file_name stringlengths 6 86 | file_path stringlengths 45 249 | content stringlengths 47 6.26M | file_size int64 47 6.26M | language stringclasses 1
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Injector.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/platform/Injector.java | package de.enzaxd.viaforge.platform;
import com.viaversion.viaversion.api.platform.ViaInjector;
import com.viaversion.viaversion.libs.gson.JsonObject;
import de.enzaxd.viaforge.ViaForge;
import de.enzaxd.viaforge.handler.CommonTransformer;
public class Injector implements ViaInjector {
@Override
public void ... | 838 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
ViaConfig.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/platform/ViaConfig.java | package de.enzaxd.viaforge.platform;
import com.viaversion.viaversion.configuration.AbstractViaConfig;
import java.io.File;
import java.net.URL;
import java.util.Arrays;
import java.util.List;
import java.util.Map;
public class ViaConfig extends AbstractViaConfig {
// Based on Sponge ViaVersion
private stati... | 1,560 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
JLoggerToLog4j.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/util/JLoggerToLog4j.java | package de.enzaxd.viaforge.util;
import java.text.MessageFormat;
import java.util.logging.Level;
import java.util.logging.LogRecord;
import java.util.logging.Logger;
public class JLoggerToLog4j extends Logger {
private final org.apache.logging.log4j.Logger base;
public JLoggerToLog4j(org.apache.logging.log4j... | 1,997 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
FutureTaskId.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/util/FutureTaskId.java | package de.enzaxd.viaforge.util;
import com.viaversion.viaversion.api.platform.PlatformTask;
import java.util.concurrent.Future;
public class FutureTaskId implements PlatformTask<Future<?>> {
private final Future<?> object;
public FutureTaskId(Future<?> object) {
this.object = object;
}
@Ov... | 471 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
AttackOrder.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/util/AttackOrder.java | /*
* This code was taken from Foreheadchann/ViaMCP-Reborn as an attempt to fix Verus's Killaura flags on 1.9+
*/
package de.enzaxd.viaforge.util;
import net.minecraft.client.Minecraft;
import net.minecraft.entity.Entity;
import net.minecraft.entity.player.EntityPlayer;
import net.minecraft.util.MovingObjectPosition;... | 1,706 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
ProtocolCollection.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/de/enzaxd/viaforge/protocol/ProtocolCollection.java | package de.enzaxd.viaforge.protocol;
import com.viaversion.viaversion.api.protocol.version.ProtocolVersion;
public enum ProtocolCollection {
R1_19_4(new ProtocolVersion(762, "1.19.4")),
R1_19_3(new ProtocolVersion(761, "1.19.3")),
R1_19_2(new ProtocolVersion(760, "1.19.1/2")),
R1_19(new ProtocolVersion(... | 2,271 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
OutlineUtils.java | /FileExtraction/Java_unseen/MokkowDev_LiquidBouncePlusPlus/src/main/java/co/uk/hexeption/utils/OutlineUtils.java | package co.uk.hexeption.utils;
import net.minecraft.client.Minecraft;
import net.minecraft.client.renderer.OpenGlHelper;
import net.minecraft.client.shader.Framebuffer;
import org.lwjgl.opengl.EXTFramebufferObject;
import org.lwjgl.opengl.EXTPackedDepthStencil;
import static org.lwjgl.opengl.GL11.*;
import java.awt.*... | 4,795 | Java | .java | MokkowDev/LiquidBouncePlusPlus | 82 | 28 | 3 | 2022-07-27T12:21:34Z | 2023-12-31T08:57:34Z |
ExampleUnitTest.java | /FileExtraction/Java_unseen/Foso_JKAndroidWebserver/app/src/test/java/jensklingenberg/de/jkandroidwebserver/ExampleUnitTest.java | package jensklingenberg.de.jkandroidwebserver;
import org.junit.Test;
import static org.junit.Assert.*;
/**
* Example local unit test, which will execute on the development machine (host).
*
* @see <a href="http://d.android.com/tools/testing">Testing documentation</a>
*/
public class ExampleUnitTest {
@Test pu... | 403 | Java | .java | Foso/JKAndroidWebserver | 10 | 5 | 0 | 2017-07-31T22:16:15Z | 2018-06-03T08:25:18Z |
MainActivity.java | /FileExtraction/Java_unseen/Foso_JKAndroidWebserver/app/src/main/java/jensklingenberg/de/jkandroidwebserver/MainActivity.java | package jensklingenberg.de.jkandroidwebserver;
import android.net.wifi.WifiManager;
import android.os.Bundle;
import android.support.v7.app.AppCompatActivity;
import android.text.format.Formatter;
import android.util.Log;
import android.view.View;
import android.widget.Button;
import android.widget.TextView;
import bu... | 1,693 | Java | .java | Foso/JKAndroidWebserver | 10 | 5 | 0 | 2017-07-31T22:16:15Z | 2018-06-03T08:25:18Z |
MyHTTPD.java | /FileExtraction/Java_unseen/Foso_JKAndroidWebserver/app/src/main/java/jensklingenberg/de/jkandroidwebserver/MyHTTPD.java | package jensklingenberg.de.jkandroidwebserver;
import android.os.Environment;
import android.util.Log;
import fi.iki.elonen.NanoHTTPD;
import java.io.File;
import java.io.FileInputStream;
import java.io.FileNotFoundException;
import java.io.IOException;
/**
* Created by jens on 25.03.17.
*/
public class MyHTTPD ext... | 938 | Java | .java | Foso/JKAndroidWebserver | 10 | 5 | 0 | 2017-07-31T22:16:15Z | 2018-06-03T08:25:18Z |
ExampleInstrumentedTest.java | /FileExtraction/Java_unseen/Foso_JKAndroidWebserver/app/src/androidTest/java/jensklingenberg/de/jkandroidwebserver/ExampleInstrumentedTest.java | package jensklingenberg.de.jkandroidwebserver;
import android.content.Context;
import android.support.test.InstrumentationRegistry;
import android.support.test.runner.AndroidJUnit4;
import org.junit.Test;
import org.junit.runner.RunWith;
import static org.junit.Assert.*;
/**
* Instrumentation test, which will exec... | 758 | Java | .java | Foso/JKAndroidWebserver | 10 | 5 | 0 | 2017-07-31T22:16:15Z | 2018-06-03T08:25:18Z |
module-info.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/module-info.java | module megan {
requires transitive jloda;
requires transitive javafx.swing;
requires transitive javafx.controls;
requires transitive javafx.fxml;
requires transitive com.install4j.runtime;
requires transitive java.sql;
requires transitive jdk.httpserver;
requires Jama;
requires sis.jh... | 5,183 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IReadBlockIterator.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IReadBlockIterator.java | /*
* IReadBlockIterator.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free ... | 1,171 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReadBlockIterator.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ReadBlockIterator.java | /*
* ReadBlockIterator.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 2,251 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
DataSelection.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/DataSelection.java | /*
* DataSelection.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softw... | 1,325 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReadBlockFromBlast.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ReadBlockFromBlast.java | /*
* ReadBlockFromBlast.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free ... | 2,193 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IClassificationBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IClassificationBlock.java | /*
* IClassificationBlock.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 1,744 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReadBlockIteratorMaxCount.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ReadBlockIteratorMaxCount.java | /*
* ReadBlockIteratorMaxCount.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* th... | 1,816 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReadBlockWithLocationAdapter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ReadBlockWithLocationAdapter.java | /*
* ReadBlockWithLocationAdapter.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
*... | 4,060 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Location.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/Location.java | /*
* Location.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software F... | 2,090 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AllReadsIterator.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/AllReadsIterator.java | /*
* AllReadsIterator.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free So... | 2,171 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IMatchBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IMatchBlock.java | /*
* IMatchBlock.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softwar... | 2,724 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
TextStorageReader.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/TextStorageReader.java | /*
* TextStorageReader.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 5,595 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IReadBlockWithLocation.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IReadBlockWithLocation.java | /*
* IReadBlockWithLocation.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the F... | 1,161 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IReadBlockGetter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IReadBlockGetter.java | /*
* IReadBlockGetter.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free So... | 1,368 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
FindAllReadsIterator.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/FindAllReadsIterator.java | /*
* FindAllReadsIterator.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 2,995 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ExtractToNewDocument.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ExtractToNewDocument.java | /*
* ExtractToNewDocument.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 6,478 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
FindSelection.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/FindSelection.java | /*
* FindSelection.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softw... | 2,444 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IReadBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IReadBlock.java | /*
* IReadBlock.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software... | 3,151 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IConnector.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IConnector.java | /*
* IConnector.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software... | 5,672 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Stats.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/Stats.java | package megan.data;
import java.util.function.Function;
/**
* will be used for stats
* Daniel Huson, 11.2023
*/
public class Stats {
public static Function<Integer,Boolean> count = c->true;
}
| 198 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IName2IdMap.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IName2IdMap.java | /*
* IName2IdMap.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softwar... | 1,122 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MatchBlockWithLocationAdapter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/MatchBlockWithLocationAdapter.java | /*
* MatchBlockWithLocationAdapter.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
... | 3,870 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
TextStoragePolicy.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/TextStoragePolicy.java | /*
* TextStoragePolicy.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 2,217 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReadBlockIteratorCombiner.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/ReadBlockIteratorCombiner.java | /*
* ReadBlockIteratorCombiner.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* th... | 2,845 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IMatchBlockWithLocation.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IMatchBlockWithLocation.java | /*
* IMatchBlockWithLocation.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the ... | 1,028 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
UpdateItem.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/UpdateItem.java | /*
* UpdateItem.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software... | 3,078 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MatchBlockFromBlast.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/MatchBlockFromBlast.java | /*
* MatchBlockFromBlast.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free... | 1,629 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
LocationManager.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/LocationManager.java | /*
* LocationManager.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 4,225 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
UpdateItemList.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/UpdateItemList.java | /*
* UpdateItemList.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Soft... | 8,389 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IReadBlockIteratorFromBlast.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/IReadBlockIteratorFromBlast.java | /*
* IReadBlockIteratorFromBlast.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* ... | 1,380 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MergeReadBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/merge/MergeReadBlock.java | package megan.data.merge;
import megan.data.IMatchBlock;
import megan.data.IReadBlock;
/**
* readblock used in bundle
* The getUid() methods contains the file number in its two most signficant bytes
*/
public class MergeReadBlock implements IReadBlock {
private final IReadBlock readBlock;
private final int fileN... | 2,957 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MergeReaderGetter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/merge/MergeReaderGetter.java | package megan.data.merge;
import jloda.util.FunctionWithIOException;
import megan.data.IReadBlock;
import megan.data.IReadBlockGetter;
import java.io.IOException;
import java.util.*;
/**
* read getter for a bundle of files
* Daniel Huson, 5.2022
*/
public class MergeReaderGetter implements IReadBlockGetter {
pri... | 1,807 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MergeConnector.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/merge/MergeConnector.java | package megan.data.merge;
import jloda.util.BiFunctionWithIOException;
import jloda.util.FunctionWithIOException;
import jloda.util.NumberUtils;
import jloda.util.Single;
import jloda.util.progress.ProgressListener;
import megan.core.DataTable;
import megan.core.MeganFile;
import megan.core.SampleAttributeTable;
impor... | 8,640 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MergeReadIterator.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/merge/MergeReadIterator.java | package megan.data.merge;
import jloda.util.FunctionWithIOException;
import megan.core.MeganFile;
import megan.data.IReadBlock;
import megan.data.IReadBlockIterator;
import java.io.IOException;
import java.util.ArrayList;
import java.util.Iterator;
import java.util.NoSuchElementException;
/**
* iterates over all re... | 2,078 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MergeClassificationBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/data/merge/MergeClassificationBlock.java | package megan.data.merge;
import megan.core.MeganFile;
import megan.data.IClassificationBlock;
import java.io.IOException;
import java.util.*;
public class MergeClassificationBlock implements IClassificationBlock {
private final ArrayList<MeganFile> files=new ArrayList<>();
private Map<Integer, Integer> id2sum;
... | 2,331 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Megan6.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/main/Megan6.java | /*
* Megan6.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Fou... | 8,186 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Version.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/main/Version.java | /*
* Version.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Fo... | 1,086 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
CheckForUpdate.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/main/CheckForUpdate.java | /*
* CheckForUpdate.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Soft... | 3,876 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
MeganProperties.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/main/MeganProperties.java | /*
* MeganProperties.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 9,382 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
WordCountAnalysis.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/WordCountAnalysis.java | /*
* WordCountAnalysis.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 8,155 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AlignmentViewer.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/AlignmentViewer.java | /*
* AlignmentViewer.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 34,046 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ComputeAlignmentProperties.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/ComputeAlignmentProperties.java | /*
* ComputeAlignmentProperties.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* t... | 5,452 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
GUIConfiguration.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/GUIConfiguration.java | /*
* GUIConfiguration.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free So... | 4,070 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Blast2Alignment.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/Blast2Alignment.java | /*
* Blast2Alignment.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 37,419 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AlignmentExporter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/AlignmentExporter.java | /*
* AlignmentExporter.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 19,680 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AnimatedRectangle.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/AnimatedRectangle.java | /*
* AnimatedRectangle.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free S... | 5,050 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
GapColumnContractor.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/GapColumnContractor.java | /*
* GapColumnContractor.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free... | 7,436 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
BasePanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/BasePanel.java | /*
* BasePanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software ... | 4,426 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ReferencePanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/ReferencePanel.java | /*
* ReferencePanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Soft... | 15,571 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Alignment.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/Alignment.java | /*
* Alignment.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software ... | 20,872 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AlignmentPanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/AlignmentPanel.java | /*
* AlignmentPanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Soft... | 29,606 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ScrollPaneAdjuster.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/ScrollPaneAdjuster.java | /*
* ScrollPaneAdjuster.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free ... | 3,263 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AlignmentViewerPanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/AlignmentViewerPanel.java | /*
* AlignmentViewerPanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 30,693 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
SelectedBlock.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/SelectedBlock.java | /*
* SelectedBlock.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softw... | 7,619 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
NamesPanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/NamesPanel.java | /*
* NamesPanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software... | 10,898 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
Lane.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/Lane.java | /*
* Lane.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Found... | 7,890 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AxisPanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/AxisPanel.java | /*
* AxisPanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software ... | 13,280 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
RowCompressor.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/RowCompressor.java | /*
* RowCompressor.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softw... | 6,558 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ConsensusPanel.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/ConsensusPanel.java | /*
* ConsensusPanel.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Soft... | 15,673 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ISelectionListener.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/ISelectionListener.java | /*
* ISelectionListener.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free ... | 1,033 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
AlignmentSorter.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/AlignmentSorter.java | /*
* AlignmentSorter.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 11,316 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsDefault.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsDefault.java | /*
* ColorSchemeAminoAcidsDefault.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
*... | 2,431 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsZappo.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsZappo.java | /*
* ColorSchemeAminoAcidsZappo.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* t... | 1,817 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
IColorScheme.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/IColorScheme.java | /*
* IColorScheme.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softwa... | 1,011 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsPDNA.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsPDNA.java | /*
* ColorSchemeAminoAcidsPDNA.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* th... | 1,704 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeBase.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeBase.java | /*
* ColorSchemeBase.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 1,776 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcids.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcids.java | /*
* ColorSchemeAminoAcids.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fr... | 2,617 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsClustalX.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsClustalX.java | /*
* ColorSchemeAminoAcidsClustalX.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
... | 1,862 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeNucleotidesDefault.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeNucleotidesDefault.java | /*
* ColorSchemeNucleotidesDefault.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
... | 1,605 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsMAEditor.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsMAEditor.java | /*
* ColorSchemeAminoAcidsMAEditor.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
... | 1,953 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeText.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeText.java | /*
* ColorSchemeText.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Sof... | 1,124 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeAminoAcidsCINEMA.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeAminoAcidsCINEMA.java | /*
* ColorSchemeAminoAcidsCINEMA.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* ... | 1,849 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ColorSchemeNucleotides.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/gui/colors/ColorSchemeNucleotides.java | /*
* ColorSchemeNucleotides.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the F... | 2,102 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ShowInsertionsCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ShowInsertionsCommand.java | /*
* ShowInsertionsCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fr... | 3,272 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ZoomToSelectionCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ZoomToSelectionCommand.java | /*
* ZoomToSelectionCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the F... | 2,289 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ExportConsensusCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ExportConsensusCommand.java | /*
* ExportConsensusCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the F... | 4,920 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ShowReferenceCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ShowReferenceCommand.java | /*
* ShowReferenceCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 3,462 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
CopyConsensusCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/CopyConsensusCommand.java | /*
* CopyConsensusCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 2,065 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ExpandHorizontalCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ExpandHorizontalCommand.java | /*
* ExpandHorizontalCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the ... | 3,002 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ExportAlignmentCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ExportAlignmentCommand.java | /*
* ExportAlignmentCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the F... | 4,938 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ShowAminoAcidsCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ShowAminoAcidsCommand.java | /*
* ShowAminoAcidsCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fr... | 3,350 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
CopyReferenceCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/CopyReferenceCommand.java | /*
* CopyReferenceCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 2,065 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ContractHorizontalCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ContractHorizontalCommand.java | /*
* ContractHorizontalCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* th... | 1,878 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ZoomCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ZoomCommand.java | /*
* ZoomCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Softwar... | 3,221 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ShowConsensusCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ShowConsensusCommand.java | /*
* ShowConsensusCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Fre... | 3,410 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ContractVerticalCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ContractVerticalCommand.java | /*
* ContractVerticalCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the ... | 1,864 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
ResetZoomCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/ResetZoomCommand.java | /*
* ResetZoomCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free So... | 1,748 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
SetAminoAcidColorSchemeCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/SetAminoAcidColorSchemeCommand.java | /*
* SetAminoAcidColorSchemeCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
... | 3,997 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
SetColorMatchesVsReferenceCommand.java | /FileExtraction/Java_unseen/husonlab_megan-ce/src/megan/alignment/commands/SetColorMatchesVsReferenceCommand.java | /*
* SetColorMatchesVsReferenceCommand.java Copyright (C) 2024 Daniel H. Huson
*
* (Some files contain contributions from other authors, who are then mentioned separately.)
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published ... | 3,488 | Java | .java | husonlab/megan-ce | 62 | 21 | 18 | 2016-05-09T10:55:38Z | 2024-02-22T23:23:42Z |
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