Get Services >  HPCBIO >  HPCBIO Portal User Guide

FAQ

  1. Browser issues
  2. Usage / Password
  3. Managing files
  4. Submitting jobs / status

 

Browser issues
  1. What browsers work well with HPCBIO Portal?

    We recommend Firefox 3 and Internet Explorer 8 and above.

Usage / Password
  1. Who may use the HPCBIO portal?

    NUS students, staff,, research who need large computational power for their research projects. Please first register for a HPC account with Computer Centre (go to NUS HPC portal).

  2. What login password do I enter?

    Use your NUSNET ID and password (also for HPC account). Login at HPCBIO portal

  3. Login messages & interpretation

    "HPC ACCOUNT LOGIN ERROR"
    Please check / verify that the correct ID and password have been entered.

  4. I forgot my HPCBIO / HPC portal password.

    You could reset / change your NUSNET password. Please check this guide on how to change your password.

Managing files
  1. What is my portal login space/directory?

    This space is the same as your home directory on HPC systems. Each user has a home quota of 4 GB.

  2. What is the portal temp space?

    Users may use /atlas3tmp which is a temporary space/directory found on HPC systems. It is meant for jobs which use large input files or generate output files. A directory /atlas3tmp/xxx has been assigned to each user where xxx is his NUSNET ID. Files in this directory will be purged if not accessed for longer than a month.

  3. How do I know if my files were uploaded successfully to my portal space?
    Check the files listed in File Manager. You may refresh the listing using the refresh button.

  4. When I click on the file to "view / edit " it, I get a message "File is too big to edit. For files larger than 1 MB, please download to your local machine to view"
    This is a limitation of the portal. The file cannot be viewed if the size is above 1 MB. Please download and view it on your local machine.

  5. Why are there a lot of "strange" files in my portal space such as lsf-*.sh, nnn.err and nnn.out? Can I delete them?
     Those files are generated by the portal when submitting your job. They are used for troubleshooting in the event of job error. You may delete the files if your job completes successfully.

Submitting jobs / status

  1. How do I check the status of my job?

    Please note the JOB ID which is returned when you submit the job. Use the Job Manager to check the status.

    If your job fails and you have trouble interpreting the messages, send us the lsf-*, *.out and *.err files associated with the job at hpcbio@nus.edu.sg.

    For applications not hosted by Computer Centre, there is usually no JobID returned and the result files are normally emailed to the user.

  2. What are the possible job status codes and what do they mean?

    Possible status values for jobs:

    1. PEND (job is pending in queue)
    2. RUN (job is running)
    3. DONE (job has completed successfully)
    4. BEING KILLED (job is killed by user)
    5. EXIT (job is killed by system or exited with error)

  3. Where are the result / output files placed?

    On successful completion of the job, the portal places the output files in the selected working / base directory.

top