Class SnpEffCmdDownload

java.lang.Object
org.snpeff.SnpEff
org.snpeff.snpEffect.commandLine.SnpEffCmdDownload
All Implemented Interfaces:
CommandLine
public class SnpEffCmdDownload extends SnpEff
Command line program: Download and install a (pre built) database

Update: Allow multiple "compatible" databases per version For instance, SnpEff version 5.1 might use databases from SnpEff 5.0

Author:
pcingola

  • Constructor Details

    • SnpEffCmdDownload

      public SnpEffCmdDownload()

  • Method Details

    • parseArgs

      public void parseArgs(String[] args)
      Parse command line arguments
      Specified by:
      parseArgs in interface CommandLine
      Overrides:
      parseArgs in class SnpEff

    • run

      public boolean run()
      Download database from server
      Specified by:
      run in interface CommandLine
      Overrides:
      run in class SnpEff

    • usage

      public void usage(String message)
      Show 'usage;' message and exit with an error code '-1'
      Specified by:
      usage in interface CommandLine
      Overrides:
      usage in class SnpEff