[galaxy-commits] commit/galaxy-central: natefoo: Reclaim ownership of job's working dir prior to reading stdout/stderr/ec files to avoid permissions problems.

14 Aug 2012

1 new commit in galaxy-central:


https://bitbucket.org/galaxy/galaxy-central/changeset/b4f52783c54a/
changeset:   b4f52783c54a
user:        natefoo
date:        2012-08-14 21:22:29
summary:     Reclaim ownership of job's working dir prior to reading stdout/stderr/ec files to avoid permissions problems.
affected #:  1 file

diff -r 0ef82aa1c39cfb192ed6d1c0a1ed3a1a9e103485 -r b4f52783c54ac175d306d5064ef5ab7bd5149ca9 lib/galaxy/jobs/runners/drmaa.py

--- a/lib/galaxy/jobs/runners/drmaa.py
+++ b/lib/galaxy/jobs/runners/drmaa.py
@@ -339,6 +339,8 @@
         # By default, the exit code is 0, which typically indicates success.
         exit_code = 0
         exit_code_str = "0"
+        # To ensure that files below are readable, ownership must be reclaimed first
+        drm_job_state.job_wrapper.reclaim_ownership()
         while which_try < (self.app.config.retry_job_output_collection + 1):
             try:
                 ofh = file(ofile, "r")

Repository URL: https://bitbucket.org/galaxy/galaxy-central/

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[galaxy-commits] commit/galaxy-central: natefoo: Reclaim ownership of job's working dir prior to reading stdout/stderr/ec files to avoid permissions problems.

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