78 lines
2.7 KiB
Java
78 lines
2.7 KiB
Java
package de.vanitasvitae.imi.codes;
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import java.io.File;
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import org.apache.commons.cli.CommandLine;
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import org.apache.commons.cli.CommandLineParser;
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import org.apache.commons.cli.DefaultParser;
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import org.apache.commons.cli.HelpFormatter;
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import org.apache.commons.cli.Options;
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import org.apache.commons.cli.ParseException;
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public class Main {
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private static final String NAME_JAR = "imicodes";
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private static final String HELP_HEADER = "Generate ID codes for sample tubes.";
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private static final String HELP_FOOTER = "\nAuthor: Paul Schaub <paul.schaub@wwu.de>";
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public static void main(String[] args) {
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Options options = Arguments.getCommandLineOptions();
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CommandLineParser parser = new DefaultParser();
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CommandLine arguments;
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try {
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arguments = parser.parse(options, args);
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} catch (ParseException e) {
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System.out.println(e.getMessage());
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printHelp(options);
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return;
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}
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// User issues '-h', so just show help text and exit right now.
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if (arguments.hasOption(Arguments.HELP)) {
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printHelp(options);
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return;
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}
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// Parse arguments
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String studyNumber;
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SampleType sampleType;
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int numberOfCodes;
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File outputPath;
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boolean externalBrowser;
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try {
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studyNumber = InputValidator.validateStudyNumber(arguments.getOptionValue(Arguments.STUDY_NUMBER));
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sampleType = InputValidator.validateSampleType(arguments.getOptionValue(Arguments.SAMPLE_TYPE));
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numberOfCodes = InputValidator.validateNumberOfCodes(arguments.getOptionValue(Arguments.NUMBER_CODES));
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outputPath = InputValidator.validateOutputPath(arguments.getOptionValue(Arguments.OUTPUT_DESTINATION));
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externalBrowser = arguments.hasOption(Arguments.EXTERNAL_BROWSER);
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} catch (InvalidOptionException e) {
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// Something is wrong with the users input, so exit.
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System.out.println(e.getMessage());
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return;
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}
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// Debug. TODO: Remove
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System.out.println("StudyNr: " + studyNumber + " sampleType: " + sampleType + " #codes: " + numberOfCodes
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+ " output: " + outputPath + " browser: " + externalBrowser);
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for (int i = 0; i < numberOfCodes; i++) {
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System.out.format("%s%04d%n", studyNumber + sampleType, i);
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}
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}
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/**
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* Print a descriptive help text to the console.
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*
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* @param options {@link Options} for which we want to print a help text.
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*/
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private static void printHelp(Options options) {
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HelpFormatter formatter = new HelpFormatter();
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formatter.printHelp(NAME_JAR, HELP_HEADER, options, HELP_FOOTER, true);
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}
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}
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