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nextNEOpi_v1.2.1

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@riederd riederd released this 13 Dec 07:55
· 186 commits to master since this release

This release fixes issues encountered when running nextNEOpi with the conda profile (-profile conda)

Main changes:

  • work around for incomplete GATK3 conda installation by downloading gatk3.8 jar and running gatk-register
  • fix nextNEOpi conda yml file by setting pysam version 0.16
  • use separate conda env for IGS
  • check for correct conda channels when using conda profile
  • reduce the default number of CPUs in conf/process.config example
  • add tag in collectSampleInfo process
  • doc: add a note about WGS data to README.md

Thanks to @aneichyk for reporting and testing.