Hello all, A follow up from my previous problems on running the gromacs on glacier turned out that I had problems in installation. The guide in the manual was not clear enough. So, I installed the code fine this time, so, I get errors from 4.0.4 version. I ran the code interactively on the master node and everything went smooth and fine without any problems. But as soon as I started running it in parallel through que line, job gets killed. Following are the messages I received:
PBS Job Id: 4686006.teva.westgrid.ubc > >> Job Name: sixsite-test > >> Exec host: ice1_2/1+ice1_2/0+ice1_1/1+ice1_1/0 > >> Aborted by PBS Server > >> Job cannot be executed The error messages I receive in error file: > >> Killed by signal 2.^M > >> Killed by signal 2.^M > >> Killed by signal 2.^M Running on 4 processors. > >> Starting run at: Mon May 25 20:29:34 PDT 2009 > >> p2_11876: p4_error: Timeout in establishing connection to remote > >> process: 0 > >> p0_4273: p4_error: net_recv read: probable EOF on socket: 1 > >> Job finished at: Mon May 25 20:34:40 PDT 2009 All the clues show that the program had started working, initial conditions were reviewed by the code, but suddenly everything crashed. I really do not know where the error originates from!!! This is while my friend has compiled the code in the same way as I did, and she is running fine on another cluster. Regards, Payman _______________________________________________ gmx-users mailing list gmx-users@gromacs.org http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
