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grid [2017/09/27 21:13]
popel 		grid [2017/10/02 16:55]
popel [Basic usage]
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   # We have used two handy qsub parameters:   # We have used two handy qsub parameters:
   #  -cwd  ... the script is executed in the current directory (the default is your home)   #  -cwd  ... the script is executed in the current directory (the default is your home)
-  #  -j y  ... stdout and stderr outputs are merged and redirected to a file (''script.sh.o*'')+  #  -j y  ... stdout and stderr outputs are merged and redirected to a file (''script.sh.o$JOB_ID'')
   # We have also provided two parameters for our script "Hello" and "World".   # We have also provided two parameters for our script "Hello" and "World".
   # The qsub prints something like   # The qsub prints something like
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 ''qsub **-q** troja-all.q'' ''qsub **-q** troja-all.q''
 This way your job is submitted to the Troja queue. The default is ''ms-all.q''. You can also use e.g. This way your job is submitted to the Troja queue. The default is ''ms-all.q''. You can also use e.g.
-''-q "(troja*|ms*)"'' to submit on any machine in those two queues (but **don't use ''-q "*"''** as this includes also [[:gpu|gpu.q]]), +''-q '(troja*|ms*)''' to submit on any machine in those two queues (but **don't use ''-q '*'''** as this includes also [[:gpu|gpu.q]]), 
-''-q "*@hector[14]"'' to submit on hecor1 or hector4, +''-q '*@hector[14]''' to submit on hecor1 or hector4, 
-''-q "[tm]*@!(hector*|iridium)"'' to submit on any troja/ms machine except hectors and iridium.+''-q '[tm]*@!(hector*|iridium)''' to submit on any troja/ms machine except hectors and iridium.
 However, usually you should specify just the queue (troja-all.q vs. ms-all.q), not a particular machine, and instead use ''-l'' to specify the needed resources in a general way. However, usually you should specify just the queue (troja-all.q vs. ms-all.q), not a particular machine, and instead use ''-l'' to specify the needed resources in a general way.
  
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 You can change some properties of already submitted jobs, which are still waiting in the queue (//pending//). You can change some properties of already submitted jobs, which are still waiting in the queue (//pending//).
  
-''**man** qsub qstat qhold queue_conf sge_types complex''+''**man** qsub qstat qalter qhold queue_conf sge_types complex''
 Find out all the gory details which are missing here. You'll have to do it one day anyway:-). Find out all the gory details which are missing here. You'll have to do it one day anyway:-).
  
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 === qunhold === === qunhold ===
 ''~stepanek/bin/qunhold'' tries to keep the number of running SGE jobs under a given threshold: all jobs over the threshold are held. If the number of running jobs goes below the threshold (default: 100), 10 jobs (by default) are unheld. Beware: if your jobs submit new jobs, you can get far over the threshold! ''~stepanek/bin/qunhold'' tries to keep the number of running SGE jobs under a given threshold: all jobs over the threshold are held. If the number of running jobs goes below the threshold (default: 100), 10 jobs (by default) are unheld. Beware: if your jobs submit new jobs, you can get far over the threshold!
 +
 +=== sshcwd ===
 +This is useful not only when sshing to sol machines. Add the following lines to your ''~/.bashrc''.
 +
 +<code>
 +function sshcwd () {
 +  # save the current history so that it is available
 +  # immediately on the remote machine
 +  history -a;
 +  # setup the working directory by setting WD
 +  ssh -X -Y -C -t $@ "WD='$PWD' /bin/bash --login -i";
 +}
 +
 +# use WD to setup the working directory
 +if [ -n "$WD" ]; then
 +  echo "Autochanging dir to $WD" >&2
 +  cd $WD;
 +fi
 +
 +alias sol1="sshcwd sol1.ufal.hide.ms.mff.cuni.cz"
 +</code>
  
 === In-script options === === In-script options ===

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