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<div class="content">
<h3 style="margin-top: 20px; margin-bottom: 10px;">
Pierre Gruet pushed to branch master at <a href="https://salsa.debian.org/med-team/igv">Debian Med / igv</a>
</h3>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
</h4>
<ul>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/0d90726e126b4ff6e8cc312c3fea218e7ba74c6e">0d90726e</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:20:40+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>New upstream version 2.15.4+dfsg</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/883ce41770cd96ac9d5f01a038f4b975cdf963cc">883ce417</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:22:58+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Update upstream source from tag 'upstream/2.15.4+dfsg'
Update to upstream version '2.15.4+dfsg'
with Debian dir 006f690604181263ff55603adb98fc736f50486e</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/896055b2999bd1da802c2a45729116b9309fdefc">896055b2</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:33:35+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Refreshing patches
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/4662a85f0c6258f28147408732e40fbad78266ce">4662a85f</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:38:15+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Raising Standards version to 4.6.2 (no change)
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/e043dfdbc917426cc41ce940767dfe6e55904c16">e043dfdb</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:38:31+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Updating changelog
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/igv/-/commit/d93dc52ce6080c70dfed51a454ad3d48a7b65b4f">d93dc52c</a></strong>
<div>
<span> by Pierre Gruet </span> <i> at 2023-01-06T22:39:15+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Upload to unstable
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
30 changed files:
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<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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</li>
<li class="file-stats">
<a href="#40104c7910825c860ed246b2c20e596b40d619cc">
<span class="deleted-file">
−
debian/patches/URLDecoder_static_method.patch
</span>
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<li class="file-stats">
<a href="#5d96552e8c5bca4a3f609dd30c4bddc71ed5ec84">
<span class="deleted-file">
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debian/patches/fix_samtools_api
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<li class="file-stats">
<a href="#2f3af890dc1e621ca8d8e2d08b3fd343f2df36ce">
<span class="deleted-file">
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debian/patches/goby_package.patch
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<li class="file-stats">
<a href="#f11af076ef5b585c32b9737349cdc89bdb5ac0a0">
<span class="deleted-file">
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debian/patches/handle_old_htsjdk.patch
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<li class="file-stats">
<a href="#c0caa7ba42838b53ff0918c9edff2ea0c0000b18">
debian/patches/omit_aws_stuff.patch
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<li class="file-stats">
<a href="#c6986a751f9c9827db0a0e0dd06df9b787b6026e">
<span class="deleted-file">
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debian/patches/omit_out_of_date_goby_tests.patch
</span>
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#e444ebf686027724485bf3a775c6cf5007472045">
src/main/java/org/broad/igv/batch/CommandExecutor.java
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<li class="file-stats">
<a href="#084e2c4ac995006a31a19d3aa090c2d082e1b692">
src/main/java/org/broad/igv/batch/CommandListener.java
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<li class="file-stats">
<a href="#58e1ad1b32e35ec2f06bf31081f346e64ec97840">
src/main/java/org/broad/igv/feature/genome/Genome.java
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<li class="file-stats">
<a href="#5f710d137fc522f2e5aa5736d4b2c36dfde1d759">
src/main/java/org/broad/igv/feature/genome/load/JsonGenomeLoader.java
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<li class="file-stats">
<a href="#36b30186dd9c423133457e90bd1ddd00f3375509">
src/main/java/org/broad/igv/feature/tribble/MUTCodec.java
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<li class="file-stats">
<a href="#1fbe95f7d61219d7d10e380a3413f01bb63cf4b4">
src/main/java/org/broad/igv/oauth/OAuthProvider.java
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<li class="file-stats">
<a href="#121ac96b8a9d6651bd548009d94eff88d25f0783">
src/main/java/org/broad/igv/prefs/Constants.java
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<a href="#d3562f010ee94d3bb81ac59b22d0df49bc47499f">
src/main/java/org/broad/igv/prefs/PreferencesManager.java
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<li class="file-stats">
<a href="#5085d8485ce8aa700106d65ce66b08b9e2905e46">
src/main/java/org/broad/igv/sam/AlignmentTrack.java
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<li class="file-stats">
<a href="#b6a5424858d145c76a4f81dccbcb618e67215371">
src/main/java/org/broad/igv/track/BlatTrack.java
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<li class="file-stats">
<a href="#9ec9988938530ddf7a1fa22ad0674388e455fdf6">
src/main/java/org/broad/igv/track/TrackLoader.java
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<a href="#d2af2c71b0ed34501a7a7b376edb8ef7971b5921">
src/main/java/org/broad/igv/ui/IGV.java
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<li class="file-stats">
<a href="#c669a13af88b30b363061d40b4bc3a9ab3b73524">
src/main/java/org/broad/igv/ui/action/LoadFromURLMenuAction.java
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<li class="file-stats">
<a href="#76320ebff53c3df001e20aeb0b6b1ba56ce9a11e">
src/main/java/org/broad/igv/ui/color/ColorUtilities.java
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<li class="file-stats">
<a href="#87c9d3b1201cb0ff53d2d4f4ba63e244041db9d3">
src/main/java/org/broad/igv/util/GoogleUtils.java
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<li class="file-stats">
<a href="#7f81fd622dae8c3d434eb259a20654815826e202">
src/main/java/org/broad/igv/util/HttpUtils.java
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<li class="file-stats">
<a href="#cb488108487ead31b6f64962f6db2a5ae5f946d5">
src/main/java/org/broad/igv/util/blat/BlatClient.java
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<li class="file-stats">
<a href="#02d377546925dc9fd6f764b946fb839187ed3ddd">
src/main/java/org/broad/igv/variant/VariantTrack.java
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<li class="file-stats">
<a href="#2d916dd28a2bedd920890b09ec4975bf9693a38b">
src/main/resources/org/broad/igv/prefs/preferences.tab
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<li class="file-stats">
<a href="#c253e86e003764d7c8fae5d4e0b0e217e88da845">
src/test/java/org/broad/igv/ui/color/ColorUtilitiesTest.java
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<li class="file-stats">
<a href="#9f388427dac905d4671e8142670f502337d6be51">
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test/batch/exit.txt
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The diff was not included because it is too large.
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</div>
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