help monitoring jobs James Theodore Van Leuven https://conferences.xsede.org/c/message_boards/find_message?p_l_id=&messageId=583569 2013-08-26T21:00:50Z 2013-08-26T21:00:50Z

Hello,<br /><br />I could use a little help learning how to run blastx on stampede. I am struggling to learn the best way to run the program to take advantage of many cores (including the co-processors). <br /><br />I have a local database download (nr) and I have a multifasta file containing ~100,000 sequences.<br /><br />It looks like blastx version 2.2.28+ is already installed on Stampede. mpiblast is also installed, although I have no experience running it.<br /><br />As I understand it, the most resource-utilizing way to run it would be to run it on both the co-processor and the node, I&#039;m just not sure how to do so.<br /><br />Thank you for any pointers,<br /><br />-jt

James Theodore Van Leuven 2013-08-26T21:00:50Z James Theodore Van Leuven https://conferences.xsede.org/c/message_boards/find_message?p_l_id=&messageId=450926 2013-09-04T15:41:32Z 2013-02-01T21:23:20Z

thank you<br /><br />in addition to the method above, it is easy to;<br /><br />squeue | grep jvanleuv (replace with your username)<br />#this will print out the compute node your jobs are running on<br />ssh c401-101 (replace with correct node)<br />#log into the nodes identified in the first step

James Theodore Van Leuven 2013-02-01T21:23:20Z James Theodore Van Leuven https://conferences.xsede.org/c/message_boards/find_message?p_l_id=&messageId=446743 2013-01-30T15:55:55Z 2013-01-30T15:54:54Z

Hello,<br /><br />I am new to using multi-user servers with queue job submissions and am learning lots. <br /><br />Whenever I run new jobs on our local server, I like to watch cpu and memory useage. How can I do this on XSEDE servers?<br /><br />I am using Stampede, submitting jobs with sbatch. I have a job name and job ID number.<br /><br />Thank you,<br /><br />-james

James Theodore Van Leuven 2013-01-30T15:54:54Z