public class JannovarAnnotateCSVOptions extends JannovarAnnotationOptions
| Constructor and Description |
|---|
JannovarAnnotateCSVOptions() |
| Modifier and Type | Method and Description |
|---|---|
int |
getAlt() |
int |
getChr() |
String |
getCsv() |
org.apache.commons.csv.CSVFormat |
getFormat() |
int |
getPos() |
int |
getRef() |
boolean |
isHeader() |
void |
setFromArgs(net.sourceforge.argparse4j.inf.Namespace args)
Get values from
Namespace object |
static void |
setupParser(net.sourceforge.argparse4j.inf.Subparsers subParsers)
Setup
ArgumentParser |
String |
toString() |
getDatabaseFilePath, isNt3PrimeShifting, isShowAll, isUseThreeLetterAminoAcidCode, setDatabaseFilePath, setNt3PrimeShifting, setShowAll, setupParser, setUseThreeLetterAminoAcidCodegetFtpProxy, getHttpProxy, getHttpsProxy, getVerbosity, isReportProgress, setFtpProxy, setHttpProxy, setHttpsProxy, setReportProgress, setVerbositypublic static void setupParser(net.sourceforge.argparse4j.inf.Subparsers subParsers)
ArgumentParsersubParsers - Subparsers to setuppublic void setFromArgs(net.sourceforge.argparse4j.inf.Namespace args)
throws CommandLineParsingException
JannovarBaseOptionsNamespace objectsetFromArgs in class JannovarAnnotationOptionsargs - Namespace to get the option values fromCommandLineParsingException - on problems parsing a given URLpublic int getChr()
public int getAlt()
public int getRef()
public String getCsv()
public int getPos()
public org.apache.commons.csv.CSVFormat getFormat()
public boolean isHeader()
public String toString()
toString in class JannovarAnnotationOptionsCopyright © 2016. All rights reserved.