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@miguelpmachado miguelpmachado released this 27 Nov 12:33
· 12 commits to master since this release
v4.2.1
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Learn about vigilant mode.

Change MLST QA/QC:

  • Samples with known MLST scheme but for which it was not possible to find a scheme will now raise a warning instead of fail

Saves the total number of reads and bp sequenced

Update mlst version

  • Change base image of INNUca's Docker image (to perl:5.30, a Debian 9 image) for Perl and old Kernel version compatibilities
  • Install and update mlst dependencies
  • Install Java JDK headless but provide extra font loading capabilities (mainly for FastQC, but also Trimmomatic and Pilon)

Minor changes:

  • Check if the mlst novel alleles file exists before trying to cleaning it
  • Catches subprocess error when the program to run is not installed
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