Package com.compomics.cli.peptide_mapper
Class PeptideMapperCLI
java.lang.Object
com.compomics.cli.peptide_mapper.PeptideMapperCLI
public class PeptideMapperCLI extends Object
Command line peptide mapping.
- Author:
- Dominik Kopczynski
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Field Summary
Fields Modifier and Type Field Description static int
TIMEOUT_DAYS
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Constructor Summary
Constructors Constructor Description PeptideMapperCLI()
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Method Summary
Modifier and Type Method Description static void
convertSearchGUIFile(String[] args)
static void
handleError(String outputFileName, String errorMessage, Throwable e)
static void
handleParameters(String[] args)
static void
main(String[] args)
Main class.static void
printHelp()
static void
runMapping(File fastaFile, WaitingHandlerCLIImpl waitingHandlerCLIImpl, IdentificationParameters identificationParameters, String inputFileName, String outputFileName, int nCores, boolean peptideMapping)
static String
tagToString(Tag tag)
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Field Details
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TIMEOUT_DAYS
public static int TIMEOUT_DAYS
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Constructor Details
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PeptideMapperCLI
public PeptideMapperCLI()
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Method Details
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printHelp
public static void printHelp() -
main
Main class.- Parameters:
args
- command line arguments
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tagToString
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convertSearchGUIFile
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handleParameters
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handleError
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runMapping
public static void runMapping(File fastaFile, WaitingHandlerCLIImpl waitingHandlerCLIImpl, IdentificationParameters identificationParameters, String inputFileName, String outputFileName, int nCores, boolean peptideMapping)
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