Package org.snpeff.snpEffect.commandLine
Interface CommandLine
- All Known Subinterfaces:
VcfAnnotator
- All Known Implementing Classes:
FastqSplit
,SnpEff
,SnpEffCmdAcat
,SnpEffCmdBuild
,SnpEffCmdBuildNextProt
,SnpEffCmdCds
,SnpEffCmdClosest
,SnpEffCmdCount
,SnpEffCmdDatabases
,SnpEffCmdDownload
,SnpEffCmdDump
,SnpEffCmdEff
,SnpEffCmdGenes2Bed
,SnpEffCmdGsa
,SnpEffCmdLen
,SnpEffCmdPdb
,SnpEffCmdProtein
,SnpEffCmdSeq
,SnpEffCmdShow
,SnpEffCmdSpliceAnalysis
,SnpEffCmdTranslocationsReport
,VcfAnnotatorChain
public interface CommandLine
Command line and arguments
The way to run a command from 'main' is usually:
public static void main(String[] args) {
Command cmd = new Command();
cmd.parseArgs(args);
cmd.run();
}
- Author:
- pcingola
-
Method Summary
-
Method Details
-
getArgs
String[] getArgs() -
parseArgs
Parse command line arguments -
run
boolean run()Run the command -
usage
Show 'usage' message and exit with an error code '-1'
-