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<h3>
Andreas Tille pushed to branch use_gradle
at <a href="https://salsa.debian.org/med-team/libsis-jhdf5-java">Debian Med / libsis-jhdf5-java</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/libsis-jhdf5-java/commit/143cfa35520e5dff3434e8a26ed90d5fe39b8788">143cfa35</a></strong>
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<span>by Andreas Tille</span>
<i>at 2018-09-20T13:45:29Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Attempt to replace ch.systemsx.cisd.args4j by org.kohsuke.args4j but failed.
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<h4>2 changed files:</h4>
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<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<a href="#223726d45923d6f110d78d41e122c1c61c2297b5">
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+
debian/patches/use_debian_packaged_args4j.patch
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<h4>Changes:</h4>
<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/libsis-jhdf5-java/commit/143cfa35520e5dff3434e8a26ed90d5fe39b8788#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">use_debian_packaged_libs.patch</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">use_jaxb.patch</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">use_debian_packaged_args4j.patch</span></pre>
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<li id="223726d45923d6f110d78d41e122c1c61c2297b5">
<a href="https://salsa.debian.org/med-team/libsis-jhdf5-java/commit/143cfa35520e5dff3434e8a26ed90d5fe39b8788#223726d45923d6f110d78d41e122c1c61c2297b5"><strong>debian/patches/use_debian_packaged_args4j.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Last-Update: Thu, 20 Sep 2018 15:11:52 +0200</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Description: Try whether we can use the Debian packaged args4j.jar instead</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> of the renamed convenience copy</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"> .</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> Unfortunately this does not work:</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> .</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> invalid Class-Path header in manifest of jar file: /usr/share/maven-repo/org/debian/maven/maven-repo-helper/debian/maven-repo-helper-debian.jar</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> ----------</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> 1. ERROR in /build/libsis-jhdf5-java-18.09.0-pre1+dfsg/source/java/ch/systemsx/cisd/hdf5/h5ar/HDF5ArchiverMain.java (at line 119)</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> @Option(name = "i", longName = "include", metaVar = "REGEX", skipForExample = true, usage = "Regex of files to include")</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> ^^^^^^^^</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> The attribute longName is undefined for the annotation type Option</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> ----------</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> 2. ERROR in /build/libsis-jhdf5-java-18.09.0-pre1+dfsg/source/java/ch/systemsx/cisd/hdf5/h5ar/HDF5ArchiverMain.java (at line 119)</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> @Option(name = "i", longName = "include", metaVar = "REGEX", skipForExample = true, usage = "Regex of files to include")</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> ^^^^^^^^^^^^^^</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> The attribute skipForExample is undefined for the annotation type Option</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> ----------</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> 3. ERROR in /build/libsis-jhdf5-java-18.09.0-pre1+dfsg/source/java/ch/systemsx/cisd/hdf5/h5ar/HDF5ArchiverMain.java (at line 122)</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> @Option(name = "e", longName = "exclude", metaVar = "REGEX", usage = "Regex of files to exclude")</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> ^^^^^^^^</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> ...</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/source/java/ch/systemsx/cisd/hdf5/h5ar/HDF5ArchiverMain.java</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/source/java/ch/systemsx/cisd/hdf5/h5ar/HDF5ArchiverMain.java</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -28,11 +28,11 @@ import hdf.hdf5lib.exceptions.HDF5Librar</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> import org.apache.commons.io.FilenameUtils;</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import ch.systemsx.cisd.args4j.Argument;</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import ch.systemsx.cisd.args4j.CmdLineException;</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import ch.systemsx.cisd.args4j.CmdLineParser;</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import ch.systemsx.cisd.args4j.ExampleMode;</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import ch.systemsx.cisd.args4j.Option;</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import org.kohsuke.args4j.Argument;</span></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import org.kohsuke.args4j.CmdLineException;</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import org.kohsuke.args4j.CmdLineParser;</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import org.kohsuke.args4j.ExampleMode;</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import org.kohsuke.args4j.Option;</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> import ch.systemsx.cisd.base.exceptions.IErrorStrategy;</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> import ch.systemsx.cisd.hdf5.BuildAndEnvironmentInfo;</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"> import ch.systemsx.cisd.hdf5.IHDF5WriterConfigurator.FileFormatVersionBounds;</span></pre>
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