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Bug #730

closed

emanJobGen.php gives garbage output directory name when the rawdata is archived

Added by Anchi Cheng over 14 years ago. Updated over 14 years ago.

Status:
Closed
Priority:
Normal
Assignee:
-
Category:
-
Target version:
Start date:
07/12/2010
Due date:
% Done:

100%

Estimated time:
Affected Version:
Pre-2.0
Show in known bugs:
No
Workaround:

Description

The archived image path does not contain "rawdata" in the name, The regular expression match failed and the output path created becomes an invalid path. This is an unusual case since I need to further process a combined stack between an active session 06jul12a and an archived session 06mar09a. Maybe we should forbid such reprocessing but I don't need the rawdata for the further processing, only the combined stack in appion which is available.

Testing:
1. provide ssh login info for the cluster at appion/processing page.
1. click to start Eman Refinement in http://cronus3.scripps.edu/myamiweb/processing/index.php?expId=3310
2. choose any initial model and the default stack to Create Job Form.
3. The output, cluster, and dmf directory are all badly formed.
output directory should be start with /ami/ and end with /appion/06mar09a/recon/
cluster directory should end with /06mar09a/recon/, so does dmf directory if available.

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