[phenixbb] phenix writing files with wrong job number

Billy Poon BKPoon at lbl.gov
Thu Jul 9 14:08:35 PDT 2020

Hi Todd,

Can you list the contents of the project directory that is affected? And
then list the contents of a job directory with the correct job number in
the name, but the incorrect numbers in the files? Does this happen with
every kind of job? Or does this happen with a specific program?

And does creating a new project fix the problem?


Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720
Tel: (510) 486-5709
Fax: (510) 486-5909
Web: https://phenix-online.org

On Thu, Jul 9, 2020 at 11:54 AM Green, Todd Jason <tgreen at uab.edu> wrote:

> Hello All-
> Phenix has started to write files from each job with incorrect job number
> notation. It puts them into the correct directory (ie. with correct job
> number, ex. Refine_23) but with file names having wrong job number (ie.
> where they are job number - 1, ex. protein_refine_22.pdb). This causes
> issues with the gui. I can edit the names post run, but is there a
> permanent fix. Just start a new project? Probably upgrade to the new
> version is the first choice. FYI I'm running 1.17.1-3660-000 on a macbook.
> Seems to have just started spontaneously.
> Thanks for the help-
> Todd
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