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  1. Data Management
  2. DM-4693

undeclared dependencies on astropy.io and yaml

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    Details

    • Type: Story
    • Status: Done
    • Resolution: Done
    • Fix Version/s: None
    • Component/s: daf_persistence, obs_base
    • Labels:
      None
    • Sprint:
      DB_W16_01
    • Team:
      SQuaRE

      Description

      While installing the stack on a new Ubuntu 14.04 box, using system Python, I encountered test/build problems that seem to indicate undeclare dependencies:

      • daf_persistence requires a yaml python module
      • daf_butlerUtils requires astropy.io

      It was easy for me to work around these problems (with .deb packages and pip), so this is not a blocker for me, but I'm worried that we're accidentally subverting our dependency management system with some things provided by anaconda.

      (Assigning to Tim Jenness for now since he seems likely to have been involved in any previous conversations or existing tickets on this subject, and hence may be able to quickly triage).

        Attachments

          Issue Links

          blocks

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. DM-4325 investigate distributing automated lsst_apps builds

          • Done
          is blocked by

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. DM-4896 Add PyYAML EUPS package

          • Done
          is triggered by

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. DM-3591 Add support for registry-free repository

          • Done

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. DM-4171 Butler: change configuration from .paf to something else

          • Done
          is triggering

          RFC - An issue whose primary purpose is to advertise an intent and allow stakeholders to comment. RFC-125 Add pyyaml package to build

          • Implemented

            Activity

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            tjenness Tim Jenness added a comment -

            astropy was added in DM-3591 and it was noted in the pull request that this should be fixed, but only after the code had been merged. It's made worse because it's a dynamic import that only happens when the method is invoked. Nate Pease [X] is there a ticket for fixing this?

            Nate Pease [X] added the yaml dependency in DM-4171 in mid December. The new dependency on yaml was not spotted in the review. This is somewhat unfortunate as we seem to be relying on miniconda coming with yaml (lsstsw installs some items with conda during the deploy phase).

            Really we need an RFC on pyyaml adoption and to remove the astropy.io.fits code.

            Show
            tjenness Tim Jenness added a comment - astropy was added in DM-3591 and it was noted in the pull request that this should be fixed, but only after the code had been merged. It's made worse because it's a dynamic import that only happens when the method is invoked. Nate Pease [X] is there a ticket for fixing this? Nate Pease [X] added the yaml dependency in DM-4171 in mid December. The new dependency on yaml was not spotted in the review . This is somewhat unfortunate as we seem to be relying on miniconda coming with yaml ( lsstsw installs some items with conda during the deploy phase). Really we need an RFC on pyyaml adoption and to remove the astropy.io.fits code.
            Hide
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            tjenness Tim Jenness added a comment -

            Reassigned to Nate Pease [X].

            Show
            tjenness Tim Jenness added a comment - Reassigned to Nate Pease [X] .
            Hide
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            tjenness Tim Jenness added a comment -

            daf_persistence now depends explicitly on pyyaml.

            Show
            tjenness Tim Jenness added a comment - daf_persistence now depends explicitly on pyyaml .
            Hide
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            tjenness Tim Jenness added a comment -

            The daf_butlerUtils fix looks great. Thank you.

            Show
            tjenness Tim Jenness added a comment - The daf_butlerUtils fix looks great. Thank you.
            Hide
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            tjenness Tim Jenness added a comment -

            Nate Pease [X] I think you can close this ticket now. Both problems have been fixed.

            Show
            tjenness Tim Jenness added a comment - Nate Pease [X] I think you can close this ticket now. Both problems have been fixed.

              People

              Assignee:
              npease Nate Pease [X] (Inactive)
              Reporter:
              jbosch Jim Bosch
              Reviewers:
              Tim Jenness
              Watchers:
              Jim Bosch, John Swinbank, Joshua Hoblitt, Nate Pease [X] (Inactive), Tim Jenness
              Votes:
              0 Vote for this issue
              Watchers:
              5 Start watching this issue

                Dates

                Created:
                Updated:
                Resolved:

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