public abstract class SequenceReadArchive extends ScriptModuleImpl
Modifier and Type | Field and Description |
---|---|
static String |
DB_DIR |
protected static String |
DB_DIR_DESC |
protected static String |
DB_NAME |
static String |
SRA_ACC_LIST |
protected static String |
SRA_ACC_LIST_DESC |
static String |
SRP |
protected static String |
SRP_DESC |
GZIP_EXT, LOG_EXT, PDF_EXT, RETURN, SH_EXT, TAB_DELIM, TSV_EXT, TXT_EXT
LOG_DIR, MAIN_SCRIPT_PREFIX, NO_VERSION, OUTPUT_DIR, RES_DIR, TEMP_DIR
Constructor and Description |
---|
SequenceReadArchive() |
Modifier and Type | Method and Description |
---|---|
Boolean |
isValidProp(String property) |
buildScript, buildScriptForPairedReads, checkDependencies, executeTask, getJobParams, getMainScript, getRuntimeParams, getScriptDir, getScriptErrors, getSummary, getTimeout, getWorkerScriptFunctions, hasScripts
addGeneralProperty, addGeneralProperty, addGeneralProperty, addNewProperty, addNewProperty, cacheInputFiles, cleanUp, compareTo, equals, findModuleInputFiles, getAlias, getDescription, getDetails, getDockerImageOwner, getDockerImageTag, getFileCache, getID, getInputFiles, getLogDir, getMenuPlacement, getMetadata, getModuleDir, getOutputDir, getPostRequisiteModules, getPreRequisiteModules, getPropDefault, getPropDescMap, getPropType, getPropTypeMap, getResourceDir, getTempDir, getTitle, hashCode, init, isValidInputModule, listProps, setAlias, toString
clone, finalize, getClass, notify, notifyAll, wait, wait, wait
cleanUp, getAlias, getDockerImageName, getDockerImageOwner, getDockerImageTag, getID, getInputFiles, getLogDir, getMetadata, getModuleDir, getOutputDir, getPostRequisiteModules, getPreRequisiteModules, getPropDefault, getResourceDir, getTempDir, init, isValidInputModule, setAlias, version
protected static final String DB_NAME
public static final String DB_DIR
protected static final String DB_DIR_DESC
public static final String SRA_ACC_LIST
protected static final String SRA_ACC_LIST_DESC
public static final String SRP
protected static final String SRP_DESC
public Boolean isValidProp(String property) throws Exception
isValidProp
in class ScriptModuleImpl
Exception