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Improved querying of publications and related info in AnalysisProductionsDB, and added input query to result of getProductions in the tornado handler

Ryunosuke O'Neil requested to merge roneil-ap-group-samp-by-pub into master

TODO:

  • write tests
  • how slow is TransformationClient().getBookkeepingQuery(id) ?

BEGINRELEASENOTES

*AnalysisProductionsDB NEW: Add require_has_publication boolean flag to getProductions to facilitate querying samples with publications

*AnalysisProductionsDB NEW: Add input query to transformation info of getProductions.

*AnalysisProductionsDB CHANGE: getPublications now returns samples grouped by publication number, which can be used to view all published samples (or a specific subset).

ENDRELEASENOTES

Edited by Ryunosuke O'Neil

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