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Sun N1 Grid Engine 6.1 User's Guide

Submitting Advanced Jobs From the Command Line

To submit the advanced job request that is shown in Figure 3–6 from the command line, type the following command:


% qsub -N Flow -p -111 -P devel -a 200012240000.00 -cwd \
 -S /bin/tcsh -o flow.out -j y -pe mpi 4-16 \
 -v SHARED_MEM=TRUE,MODEL_SIZE=LARGE \
 -ac JOB_STEP=preprocessing,PORT=1234 \
 -A FLOW -w w -m s,e -q big_q\
 -M me@myhost.com,me@other.address \
 flow.sh big.data

Default Request Files

The preceding command shows that advanced job requests can be rather complex and unwieldy, in particular if similar requests need to be submitted frequently. To avoid the cumbersome and error-prone task of entering such commands, users can embed qsub options in the script files, or use default request files. For more information, see Active Comments.

Note –

The -binary yes|no option when specified with the y argument, allows you to use qrsh to submit executable jobs without the script wrapper. See the qsub man page.

The cluster administration can set up a default request file for all grid engine system users. Users, on the other hand, can create private default request files located in their home directories. Users can also create application-specific default request files that are located in their working directories.

Default request files contain the qsub options to apply by default to the jobs in one or more lines. The location of the global cluster default request file is sge-root/cell/common/sge_request. The private general default request file is located under $HOME/.sge_request. The application-specific default request files are located under $cwd/.sge_request.

    If more than one of these files are available, the files are merged into one default request, with the following order of precedence:

  1. Application-specific default request file

  2. General private default request file

  3. Global default request file

Script embedding and the qsub command line have higher precedence than the default request files. Therefore, script embedding overrides default request file settings. The qsub command line options can override these settings again.

To discard any previous settings, use the qsub -clear command in a default request file, in embedded script commands, or in the qsub command line.

Here is an example of a private default request file:


-A myproject -cwd -M me@myhost.com -m b e
-r y -j y -S /bin/ksh

Unless overridden, for all of this user's jobs the following is true: