[phenixbb] installing phenix on Fedora core 10
berenger at riken.jp
Thu Aug 5 17:39:50 PDT 2010
You can prepend your command with nohup:
nohup my_command &
All outputs will go to the nohup.out file.
Even if you log out of the machine or your xterm is closed, your command
will continue to run until it finishes or is killed by someone.
This is a good practice for long running calculations.
amadrona at uci.edu wrote:
> I run the jobs in the comand line in the background using & after the
> command. For some reason reason phenix is the only program that still
> displays even with & which I don't understand.
> I will try entering "screen_output &"
> Thank you. I can't believe how easy that was. My phenix.maps problem
>>> solved. It works as it should. I was also having a problem in not
>>> getting a pdb or mtz to export for wxc optimization (see below) so I
>>> rerun this tonight and hopefully everything will go smoothly. Thanks
>>> File "/usr/local/phenix-1.6-289/cctbx_project/libtbx/utils.py", line
>>> 666, in write
>>> IOError: [Errno 5] Input/output error
>> This probably means you lost your "stdout" or "stderr", e.g. by
>> starting phenix.refine and then closing the terminal window or GUI. In
>> case you run from the command line and anticipate your terminal window
>> may not survive the entire run, it is best done like this:
>> phenix.refine some.pdb some.mtz some.params >& screen_output &
>> If it happens when running from the GUI Nat may have more to say.
>> phenixbb mailing list
>> phenixbb at phenix-online.org
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> phenixbb at phenix-online.org
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