Freqently Asked Questions

  1. How do I get an account?
  2. How do I have software installed?
  3. Why is my job pending?
  4. When will my job start?
  5. How do you transfer files to and from the cluster?
  6. How do you edit edit files/programs on the cluster?

How do I get an account?

Have your faculty advisor or PI email sph-biostat-help@umich.edu to request an account allocation.

How do I have software installed?

Send an email to sph-biostat-help@umich.eduwith what you would like installed.

Why is my job pending?

There can be several different reasons for your job to be in the pending state. Some these reasons are but are not limited to:

  • The cluster is at full utilization and no resources are available to meet your requirements
  • You have requested more cores and or memory then are available to meet your requirements
  • All available licenses have to checked out
  • There is a reservation in place for maintenance and your job would potentially end during or after the reservation.
  • You or an administrator has placed a job on hold

When will my job start?

To view the estimated start time of your pending job(s) use the squeue command.

squeue -u $USER --start

How do you transfer files to and from the cluster?

To transfer data, or code, to and from the cluster you must use scp or sftp. There are several clients options depending on the platform of your client.

  • scp/sftp are available by default on all linux distributions
  • WinSCP for Windows provides an Explorer like interface that support drag-n-drop
  • Putty for Windows is a suite of ssh related apps, most notably the terminal appilication. It also includes utilities for scp/sftp.
  • CyberDuck for MacOSX
  • SecureShell for Windows is availble for ITS as part of the BlueDisc

How do you edit edit files/programs on the cluster?

Access to the clsuter is limited to ssh connections within a terminal which means you will need to be comfortable editing files outside of a GUI editor. There are several text editors available on the cluster. These include but aren’t limited to

  • nano probably the easiest for someone new to text editing in unix/linux. If you have used Pico, Nano will be very familiar.
  • Vim powerful editor that extends the Vi editor