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More strict form validation checks, ordered overviw genes and fixed vulnerabilities

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@northwestwitch northwestwitch released this 11 Apr 11:39
· 166 commits to main since this release
v3.5
0b7d336
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Learn about vigilant mode.

[3.5]

Added

  • New gene overview demo endpoint (/gene_overview/demo)

Changed

  • Introduced a validation to make sure d4 files are existing on disk when creating reports
  • On genes overview, incomplete transcripts, sort genes by their symbol

Fixed

  • Gunicorn HTTP Request/Response Smuggling vulnerability by updating gunicorn (22 -> 23.0.0)
  • Jinja2 vulnerabilities by updating jinja2 (3.1.4 -> 3.1.6)
  • Missing images on loading intervals documentation file
  • Missing file error when d4 file is provided as an HTTP resource to the coverage endpoints /coverage/d4/interval and /coverage/d4/interval_file and /coverage/samples/predicted_sex
  • App crashing when trying to compute completeness stats for d4 files over HTTP
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