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Extra dmf command in get files from dmf (after EMAN run on garibaldi) that is not needed #1090

Closed leginonbot closed 5 months ago

leginonbot commented 6 months ago

Author Name: Bridget Carragher (@bcarr-czi) Original Redmine Issue: 1090, https://emg.nysbc.org/redmine/issues/1090 Original Date: 2010-12-15 Original Assignee: Amber Herold

I don't think we need the dmf command: dmf get /home/bcarr/appion/10may20c/recon/emanrecon3/*.job /ami/data15/appion/10may20c/recon/emanrecon3/. in the get files form dmf after an EMAN run.
It is not a problem but just should be removed so as not to confuse people. Right now is just generates and error and you can continue.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Anchi Cheng (@anchi2c) Original Date: 2010-12-16T17:52:58Z

Why not? The copying is used to ensure that the job file is archived in the final destination. Especially if you modified the job file on the cluster. The path to get the job file is probably set incorrectly, therefore the error. That is probably what need to be fixed.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Bridget Carragher (@bcarr-czi) Original Date: 2010-12-16T17:56:45Z

Yes I agree we need it but I think it gets scooped up with the other files? If not then yes need to fix the path.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Amber Herold (Amber Herold) Original Date: 2010-12-16T20:04:21Z

Dmitry and Christopher are tasked with deciding on a single best practice for processing on Garibaldi, implementing and documenting.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Amber Herold (Amber Herold) Original Date: 2010-12-20T18:41:04Z

From Lauren:

The "Get files from DMF" button shows up on the checkRefineJobs.php page even when the job was submitted to Guppy or Goby. This button should only exist when running on Garibaldi because Garibaldi is the only one that requires transfer from DMF. For now we can just ignore this button and go straight to "Upload EMAN results", but this should be fixed to avoid confusion.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Anchi Cheng (@anchi2c) Original Date: 2011-07-14T11:17:12Z

As a note, I found it still needed (just the tar expanding part) when it is run from garibaldi because we didn't put the tar expansion in upload and the upload web gui won't start without it decompressed.

leginonbot commented 6 months ago

Original Redmine Comment Author Name: Amber Herold (Amber Herold) Original Date: 2012-01-13T20:42:53Z

This is no longer relevant for 2.2 and I don't think we should address this in previous versions.