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v4.40 - variant frequency earlier, support MongoDB replica set, and more

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@dnil dnil released this 15 Oct 08:19
v4.40
224adc7
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[4.40]

Added

  • A .cff citation file
  • Phenotype search API endpoint
  • Added pagination to phenotype API
  • Extend case search to include internal MongoDB id
  • Support for connecting to a MongoDB replica set (.py config files)
  • Support for connecting to a MongoDB replica set (.yaml config files)

Fixed

  • Command to load the OMIM gene panel (scout load panel --omim)
  • Unify style of pinned and causative variants' badges on case page
  • Removed automatic spaces after punctuation in comments
  • Remove the hardcoded number of total individuals from the variant's old observations panel
  • Send delete requests to a connected Beacon using the DELETE method
  • Layout of the SNV and SV variant page - move frequency up

Changed

  • Stop updating database indexes after loading exons via command line
  • Display validation status badge also for not Sanger-sequenced variants
  • Moved Frequencies, Severity and Local observations panels up in RD variants page
  • Enabled Flask CORS to communicate CORS status to js apps
  • Moved the code preparing the transcripts overview to the backend
  • Refactored and filtered json data used in general case report
  • Changed the database used in docker-compose file to use the official MongoDB v4.4 image
  • Modified the Python (3.6, 3.8) and MongoDB (3.2, 4.4, 5.0) versions used in testing matrices (GitHub actions)
  • Capitalize case search terms on institute and dashboard pages
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