: B -> PI Responsibilities: iii)

    Expand
    titleOver Quota: My directory is full. Can I get more space?

    Over Quota: My directory is full. Can I get more space?

    • HPC Storage:

      • Rarely do we increase /home directory space and ask that you please clean up any unnecessary files first.

      • To determine what is taking up space in your home directory, you can cd to our home directory, then run a du -h --max-depth=1 command to determine what’s taking up space in your home folder.

      • You may want to move files from your /home directory to your /project directory if appropriate to share with other project members, or if your data isn’t needed long term or is backed up elsewhere, you may move it to your /gscratch directory.

    • Alcova Storage:

      • Storage increases

    • If the problem persists, email arcc-help@uwyo.edu to describe your issue.

    • Any requests for quota increases must be approved by PI to which the quota increase would be billed.

    Does ARCC provide a document for researchers to reference in grant proposals?

    Yes! ARCC maintains a facilities statement that’s available in several formats here
    Expand
    titleDoes ARCC Can you provide a document for researchers to reference in grant proposals?
    link to your policies, and terms of use?

    ARCC publishes our policies on our main website, linked here.

    Expand
    titleDo I need a smart phone to use two-factor for ARCC services?

    Do I need a smart phone to use two-factor for ARCC services?

    • No, there are other options:

      • You have to purchase a Yubikey and then self enroll the key or have it set up by UWIT.

      • You can enroll in any phone number or device on Duo.

        • When logging into Beartooth using the landline method, type “<your password>, phone“ and your enrolled number will get a call.

    ...

    Cluster/HPC Questions

    Expand
    titleHow do I get access to the cluster?

    How do I get access to the cluster?

    PIs (Principal Investigators on research) may request a cluster project by filling out the Request New Project form and selecting the cluster name in the ‘If known, resources' section. Please see ARCC HPC Policies and HPC/HPS Account Policies on our policy page for who qualifies as a PI.

    Expand
    titleMay I have sudo access to the cluster?

    May I have sudo access to the cluster?

    Users are not permitted to have sudo access. Software can be installed anywhere that users have read/write/access (usually their associated /home, /gscratch and /project spaces. Software should be installed to one of these users associated locations.

    Users can also email arcc-help@uwyo.edu for assistance.

    Expand
    titleI can't log into Medicinebow using a web browser (OnDemand Web Interface)

    Please reference the ARCC Login Page on how to log in here, and be sure to note whether you’re account is a UWYO account or an arcc-only account.

    Expand
    titleI can't log into Medicinebow using SSH

    Medicinebow SSH Login requires setting up SSH keys on your local client and directions are specific to the operating system running on your local machine.

    Information about SSH Keys and how they work can be found here
    Windows specific directions for SSH key setup can be found here
    Mac specific directions for SSH key setup can be found here
    Linux specific directions for SSH key setup can be found here

    If you have already set up keys and are still unable to access Medicinebow, please e-mail ARCC-help@uwyo.edu

    Expand
    titleHow can I get more information about the cluster status and jobs running on the cluster currently?

    How can I get more information about the cluster status and jobs running on the cluster currently?

    Cluster usage and job information is available from a number of different locations:

    • Users can query cluster and job information as indicated here.

    • Users can get general cluster status and job information from OnDemand

    • You can see your job information from the drop down menu under Jobs->Active Jobs

      then you can expand your job ID for more information.

    • You can see overall cluster usage and status from the drop down menu under Clusters->Medicinebow System Status:

      This will display a graphic of overall usage in different partitions:

    ...

    Expand
    titleHow do I access the cluster when I am not on the UWyo network?

    How do I access the cluster when I am not on the UWyo network?

    • ARCC HPC cluster login nodes are on the Science DMZ network outside of UWyo firewalls. Meaning you can log into Beartooth from anywhere as long as you have an internet connection and a terminal or ssh client.

    Expand
    titleDo you maintain a list of software installed on the cluster?

    Yes. Our list of Medicinebow software can be found here.

    Expand
    titleI think my storage is full. How can I check?

    You can check by running an arccquota command to get a list of quotas for your /home, /gscratch, and associated /project directories, or navigating to the specific directory you’d like to check the size of, and running du -h -max-depth=1

    Expand
    titleHow do I run my code on the cluster?

    You must submit your code to the job scheduler. Running code on login nodes is not permitted.

    • For more information about the job scheduler please see our page on Slurm.

    Expand
    titleWhat is Slurm?

    Slurm is system that manages jobs on ARCC HPCs. To learn more about Slurm, click here.

    Expand
    titleHow do I check on my job and see whether it ran?

    There are a number of ways to check your jobs and get information about them. Depending on how your job was submitted, you may be provided a log or error files after the job runs.

    With OnDemand: If the job is currently running, you can check your jobs on OnDemand by clicking on Jobs in the yellow drop down menu at the top.
    Using Command Line (over SSH): Run an sacct specifying a start and end date to get jobs that ran over a specific timeframe. See here for more information on running sacct commands.

    Expand
    titleHow do I connect to Wildiris?

    Wildiris is now part of the Medicinebow cluster. Users logging into Medicinebow with an arcc-only (non-UWYO) account should follow instructions here.

    ...

    HPC Migration Questions: Beartooth to MedicineBow

    ...

    Expand
    titleI can’t access my alcova data post migration

    I can’t access my alcova data post migration

    What is the location in which you’re attempting to access your data? If you’re accessing data at: alcova.arcc.uwyo.edu\<projectname> this was the prior location for Alcova data. Alcova projects were migrated effective June 2024 to data.arcc.uwyo.edu\cluster\alcova\<projectname> and users should access data at the new location.

    If you are attempting to access your data at the new location and unable to get to it, this may be dependent on your network configuration. If you’re off campus you must connect to the UWYO network using Wyosecure VPN. Information for Wyosecure is available here.

    If you’ve attempted to access the new alcova location and are connected to Wyosecure, but are still unable to do so, please contact arcc-help@uwyo.edu for assistance.

    ...

    Expand
    titleWhat is an S3 Bucket

    What is an S3 Bucket?

    Imagine a large box in which you can store things. This box lets you put things in, take things out, and share things with our friends. An S3 bucket is similar to this “big box” concept, but to store files on the internet. S3 stands for Simple Storage Service (S3) protocol originally developed by Amazon. S3 works on object storage through a service called Ceph, provided by Red Hat Enterprise Linux. You can access our files at any time, and decide who can see or use them in the S3 bucket. Bucket permissions are typically set to public or private. If the bucket is private it’s only accessible to those with a set of keys.

    Expand
    titleHow can I access my Pathfinder storage?

    Pathfinder storage is accessed as S3 storage, and you should use an S3 client to connect to it, or an application that supports the S3 protocol. A list of S3 clients can be found here.

    Expand
    titleHow do I share my Pathfinder data?

    Pathfinder data can be shared to anyone with a URL. Information on sharing Pathfinder data using a URL can be found here. If you do not wish to share your data openly through a URL, users may be added to access Pathfinder project data by the project’s PI.

    Expand
    titleI would like to add user(s) to my Pathfinder project

    Only the project PI may change project permissions. If you are not the PI on the project, ARCC will need to obtain the PI’s approval to make changes to project permissions and add members. If you are the project PI, you may request a project change through our portal.

    Glossary