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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/libbiod">Debian Med / libbiod</a>
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<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/libbiod/commit/5b9d4a3272cca1a670ed4230913f6a74753e7528">5b9d4a32</a></strong>
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<span>by Andreas Tille</span>
<i>at 2018-08-29T18:38:10Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fix expression conversion
</pre>
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<strong><a href="https://salsa.debian.org/med-team/libbiod/commit/d8d8130a7a62453b35ada2881297718efd258d11">d8d8130a</a></strong>
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<span>by Andreas Tille</span>
<i>at 2018-08-29T18:41:13Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
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<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#db23db9ddc3dadbdfea53bcc21fc0d14eae74e3c">
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+
debian/patches/0017_fix_expression_conversion.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/libbiod/compare/43398e927132e65806f19a2fa2e0bae93acf0b1e...d8d8130a7a62453b35ada2881297718efd258d11#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">libbiod (0.1.0-6) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libbiod (0.1.0-6) <span class="idiff left right">unstable</span>; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * Point Vcs fields to salsa.debian.org</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * Standards-Version: 4.2.1</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Cherry pick patch from upstream (thanks for the hint to Matthias Klumpp)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> Closes: #907451</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Tue, 28 Aug 2018 09:57:33</span> +0200</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Wed, 29 Aug 2018 20:38:20</span> +0200</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">libbiod (0.1.0-5) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<li id="db23db9ddc3dadbdfea53bcc21fc0d14eae74e3c">
<a href="https://salsa.debian.org/med-team/libbiod/compare/43398e927132e65806f19a2fa2e0bae93acf0b1e...d8d8130a7a62453b35ada2881297718efd258d11#db23db9ddc3dadbdfea53bcc21fc0d14eae74e3c"><strong>debian/patches/0017_fix_expression_conversion.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">From: Pjotr Prins <pjotr.public01@thebird.nl></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Date: Sat, 28 Jul 2018 00:05:29 +0000</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Origin: https://github.com/biod/BioD/commit/dd07f3497979b5d7f32ad32476da5108ffc5121e</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff">Bug-Debian: https://bugs.debian.org/907451</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff">Subject: [PATCH] Fixes:</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff">BioD/bio/maf/reader.d(53): Error: cannot implicitly convert expression `this._f.byLine(cast(Flag)true, '\x0a')` of type `ByLineImpl!(char, char)` to `ByLine!(char, char)`</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff">See https://github.com/bioconda/bioconda-recipes/pull/8787#issuecomment-389195848</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff">---</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> bio/maf/reader.d | 9 +++++----</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> 1 file changed, 5 insertions(+), 4 deletions(-)</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gh" style="color: #999;">diff --git a/bio/maf/reader.d b/bio/maf/reader.d</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gh" style="color: #999;">index 708c5b3..c57decd 100644</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/bio/maf/reader.d</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/bio/maf/reader.d</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -1,6 +1,7 @@</span></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"> This file is part of BioD.</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> Copyright (C) 2013 Artem Tarasov <lomereiter@gmail.com></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ Copyright (C) 2018 Pjotr Prins <pjotr.prins@thebird.nl></span></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"> Permission is hereby granted, free of charge, to any person obtaining a</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> copy of this software and associated documentation files (the "Software"),</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -8,10 +9,10 @@</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"> the rights to use, copy, modify, merge, publish, distribute, sublicense,</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> and/or sell copies of the Software, and to permit persons to whom the</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> Software is furnished to do so, subject to the following conditions:</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- </span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"> The above copyright notice and this permission notice shall be included in</span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> all copies or substantial portions of the Software.</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;">- </span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"> THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"> FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -50,7 +51,7 @@ struct MafBlockRange {</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> this(string fn) {</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> _f = File(fn);</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- _lines = _f.byLine(KeepTerminator.yes);</span></span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ _lines = cast(LineRange)_f.byLine(KeepTerminator.yes);</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"> skipHeader();</span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="diff"> popFront();</span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -85,7 +86,7 @@ struct MafBlockRange {</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="diff"> ///</span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="diff"> class MafReader {</span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- </span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+</span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="diff"> private string _fn;</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="diff"> ///</span></pre>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/libbiod/compare/43398e927132e65806f19a2fa2e0bae93acf0b1e...d8d8130a7a62453b35ada2881297718efd258d11#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,3 +12,4 @@</td>
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">0014-Add-compareCoordinatesAndStrand-to-fix-sorting-test-.patch</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">0015-Add-Meson-build-definition.patch</span>
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<td class="diff-line-num old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
14
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">0016-fix-type-conversion.patch</span>
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<td class="diff-line-num new old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">0017_fix_expression_conversion.patch</span></pre>
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