Appion

h1. Useful shell commands

h3. check the status of a job

# ssh to the processing server

# <pre>qstat -au YOUR_USER_NAME</pre>

# will list your jobs

h3. make a folder writable

<pre> chmod -R g+rw eman_recon14</pre>

h3. kill a process

# Log into the machine it is running on

<pre>ssh fly</pre>

# Look for processes with your user name

<pre>ps -ef |grep [your_username]</pre>

# Kill the process using the number in the first column after your username

<pre>kill [process id]</pre>

# If the process was a copy, remove the destination folder

<pre>rm [destination folder]</pre>

# list system stats

<pre>top</pre>

h3. submit a job to a job manager

<pre>

qsub <jobfilename>

</pre>

h3. Kill a job running through the job manager

* use *qdel* <job number>

h3. Start an interactive session on a node

<pre>

qsub -I

</pre>

you can type in job file contents line by line and see results.