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<h3>
Steffen Möller pushed to branch master
at <a href="https://salsa.debian.org/med-team/staden-io-lib">Debian Med / staden-io-lib</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765">b27ab65f</a></strong>
<div>
<span>by Steffen Moeller</span>
<i>at 2020-05-21T00:31:14+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New version.
</pre>
</li>
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<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#918ce272ce78d364e11a56e0923b04518b26fcd8">
<span class="new-file">
+
debian/patches/usedebianhtscodecs.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="mosel"><span class="n" style="color: #333;">staden</span><span class="p">-</span><span class="n" style="color: #333;">io</span><span class="p">-</span><span class="n" style="color: #333;">lib</span> <span class="p">(</span><span class="m" style="color: #099;">1.14.12</span><span class="p">-</span><span class="m" style="color: #099;">1</span><span class="p">)</span> <span class="n" style="color: #333;"><span class="idiff left right">UNRELEASED</span></span><span class="p">;</span> <span class="n" style="color: #333;">urgency</span><span class="p">=</span><span class="n" style="color: #333;">medium</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1" 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">
1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="mosel"><span class="n" style="color: #333;">staden</span><span class="p">-</span><span class="n" style="color: #333;">io</span><span class="p">-</span><span class="n" style="color: #333;">lib</span> <span class="p">(</span><span class="m" style="color: #099;">1.14.12</span><span class="p">-</span><span class="m" style="color: #099;">1</span><span class="p">)</span> <span class="n" style="color: #333;"><span class="idiff left right">unstable</span></span><span class="p">;</span> <span class="n" style="color: #333;">urgency</span><span class="p">=</span><span class="n" style="color: #333;">medium</span></span>
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2
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<td class="diff-line-num new_line" data-linenumber="2" 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">
2
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="3" 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">
3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Team</span> <span class="n" style="color: #333;">upload</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="4" 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">
4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="5" 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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<pre style="margin: 0;">+<span id="LC5" class="line" lang="mosel"> <span class="p">[</span> <span class="n" style="color: #333;">Michael</span> <span class="n" style="color: #333;">Crusoe</span> <span class="p">]</span></span>
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3
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<td class="diff-line-num new_line" data-linenumber="6" 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">
6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">New</span> <span class="n" style="color: #333;">upstream</span> <span class="k" style="font-weight: 600;">version</span></span>
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4
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<td class="diff-line-num new_line" data-linenumber="7" 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">
7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Standards</span><span class="p">-</span><span class="k" style="font-weight: 600;">Version</span><span class="p">:</span> <span class="m" style="color: #099;">4.5.0</span> <span class="p">(</span><span class="n" style="color: #333;">routine</span><span class="p">-</span><span class="n" style="color: #333;">update</span><span class="p">)</span></span>
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5
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<td class="diff-line-num new_line" data-linenumber="8" 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">
8
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">debhelper</span><span class="p">-</span><span class="n" style="color: #333;">compat</span> <span class="m" style="color: #099;">12</span> <span class="p">(</span><span class="n" style="color: #333;">routine</span><span class="p">-</span><span class="n" style="color: #333;">update</span><span class="p">)</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="6" 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">
6
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<td class="diff-line-num new_line" data-linenumber="9" 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">
9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Remove</span> <span class="n" style="color: #333;">many</span> <span class="n" style="color: #333;">patches</span> <span class="n" style="color: #333;">incorporated</span> <span class="n" style="color: #333;">upstream</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="7" 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">
7
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<td class="diff-line-num new_line" data-linenumber="10" 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">
10
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC10" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">autopkgtest</span><span class="p">:</span> <span class="n" style="color: #333;">s</span><span class="p">/</span><span class="n" style="color: #333;">ADTTMP</span><span class="p">/</span><span class="n" style="color: #333;">AUTOPKGTEST_TMP</span><span class="p">/</span><span class="n" style="color: #333;">g</span> <span class="p">(</span><span class="n" style="color: #333;">routine</span><span class="p">-</span><span class="n" style="color: #333;">update</span><span class="p">)</span></span>
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8
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<td class="diff-line-num new_line" data-linenumber="11" 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">
11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="12" 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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<pre style="margin: 0;">+<span id="LC12" class="line" lang="mosel"> <span class="p">[</span> <span class="n" style="color: #333;">Steffen</span> <span class="n" style="color: #333;">Moeller</span> <span class="p">]</span></span>
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<td class="diff-line-num new new_line" data-linenumber="13" 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">
13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Fixed</span> <span class="n" style="color: #333;">FTBFS</span> <span class="p">-</span> <span class="n" style="color: #333;">added</span> <span class="n" style="color: #333;">dep</span> <span class="n" style="color: #333;">on</span> <span class="n" style="color: #333;">libhtscodecs</span><span class="p">-</span><span class="n" style="color: #333;">dev</span> <span class="n" style="color: #333;">now</span> <span class="n" style="color: #333;">distributed</span></span>
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<td class="diff-line-num new new_line" data-linenumber="14" 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">
14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="mosel"> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">git</span> <span class="n" style="color: #333;">submodule</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">staden</span><span class="p">-</span><span class="n" style="color: #333;">io</span><span class="p">-</span><span class="n" style="color: #333;">lib</span><span class="p">.</span></span>
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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="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Rules</span><span class="p">-</span><span class="n" style="color: #333;">Requires</span><span class="p">-</span><span class="n" style="color: #333;">Root</span><span class="p">:</span> <span class="n" style="color: #333;">no</span></span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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">
16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Adjusted</span> <span class="n" style="color: #333;">library</span> <span class="k" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">name</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">updated</span> <span class="n" style="color: #333;">soversion</span> <span class="m" style="color: #099;">14</span></span>
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<td class="diff-line-num new new_line" data-linenumber="17" 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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<pre style="margin: 0;">+<span id="LC17" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Added</span> <span class="n" style="color: #333;">extra</span> <span class="n" style="color: #333;">argument</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">d</span><span class="p">-</span><span class="n" style="color: #333;">shlibmove</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">override</span> <span class="n" style="color: #333;">search</span> <span class="n" style="color: #333;">for</span></span>
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<td class="diff-line-num new new_line" data-linenumber="18" 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">
18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="mosel"> <span class="n" style="color: #333;">unversioned</span> <span class="n" style="color: #333;">libhtscodecs</span><span class="p">-</span><span class="n" style="color: #333;">dev</span> <span class="k" style="font-weight: 600;">package</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="mosel"></span>
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9
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="mosel"> <span class="p">--</span> <span class="n" style="color: #333;">Michael</span> <span class="n" style="color: #333;">R</span><span class="p">.</span> <span class="n" style="color: #333;">Crusoe</span> <span class="p"><</span><span class="n" style="color: #333;">michael</span><span class="p">.</span><span class="n" style="color: #333;">crusoe</span><span class="p">@</span><span class="n" style="color: #333;">gmail</span><span class="p">.</span><span class="n" style="color: #333;">com</span><span class="p">></span> <span class="n" style="color: #333;">Mon</span><span class="p">,</span> <span class="m" style="color: #099;">10</span> <span class="n" style="color: #333;">Feb</span> <span class="m" style="color: #099;">2020</span> <span class="m" style="color: #099;">10</span><span class="p">:</span><span class="m" style="color: #099;">51</span><span class="p">:</span><span class="m" style="color: #099;">13</span> <span class="p">+</span><span class="m" style="color: #099;">0100</span></span>
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10
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<td class="diff-line-num new_line" data-linenumber="21" 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">
21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="mosel"></span>
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<td class="diff-line-num old_line" data-linenumber="11" 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">
11
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="mosel"><span class="n" style="color: #333;">staden</span><span class="p">-</span><span class="n" style="color: #333;">io</span><span class="p">-</span><span class="n" style="color: #333;">lib</span> <span class="p">(</span><span class="m" style="color: #099;">1.14.11</span><span class="p">-</span><span class="m" style="color: #099;">6</span><span class="p">)</span> <span class="n" style="color: #333;">unstable</span><span class="p">;</span> <span class="n" style="color: #333;">urgency</span><span class="p">=</span><span class="n" style="color: #333;">medium</span></span>
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<a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</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">@@ -9,11 +9,13 @@ Priority: optional</td>
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> zlib1g-dev,</span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libcurl4-gnutls-dev | libcurl4-nss-dev,</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> libhtscodecs-dev,</span>
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12
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> d-shlibs</span>
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13
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/staden-io-lib</span>
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15
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/staden-io-lib.git</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Homepage: https://github.com/jkbonfield/io_lib</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"></span>
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18
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Package: staden-io-lib-utils</span>
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<td class="diff-line-num new_line" data-linenumber="21" 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">
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">Architecture: any</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="34" 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">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="36" 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -34,7 +36,7 @@ Description: programs for manipulating DNA sequencing files</td>
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34
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext">Package: libstaden-read-dev</span>
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<td class="diff-line-num old_line" data-linenumber="35" 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">
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext">Section: libdevel</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext">Depends: libstaden-read1<span class="idiff left right">3</span> (= ${binary:Version}),</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext">Depends: libstaden-read1<span class="idiff left right">4</span> (= ${binary:Version}),</span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"> ${misc:Depends},</span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext"> ${devlibs:Depends}</span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="plaintext">Description: development files for libstaden-read</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="46" 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">...</td>
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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">@@ -46,7 +48,7 @@ Description: development files for libstaden-read</td>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext"> interface. It has been compiled and tested on a variety of unix systems,</span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"> MacOS X and MS Windows.</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="plaintext">Package: libstaden-read1<span class="idiff left right">3</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="plaintext">Package: libstaden-read1<span class="idiff left right">4</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="plaintext">Multi-Arch: same</span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="plaintext">Section: libs</span>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">pathmax.patch</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">fix_fseeko.patch</span>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">spelling</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">usedebianhtscodecs.patch</span></pre>
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<li id="918ce272ce78d364e11a56e0923b04518b26fcd8">
<a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765#918ce272ce78d364e11a56e0923b04518b26fcd8"><strong>debian/patches/usedebianhtscodecs.patch</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="gh" style="color: #999;">Index: staden-io-lib/Makefile.am</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- staden-io-lib.orig/Makefile.am</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ staden-io-lib/Makefile.am</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">@@ -32,7 +32,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> AUTOMAKE_OPTIONS = foreign no-dependencies</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> ACLOCAL_AMFLAGS = -I m4</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-SUBDIRS = htscodecs io_lib progs tests</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+SUBDIRS = io_lib progs tests</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> man_MANS = \</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> man/man1/srf_index_hash.1 \</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gh" style="color: #999;">Index: staden-io-lib/io_lib/Makefile.am</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</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;">--- staden-io-lib.orig/io_lib/Makefile.am</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;">+++ staden-io-lib/io_lib/Makefile.am</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="p">@@ -134,6 +134,6 @@</span> libstaden_read_la_SOURCES = \</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> bgzip.h \</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> cram_block_compression.h</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-libstaden_read_la_CPPFLAGS = -I${top_srcdir} -I${top_srcdir}/htscodecs @LIBCURL_CPPFLAGS@</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+libstaden_read_la_CPPFLAGS = -I${top_srcdir} -I/usr/include/htscodecs @LIBCURL_CPPFLAGS@</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> libstaden_read_la_LDFLAGS = -version-info @VERS_CURRENT@:@VERS_REVISION@:@VERS_AGE@ </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;">-libstaden_read_la_LIBADD = @LIBZ@ @LIBCURL@ ${top_builddir}/htscodecs/htscodecs/libhtscodecs.la</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+libstaden_read_la_LIBADD = @LIBZ@ @LIBCURL@ -lhtscodecs</span></span></pre>
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<a href="https://salsa.debian.org/med-team/staden-io-lib/-/commit/b27ab65ff3033e3a02a0ade35ab5e4c1e33ae765#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -27,6 +27,7 @@ override_dh_install-arch:</td>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> --devunversioned \</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> --exclude-la \</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> --movedev "debian/tmp/usr/include" usr \</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> --override s/libhtscodecs2-dev/libhtscodecs-dev/ \</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> debian/tmp/usr/lib/*/$(libpkg).so</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"> #</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> # make sure io_lib-config --libs will not return -pie (see #825461)</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="63" 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">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="64" 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -63,6 +64,7 @@ override_dh_fixperms-indep:</td>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="plaintext">override_dh_auto_clean:</span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="plaintext"> dh_auto_clean</span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="plaintext"> rm -f tests/.done tests/data/ce\#sorted.sam tests/data/ce\#unsorted.sam</span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="plaintext"> rm -f config.sub config.guess</span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="plaintext"> ##</span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="plaintext"> ## Try to verify correct ABI version right in the beginning</span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="plaintext"> ## Strangely enough d-shlibmove fails in detecting it in this package</span>
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