INNUca v4.2.2 - SPAdes v3.14.0

• Change SPAdes version
  • Add SPAdes v3.14.0 and remove v3.10.1
  • Incorporate SPAdes --isolate option for estimated coverage >= 100x
• Change MLST QA/QC
  • Samples with species known MLST scheme but for which it was not possible to find a scheme will now raise a warning instead of fail
• Add more statistics
  • Save total number of reads and bp sequenced
• Change Docker image
  • Change base image to perl:5.30-slim-stretch. This allows to use most recent Perl version but keeping an old Linux distribution for old kernels compatibility.
  • Install procps to provide free package to access memory usage
  • Do a JDK headless installation
  • Add any2fasta (mlst dependency)
• Minor changes
  • Add Docker image statistics to README
• Minor fixes
  • Correct mlst installation
  • Check if the mlst novel alleles file exists before cleaning it
  • Catch subprocess error when program to run is not installed