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@clingen-sthlm clingen-sthlm released this 30 Nov 09:19
· 1313 commits to master since this release

feat - add HiSeq RunParameters file parser (#2653)(MINOR)

Closes #2651. Creates a child class of RunParameters that reads files from HiSeq sequencers, both 2500 and X. This is with the purpose of knowing the reads and index reads of the sequencing.

Added

  • Class RunParametersHiSeq, implementing abstract methods from parent.
  • Constants to parse the elements from the XML file
  • XMLError exception
  • Test for new class

Changed

  • Moved and renamed function node_not_found in RunParameters class to cg/io/xml.py:validate_node_exists
  • Replaced RunParametersError exception for XMLError in the validation of the nodes.

Fixed

  • Removed unused sample sheets in fixtures