org.icgc.dcc.portal.manifest.writer.EGAManifestWriter.java Source code

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Here is the source code for org.icgc.dcc.portal.manifest.writer.EGAManifestWriter.java

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/*
 * Copyright (c) 2016 The Ontario Institute for Cancer Research. All rights reserved.                             
 *                                                                                                               
 * This program and the accompanying materials are made available under the terms of the GNU Public License v3.0.
 * You should have received a copy of the GNU General Public License along with                                  
 * this program. If not, see <http://www.gnu.org/licenses/>.                                                     
 *                                                                                                               
 * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY                           
 * EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES                          
 * OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT                           
 * SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,                                
 * INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED                          
 * TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;                               
 * OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER                              
 * IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN                         
 * ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
 */
package org.icgc.dcc.portal.manifest.writer;

import static java.nio.charset.StandardCharsets.UTF_8;
import static java.util.stream.Collectors.toMap;
import static org.icgc.dcc.common.core.util.Joiners.WHITESPACE;

import java.io.IOException;
import java.io.OutputStream;
import java.io.OutputStreamWriter;
import java.util.Map;

import org.icgc.dcc.portal.manifest.model.ManifestFile;

import com.google.common.collect.Multimap;
import com.google.common.io.Resources;

import lombok.SneakyThrows;
import lombok.val;

public class EGAManifestWriter {

    /**
     * Constants.
     */
    private static final String MANIFEST_TEMPLATE = "/templates/manifest.ega.sh.template";

    @SneakyThrows
    public static void write(OutputStream buffer, Multimap<String, ManifestFile> bundles) {
        val mapping = resolveFileIdMap(bundles);
        val manifest = createManifest(mapping);

        val writer = new OutputStreamWriter(buffer, UTF_8);
        writer.write(manifest);
        writer.flush();
    }

    private static Map<String, String> resolveFileIdMap(Multimap<String, ManifestFile> bundles) {
        return bundles.values().stream().collect(toMap(ManifestFile::getRepoFileId, ManifestFile::getId));
    }

    @SneakyThrows
    private static String createManifest(Map<String, String> mapping) {
        val template = readTemplate();
        return template.replace("{{ repoFileIds }}", WHITESPACE.join(mapping.keySet()))
                .replace("{{ timestamp }}", System.currentTimeMillis() + "")
                .replace("{{ mapping }}", mapping.toString());
    }

    private static String readTemplate() throws IOException {
        return Resources.toString(EGAManifestWriter.class.getResource(MANIFEST_TEMPLATE), UTF_8);
    }

}