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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/crac">Debian Med / crac</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/crac/-/commit/b06fb319e0be5ea29eb101997200733da8fae7a2">b06fb319</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-11-07T22:32:51+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Autopkgtest fails due to tempfile usage - use mktemp instead
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<h4>3 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<a href="#591d515b5331531e8f14b02280b3cb48e2bb72d2">
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+
debian/patches/tempfile.patch
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/crac/-/commit/b06fb319e0be5ea29eb101997200733da8fae7a2#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">crac (2.5.2+dfsg-5) <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">crac (2.5.2+dfsg-5) <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"> * Fix bashism in configure script</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Closes: #998787</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.6.0 (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Autopkgtest fails due to tempfile usage - use mktemp instead</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="LC7" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Sun, 07 Nov 2021 2<span class="idiff left right">1:43:07</span> +0100</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Sun, 07 Nov 2021 2<span class="idiff left right">2:28:49</span> +0100</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">crac (2.5.2+dfsg-4) 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="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/crac/-/commit/b06fb319e0be5ea29eb101997200733da8fae7a2#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="5" 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">@@ -5,3 +5,4 @@ use_debian_packages_libgtarrays.patch</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">reproducible_build.patch</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">cross.patch</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">bashism.patch</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">tempfile.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/crac/-/commit/b06fb319e0be5ea29eb101997200733da8fae7a2#591d515b5331531e8f14b02280b3cb48e2bb72d2"><strong>debian/patches/tempfile.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Autopkgtest fails due to tempfile usage - use mktemp instead</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Last-Update: Sun, 07 Nov 2021 21:43:07 +0100</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff">--- a/test_f/test_index.sh</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/test_f/test_index.sh</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="p">@@ -12,8 +12,8 @@</span> if [ -z "$abs_builddir" ]; then</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> fi</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> compare_dna_seq() {</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- raw_seq1=$(tempfile)</span></span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- raw_seq2=$(tempfile)</span></span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ raw_seq1=$(mktemp)</span></span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ raw_seq2=$(mktemp)</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> (grep -v '^>' $1 | tr -dc 'ACGTTacgtn ' | tr 'acgtn ' 'ACGTNN'; echo) > $raw_seq1</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> (grep -v '^>' $2 | tr -dc 'ACGTTacgtn ' | tr 'acgtn ' 'ACGTNN'; echo) > $raw_seq2</span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> diff=$(cmp -b -l $raw_seq1 $raw_seq2 | awk 'BEGIN{c=0} $3 != "N" && $5 != "N"{c++} END {print c}')</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="p">@@ -22,7 +22,7 @@</span> compare_dna_seq() {</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> error=0</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-TEMP=$(tempfile)</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;">+TEMP=$(mktemp)</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> nb_files=$(find $abs_builddir -name "*.ssa" | wc -l)</span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> i=1</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> error=0</span></pre>
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