public class RNASeqPackage extends AnalysisScript
availableParamTypes, availableScripts, binExtension, canHandleFloatValues, configFile, environmentCreated, info, mandatoryFailed, mandatoryResults, max2Conditions, name, nonDefaultScript, parameters, requiredExternalFiles, requiredParameters, requiredScripts, results, resultsFolder, scriptContent, scriptFile, scriptName, workingDirectory
Constructor and Description |
---|
RNASeqPackage(java.io.File dir) |
RNASeqPackage(java.lang.String name,
java.lang.String scriptPath,
boolean externalScript,
boolean max2Conditions,
boolean canDoFloatToo) |
Modifier and Type | Method and Description |
---|---|
static java.util.TreeMap<java.lang.String,java.lang.Class> |
getDefaultParameters() |
static java.util.TreeSet<java.lang.String> |
getDefaultRequiredFiles() |
static java.util.TreeSet<java.lang.String> |
getDefaultResults() |
static java.util.TreeSet<java.lang.String> |
getMandatoryResults() |
boolean |
mandatoryFailed() |
cleanLocalResults, cleanTempFiles, clearEnvironment, clearParameters, clearResults, createClassDescription, createConfig, createConfigFile, createEnvironment, deleteScript, exportScriptToDir, filesAreInRequirements, filesSufficed, getAvailablePackages, getAvailablePostAnalysisScripts, getAvailableScripts, getConfigFile, getConfigPath, getDescriptionFile, getInputFiles, getNotExistantResults, getParamsDescription, getScriptFile, getScriptPath, getScriptType, getWorkingDirectory, getWorkingDirectoryPath, loadUserScripts, makeDefaultScriptsFolders, parametersSufficed, passParameter, passParameters, removeScriptResults, requirementsSufficed, saveResults, setInfo, setResultAsMandatory, toBin, updateUserScripts, verifyResults
public RNASeqPackage(java.lang.String name, java.lang.String scriptPath, boolean externalScript, boolean max2Conditions, boolean canDoFloatToo)
public RNASeqPackage(java.io.File dir) throws java.lang.Exception
java.lang.Exception
public boolean mandatoryFailed()
public static java.util.TreeMap<java.lang.String,java.lang.Class> getDefaultParameters()
public static java.util.TreeSet<java.lang.String> getDefaultRequiredFiles()
public static java.util.TreeSet<java.lang.String> getDefaultResults()
public static java.util.TreeSet<java.lang.String> getMandatoryResults()