A C E G H I O P S

A

addOption(Option) - Method in class org.pharmgkb.common.io.util.CliHelper

addOption(String, String, String) - Method in class org.pharmgkb.common.io.util.CliHelper

Add a boolean option (aka a flag).

addOption(String, String, String, boolean, String) - Method in class org.pharmgkb.common.io.util.CliHelper

Add a required option that takes an argument.

addOption(String, String, String, boolean, String, int, boolean) - Method in class org.pharmgkb.common.io.util.CliHelper

Add a required option that takes arguments.

C

CliHelper - Class in org.pharmgkb.common.io.util

This is a helper class for command line utilities to deal with command line arguments.

CliHelper(Class) - Constructor for class org.pharmgkb.common.io.util.CliHelper

Standard constructor.

close() - Method in class org.pharmgkb.common.io.google.GoogleApiHelper

close() - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

E

execute(String[], Function<CliHelper, Integer>) - Method in class org.pharmgkb.common.io.util.CliHelper

Parse arguments and execute the function.

exportToTsv(String, Path) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports sheet with the specified ID to TSV.

exportToTsv(URL, Path) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports the default sheet with the specified ID to TSV.

exportToTsv(String, Path, int) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports sheet with the specified ID to TSV.

exportToTsv(URL, Path, int) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports the specified sheet with the specified ID to TSV.

exportToTsv(String, Path, String) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports sheet with the specified ID to TSV.

exportToTsv(URL, Path, String) - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Exports the specified sheet with the specified ID to TSV.

G

getArguments() - Method in class org.pharmgkb.common.io.util.CliHelper

Gets remaining parameters.

getCredential() - Method in class org.pharmgkb.common.io.google.GoogleApiHelper

getError() - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the error that occured while parsing arguments.

getHttpTransport() - Method in class org.pharmgkb.common.io.google.GoogleApiHelper

getIntValue(String) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the int value for the given option.

getJsonFactory() - Method in class org.pharmgkb.common.io.google.GoogleApiHelper

getPath(String) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the value for the given option as a Path.

getService() - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

getSheets() - Method in class org.pharmgkb.common.io.google.GoogleSheetsHelper

Gets a list of all sheets for user.

getValidDirectory(String, boolean) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the value for the given option as a File.

getValidFile(String, boolean) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the value for the given option as a Path, that must point to an existing file.

getValue(String) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the first String value, if any, for the given option.

getValues(String) - Method in class org.pharmgkb.common.io.util.CliHelper

Gets the String values for the given option.

GoogleApiHelper - Class in org.pharmgkb.common.io.google

This helper class handles the prep for using Google API.

GoogleApiHelper(String, String, String...) - Constructor for class org.pharmgkb.common.io.google.GoogleApiHelper

Constructs a GoogleCredential.

GoogleSheetsHelper - Class in org.pharmgkb.common.io.google

This is a helper class for working with the Google Sheets API.

GoogleSheetsHelper(String, String, String) - Constructor for class org.pharmgkb.common.io.google.GoogleSheetsHelper

GoogleSheetsHelper(GoogleApiHelper, String) - Constructor for class org.pharmgkb.common.io.google.GoogleSheetsHelper

H

hasError() - Method in class org.pharmgkb.common.io.util.CliHelper

Checks whether the arguments were parsed successfully.

hasOption(String) - Method in class org.pharmgkb.common.io.util.CliHelper

Checks whether the specified option exists.

I

isHelpRequested() - Method in class org.pharmgkb.common.io.util.CliHelper

Gets whether help on command line arguments has been requested.

isVerbose() - Method in class org.pharmgkb.common.io.util.CliHelper

Gets whether to operate in verbose mode.

O

org.pharmgkb.common.io.google - package org.pharmgkb.common.io.google

org.pharmgkb.common.io.util - package org.pharmgkb.common.io.util

P

parse(String[]) - Method in class org.pharmgkb.common.io.util.CliHelper

Parses arguments.

printHelp() - Method in class org.pharmgkb.common.io.util.CliHelper

Prints the help message.

S

SHEETS_SCOPE - Static variable in class org.pharmgkb.common.io.google.GoogleSheetsHelper

A C E G H I O P S