<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN" "http://www.w3.org/TR/REC-html40/loose.dtd">
<html lang="en" style='--code-editor-font: var(--default-mono-font, "GitLab Mono"), JetBrains Mono, Menlo, DejaVu Sans Mono, Liberation Mono, Consolas, Ubuntu Mono, Courier New, andale mono, lucida console, monospace;'>
<head>
<meta content="text/html; charset=utf-8" http-equiv="Content-Type">
<title>
GitLab
</title>

<style data-premailer="ignore" type="text/css">
a { color: #1068bf; }
</style>


<style>img {
max-width: 100%; height: auto;
}
body {
font-size: .875rem;
}
body {
-webkit-text-shadow: rgba(255,255,255,.01) 0 0 1px;
}
body {
font-family: "GitLab Sans",-apple-system,BlinkMacSystemFont,"Segoe UI",Roboto,"Noto Sans",Ubuntu,Cantarell,"Helvetica Neue",sans-serif,"Apple Color Emoji","Segoe UI Emoji","Segoe UI Symbol","Noto Color Emoji"; font-size: inherit;
}
</style>
</head>
<body style='font-size: inherit; -webkit-text-shadow: rgba(255,255,255,.01) 0 0 1px; font-family: "GitLab Sans",-apple-system,BlinkMacSystemFont,"Segoe UI",Roboto,"Noto Sans",Ubuntu,Cantarell,"Helvetica Neue",sans-serif,"Apple Color Emoji","Segoe UI Emoji","Segoe UI Symbol","Noto Color Emoji";'>
<div class="content">

<h3 style="margin-top: 20px; margin-bottom: 10px;">
Steffen Möller pushed to branch master at <a href="https://salsa.debian.org/med-team/bcftools">Debian Med / bcftools</a>
</h3>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
</h4>
<ul>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/bcftools/-/commit/6794df3485ebd66f111c0ee3ed5d94e810da653c">6794df34</a></strong>
<div>
<span> by Steffen Moeller </span> <i> at 2025-08-17T20:55:21+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream version
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/bcftools/-/commit/1ceb304edaec35d1ed5e57e4aebb92ccc5c8af4c">1ceb304e</a></strong>
<div>
<span> by Steffen Moeller </span> <i> at 2025-08-17T20:55:22+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream version 1.22</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/bcftools/-/commit/fedfece516323f37cc5aff88e91f028dad6fd9bb">fedfece5</a></strong>
<div>
<span> by Steffen Moeller </span> <i> at 2025-08-17T20:55:38+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Update upstream source from tag 'upstream/1.22'

Update to upstream version '1.22'
with Debian dir 35b370725616b4f49177db6a798325ce3febb447</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/bcftools/-/commit/f7b45e3126de31802c45d8d473664942921a778f">f7b45e31</a></strong>
<div>
<span> by Steffen Moeller </span> <i> at 2025-08-17T20:55:39+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Standards-Version: 4.7.2 (routine-update)
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/bcftools/-/commit/7f818e8a29a900c7a15a0855695e5158b5b0f8f6">7f818e8a</a></strong>
<div>
<span> by Steffen Moeller </span> <i> at 2025-08-17T22:44:31+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream versionn 1.22.
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
207 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#dad57a4c245a8007c90257aef0514c8b6a0f600c">
AUTHORS
</a>
</li>
<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
</a>
</li>
<li class="file-stats">
<a href="#9f621eb5fd3bcb2fa5c7bd228c9b1ad42edc46c8">
NEWS
</a>
</li>
<li class="file-stats">
<a href="#641a99f352653ad820a68a93f5671b3ec50e4ef6">
bcftools.h
</a>
</li>
<li class="file-stats">
<a href="#b5ff23f6805c7e214151156ce56e18a4ed804010">
consensus.c
</a>
</li>
<li class="file-stats">
<a href="#cb9f132eb7ad36b0e293b828436290909d1203e3">
convert.c
</a>
</li>
<li class="file-stats">
<a href="#ffca347bb50053be91e2750c17cb4f76fe9ab21c">
csq.c
</a>
</li>
<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="#555c85016bd79aa8bbb523506af81b69d9c69534">
debian/patches/2to3.patch
</a>
</li>
<li class="file-stats">
<a href="#a6bcfca35e835c1297fe9b2d4cfe4630534f3ea5">
debian/patches/skip_new_test_failing_on_32bit.patch
</a>
</li>
<li class="file-stats">
<a href="#155bba183d1c525bb29e6a8f0a6f4d5203059fad">
doc/bcftools.1
</a>
</li>
<li class="file-stats">
<a href="#10c81da16b14b79039d2fb8ea89464665683576e">
doc/bcftools.html
</a>
</li>
<li class="file-stats">
<a href="#9a2b5aa2613ebd6ba3159cd62c01d98d9d354e6a">
doc/bcftools.txt
</a>
</li>
<li class="file-stats">
<a href="#3c41fd34a6f6633d79f03c873c93a1b2fe6e12cd">
filter.c
</a>
</li>
<li class="file-stats">
<a href="#57b07d9d9d4be0408a7601113faf3875f4c92f91">
gff.c
</a>
</li>
<li class="file-stats">
<a href="#218b1629cda113dedd236d2181c3a1c0e7a61706">
gff.h
</a>
</li>
<li class="file-stats">
<a href="#406e031b8824ea26ae0bf4d7579a1d89e3fb5906">
main.c
</a>
</li>
<li class="file-stats">
<a href="#5b427d625a9510bd2a0aafb3f099e4e083ed5d28">
<span class="new-file">
+
misc/gencode-tables
</span>
</a>
</li>
<li class="file-stats">
<a href="#743849d3bc0ef820c17fa7223b7a74b4af94c8c1">
misc/plot-vcfstats
</a>
</li>
<li class="file-stats">
<a href="#9c13d714c857f5b6654a9a8171f1ed205b34c1b0">
<span class="new-file">
+
misc/roh-viz
</span>
</a>
</li>
<li class="file-stats">
<a href="#04269b9e791695693327786c6506a3d50f46f1fa">
<span class="new-file">
+
misc/vrfs-variances
</span>
</a>
</li>
<li class="file-stats">
<a href="#d1ebbca9682a078e42dd56603975b9b66a897b61">
mpileup.c
</a>
</li>
<li class="file-stats">
<a href="#6840aeaea579d4a610f846399e1621aed5baac0c">
<span class="new-file">
+
mpileup2/mpileup.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#3cd9a907186ca052a3107d211c92e9c421626d0d">
<span class="new-file">
+
mpileup2/mpileup.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#370c68eabf5aa43a7e14b299c5ef33764a64db17">
mpileup_bench/get_data.sh
</a>
</li>
<li class="file-stats">
<a href="#aeab479a5b53e8731ba7e5f7d16ded4cb6ae9cda">
ploidy.c
</a>
</li>
<li class="file-stats">
<a href="#fc9d5b7fdf6821862f4f4b97a5d4acb5028ce2a7">
ploidy.h
</a>
</li>
<li class="file-stats">
<a href="#2550d737767f02f31c97bd5bf939805e32f62c9a">
plugins/check-sparsity.c
</a>
</li>
<li class="file-stats">
<a href="#16d330c4f5384ffc5d6fdfee3afd0dfd0f5f47c7">
plugins/contrast.c
</a>
</li>
<li class="file-stats">
<a href="#606dc0ad58a1d2e80f84db8ef7aa86a554c398f8">
plugins/fill-tags.c
</a>
</li>
<li class="file-stats">
<a href="#8e02a254703460287c486ef1f85b6ffc3dfd1fa2">
plugins/guess-ploidy.c
</a>
</li>
<li class="file-stats">
<a href="#c573c49a0cd3768ee54780fbcef120c1a061c376">
plugins/gvcfz.c
</a>
</li>
<li class="file-stats">
<a href="#9411977f338abf065a6f4b0ffb41bfdcaa55fd75">
plugins/indel-stats.c
</a>
</li>
<li class="file-stats">
<a href="#453e6eb4ec6a5c9485f74150679be9dc12c29afc">
plugins/isecGT.c
</a>
</li>
<li class="file-stats">
<a href="#a769063ade6408476ead95b1da7a1bc3f3f2a617">
plugins/mendelian2.c
</a>
</li>
<li class="file-stats">
<a href="#35795ee46109ce694f6c4f27c0eb1284fb060f91">
plugins/parental-origin.c
</a>
</li>
<li class="file-stats">
<a href="#3663acd10445e2dd5e7e52ac192cbef24e3d7e7c">
plugins/prune.c
</a>
</li>
<li class="file-stats">
<a href="#aa6a224b78beb2062985359b85bfc19e70888572">
plugins/remove-overlaps.c
</a>
</li>
<li class="file-stats">
<a href="#ab0ee64f9230441ef5044961e1a1129a9794813c">
plugins/scatter.c
</a>
</li>
<li class="file-stats">
<a href="#0fc731a88e05a5fa4a1a60976900bf441adfc2e8">
plugins/setGT.c
</a>
</li>
<li class="file-stats">
<a href="#109a45e819ce1b1336f37f7704d94f9809b6f4b2">
plugins/smpl-stats.c
</a>
</li>
<li class="file-stats">
<a href="#d6d3561ad66c91437474c71be0dc2e4a06b7a414">
plugins/split-vep.c
</a>
</li>
<li class="file-stats">
<a href="#41b0309f258cf3f0d8923b791ac14a8e8eb42d04">
plugins/split.c
</a>
</li>
<li class="file-stats">
<a href="#531b6b4370d2860168a3c66dee50bd70afeb0569">
plugins/trio-dnm2.c
</a>
</li>
<li class="file-stats">
<a href="#a800efb6a51c3fe07e11a3eaa6cca0c77378af69">
plugins/trio-stats.c
</a>
</li>
<li class="file-stats">
<a href="#c315d10c5cc15e2846cef6510bf23d789e884314">
plugins/variant-distance.c
</a>
</li>
<li class="file-stats">
<a href="#f1c04e90d1c3aaa9dc16891cc3f34ec160134921">
<span class="new-file">
+
plugins/vcf2table.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#4d65073f5f9f52785e67e37e23a00736b00491e0">
<span class="new-file">
+
plugins/vrfs.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#3457bc84dfacb055155993fe2423208b39ea8514">
<span class="new-file">
+
plugins/vrfs.mk
</span>
</a>
</li>
<li class="file-stats">
<a href="#071319df2a6f8f0e4c5793e3b05d12f4216a6531">
polysomy.c
</a>
</li>
<li class="file-stats">
<a href="#66244817901ff22c5509ef76008c3964b446b821">
read_consensus.c
</a>
</li>
<li class="file-stats">
<a href="#784083f2644755468fb5cd7c69cb5b68e6c3d3b9">
regidx.c
</a>
</li>
<li class="file-stats">
<a href="#8b6ca2674e2b3952db0f8bf9c21124153029b2be">
regidx.h
</a>
</li>
<li class="file-stats">
<a href="#be606556473975d2358a49bdf8b429c9b79b3864">
reheader.c
</a>
</li>
<li class="file-stats">
<a href="#9d589b90aef16fac6f63a64b7f22840cad281dcc">
smpl_ilist.c
</a>
</li>
<li class="file-stats">
<a href="#63e40d4d12ebc9aeb1db631f6d554894b027f095">
test/annotate19.1.out
</a>
</li>
<li class="file-stats">
<a href="#d1a30ab6a772b7bf1a311929d0d00d58a3c68ec9">
test/annotate19.2.out
</a>
</li>
<li class="file-stats">
<a href="#81b056819792016d0916409034b50a643b9637d3">
test/annotate19.3.out
</a>
</li>
<li class="file-stats">
<a href="#7638ed0cc1611ab3ea37e5208f10b65909a50722">
test/annotate19.4.out
</a>
</li>
<li class="file-stats">
<a href="#f321c1e42ccbc5a1666c14d6956d7c27be78ebc3">
test/annotate19.5.out
</a>
</li>
<li class="file-stats">
<a href="#f8a9fcd31c7d2e83d75b01bd4bb76618f19bfa05">
test/annotate19.6.out
</a>
</li>
<li class="file-stats">
<a href="#d0d14d8a915287d5a9e7ef95a8f31626a3c78607">
test/annotate19.7.out
</a>
</li>
<li class="file-stats">
<a href="#627f3da103e5652de39d0ea791c824f9aa8dd4fc">
<span class="new-file">
+
test/annotate35.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#0844312ae873ea0dd16250484115f5c8f45dd0a3">
<span class="new-file">
+
test/annotate35.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#9bdd40a73ff60b1ca5b56415bb8b55fcf1fb647b">
<span class="new-file">
+
test/annotate35.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#adf0ec790a32c663b7d621d898d844101a0a28c1">
<span class="new-file">
+
test/annots35.tab
</span>
</a>
</li>
<li class="file-stats">
<a href="#05d779ddc37633e600528b17b864f7af08fdeee4">
<span class="new-file">
+
test/annots35.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#4f99c1b33fc65738211174585f625db1be1d9caf">
<span class="new-file">
+
test/call-ploidy.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#65fca15a6f27677048dc8aff63d1382ad4d0e6c3">
<span class="new-file">
+
test/call-ploidy.1.ped
</span>
</a>
</li>
<li class="file-stats">
<a href="#efed193934304ed7d2bccf410d24bff37b494483">
<span class="new-file">
+
test/call-ploidy.1.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#424ff23e621cd3b85ee5e9223bc1984d7af4b0c1">
<span class="new-file">
+
test/call-ploidy.1.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#10b07e84234a32b0bd2f2f42678c748aee9acb68">
<span class="new-file">
+
test/concat.6.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5762115f105725c4fa9054a38fa0c40cf2f1ac8e">
<span class="new-file">
+
test/consensus.20.a.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#587057fe08cd4a97f331cb8bbd5b78133690c4ee">
<span class="new-file">
+
test/consensus.20.b.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#9477ec48f51f5b27bf0d2320e1f06ec2c2bf6df3">
<span class="new-file">
+
test/consensus.gvcf-missing.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#221de622b1dd60f005ede4c631dced3e5d95a792">
<span class="new-file">
+
test/consensus.gvcf-missing.1.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#2cc1adcc0732a028d376058c30e92df8ea14fa7a">
<span class="new-file">
+
test/consensus.gvcf-missing.fa
</span>
</a>
</li>
<li class="file-stats">
<a href="#284476e71fbf1ddd6a39b88427f7849b9e67ec4b">
<span class="new-file">
+
test/csq.yychr.fa
</span>
</a>
</li>
<li class="file-stats">
<a href="#b8271febdad955b09d899997df1cae547d9d60bc">
<span class="new-file">
+
test/csq.yychr.gff
</span>
</a>
</li>
<li class="file-stats">
<a href="#83560d16cd3825e0240264cc776291c760ca5935">
<span class="new-file">
+
test/csq.yychr.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#459ce1773368f15fbde79a08aedc3174295965f9">
<span class="new-file">
+
test/csq.yychr.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#43bd355a168b720f2c7e07d8e849e35f662201e5">
<span class="new-file">
+
test/csq/ENSCAFT00000047742/ENSCAFT00000047742.fa
</span>
</a>
</li>
<li class="file-stats">
<a href="#113e95a88ff5a768d1c488171a9b5475d5980b68">
<span class="new-file">
+
test/csq/ENSCAFT00000047742/ENSCAFT00000047742.fa.fai
</span>
</a>
</li>
<li class="file-stats">
<a href="#7c0df4af9dec1e5129ec6bda31cd8f4b6bcb567e">
<span class="new-file">
+
test/csq/ENSCAFT00000047742/ENSCAFT00000047742.gff
</span>
</a>
</li>
<li class="file-stats">
<a href="#4f4362fc5865ca1abb62a8d40fb1fc88f5d44497">
<span class="new-file">
+
test/csq/ENSCAFT00000047742/test.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#cfe9d685d07c6836f864d93d3d2269c2c7cbb3cc">
<span class="new-file">
+
test/csq/ENSCAFT00000047742/test.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#ababda8a91d82ab452aaf5ef8c44f85a76965149">
<span class="new-file">
+
test/csq/ENST00000368801.2/alt-gencode.1.cmd
</span>
</a>
</li>
<li class="file-stats">
<a href="#479ce0998b2d49b0e0db2a0adba26f00040c7584">
<span class="new-file">
+
test/csq/ENST00000368801.2/alt-gencode.1.cmd.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5a13d8f43c96af902f1909566b1a1082268d9a40">
<span class="new-file">
+
test/csq/ENST00000368801.2/alt-gencode.2.cmd
</span>
</a>
</li>
<li class="file-stats">
<a href="#c58a9f63fad9a6b42736aa35e32e833db53df0e1">
<span class="new-file">
+
test/csq/ENST00000368801.2/alt-gencode.2.cmd.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#d32016dd97432fd4c126b4bf9fb923c8d0ad2e2d">
<span class="new-file">
+
test/csq/ENST00000368801.2/alt-gencode.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#b5a9148fa881f0439a982cae370f12cc4770a8f0">
<span class="new-file">
+
test/fill-tags-AD.5.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#36a428e4f67bf69a43004d579a8e14433e6c1e5a">
<span class="new-file">
+
test/fisher.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#8a5fbf16c3ca5f110db8547dccdfa9eb23774baa">
<span class="new-file">
+
test/fisher.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#55f477ecfe72edc7c3046917ff24011819664d8c">
<span class="new-file">
+
test/fisher.3.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#d77e116d532509fc66a6ec021fbbbaf4f76ac30d">
<span class="new-file">
+
test/fisher.4.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#87d29e1d2712245a3fcb3fe8d1b104d89d02bf17">
<span class="new-file">
+
test/fisher.5.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#a6d082dd1a3aecda1d81161cc823d433d9988b4b">
<span class="new-file">
+
test/fisher.6.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#100a30a5f7732647bd7b67c545c99d7463247c89">
<span class="new-file">
+
test/fisher.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#1845b7f903dfecf00240c6b10ab4b248b09a20b3">
<span class="new-file">
+
test/isec.match-id.1.1.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#637ff9f352d03e3df46448c78f3410f81efd6585">
<span class="new-file">
+
test/isec.match-id.1.2.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#a212356b1cda46ea9249bf3f7ecc5ee91c2f4b29">
<span class="new-file">
+
test/isec.match-id.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#1f1acfc3a741295b94cf753a6887537e42a04214">
<span class="new-file">
+
test/isec.match-id.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#cb2e450db5d4d9a2fd12cc795b71b090b03b37b4">
<span class="new-file">
+
test/merge.12.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#89c6e51bb799416727c9efa62ead392d44de62fa">
<span class="new-file">
+
test/merge.12.a.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#e18f40f66f02c40d376459e2b434fc4f52d16434">
<span class="new-file">
+
test/merge.12.b.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc63c5c9eb22368c44034be8837179437f2208a5">
test/merge.2.both.out
</a>
</li>
<li class="file-stats">
<a href="#85a2eee82d866252763256c687418381a70582d4">
test/merge.2.none.out
</a>
</li>
<li class="file-stats">
<a href="#ea9912dcac4c80f1fc2c8e42037bde9c2cad35f0">
test/merge.abc.2.out
</a>
</li>
<li class="file-stats">
<a href="#5153d22fcef2d0e90a90f606dbe7fc79a3f69195">
test/merge.abc.3.out
</a>
</li>
<li class="file-stats">
<a href="#60099c1c62c29214ad912ce63fc67a32bbe3f850">
test/merge.abc.out
</a>
</li>
<li class="file-stats">
<a href="#55424a97c2e6f025e757bbe1a79c1d332d0c9934">
<span class="new-file">
+
test/merge.broken-gvcf.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#54f68a3b815d790c5ffbded3612f1140a8e73a24">
<span class="new-file">
+
test/merge.broken-gvcf.a.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#5e155559b877a5aba22c244d24413837b7ec2b29">
<span class="new-file">
+
test/merge.broken-gvcf.b.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#6cd570f525f9ef3cf94e257e677cd1fe486a7ce2">
test/merge.gvcf.2.1.out
</a>
</li>
<li class="file-stats">
<a href="#26ec3633c1d2bf9db7c94240a80cefc070944c17">
test/merge.gvcf.2.2.out
</a>
</li>
<li class="file-stats">
<a href="#a2e28331badb16c28ec1fcf31de78a422e9468b4">
test/merge.gvcf.2.out
</a>
</li>
<li class="file-stats">
<a href="#cc72164b501c61be28c44e00e846b6850543549c">
<span class="new-file">
+
test/merge.multiallelics.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#2b36ca2c033685729f2c41c65651cc811023ad70">
<span class="new-file">
+
test/merge.multiallelics.1.a.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#dbe2910d6a788b78ecab89195273a231f3e75d20">
<span class="new-file">
+
test/merge.multiallelics.1.b.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#caff2ff975cc6826454f613ea29d346a3e235e0a">
<span class="new-file">
+
test/merge.phased.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5785c2be8163b2f2f5f63783748842b3950e0c71">
<span class="new-file">
+
test/merge.phased.1.a.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#afaec9421f5748b2e70601de9574c279cafce1df">
<span class="new-file">
+
test/merge.phased.1.b.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#9a2dcdbf586559d79a41e27e043d83768228f576">
<span class="new-file">
+
test/merge.symbolic.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#9b0a4d5ce04c000deea86c06df8735c74f235eac">
<span class="new-file">
+
test/merge.symbolic.1.a.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#386cf7bdde6d064ad8e9b5219e2e69c206143244">
<span class="new-file">
+
test/merge.symbolic.1.b.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#95ce8d51b1dd2e709434f40899f4ef4dbdce6377">
<span class="new-file">
+
test/mpileup/iupac.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#f771fce27aa55427859da91bc37bfa5a9ae836af">
<span class="new-file">
+
test/mpileup/iupac.bam
</span>
</a>
</li>
<li class="file-stats">
<a href="#7a3eaf0da4b670cd01a61eadd849c2f5863b0030">
<span class="new-file">
+
test/mpileup/iupac.bam.bai
</span>
</a>
</li>
<li class="file-stats">
<a href="#734d20de714c900fa5fbdf543485dd0213d60086">
<span class="new-file">
+
test/mpileup/iupac.fa
</span>
</a>
</li>
<li class="file-stats">
<a href="#436e0df8e94866166e7f6e01b1d93d2ebb85dfcb">
<span class="new-file">
+
test/mpileup/iupac.fa.fai
</span>
</a>
</li>
<li class="file-stats">
<a href="#1dede2e19ce0408216177ffc8801672e2367abd6">
<span class="new-file">
+
test/mpileup/mpileup.12.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5196382cc60e55b7bee9cb9a731a56a22b1fbae4">
test/norm.2.out
</a>
</li>
<li class="file-stats">
<a href="#d6157da319b81b48c48ab7aa2f5e29f4e604c3d7">
test/norm.3.2.out
</a>
</li>
<li class="file-stats">
<a href="#e23ee25ae0aa655778aa969e1f86ca12555d6964">
test/norm.3.out
</a>
</li>
<li class="file-stats">
<a href="#51931513261d48324bee6238d772d5eb8a5c2076">
<span class="new-file">
+
test/norm.6.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#50d09b4cf2a2ea360a2d27e9ca32ee3e38e69eb7">
<span class="new-file">
+
test/norm.6.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#ee7ae5e8c425fc41a1ff78b7bec0d208503a043b">
<span class="new-file">
+
test/norm.breakend.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#0fd9c385f6b36bc70d3852876707b13274b3244d">
<span class="new-file">
+
test/norm.breakend.1.fa
</span>
</a>
</li>
<li class="file-stats">
<a href="#42b880735b06c0dcd38ee6f6be92aed06e507a43">
<span class="new-file">
+
test/norm.breakend.1.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#d749730b6f8fdde71897b9914590b1ec612871f5">
test/norm.iupac.out
</a>
</li>
<li class="file-stats">
<a href="#4316a749d30da21e2627b85506e273ec5efbddac">
test/norm.rmdup.3.1.out
</a>
</li>
<li class="file-stats">
<a href="#430b06b5a0ac6ed3913c00b6703a08ccfff2b6c7">
test/norm.rmdup.3.2.out
</a>
</li>
<li class="file-stats">
<a href="#47498d769196431879ef76c1525b541576637fda">
test/norm.rmdup.3.vcf
</a>
</li>
<li class="file-stats">
<a href="#576cc42019cc007f13a9c497d97c2653eb2e6555">
test/prune.1.1.out
</a>
</li>
<li class="file-stats">
<a href="#010f9f8d0312c797d696473c0664dcd21d4cd684">
test/prune.2.1.out
</a>
</li>
<li class="file-stats">
<a href="#991130bad978084b19a62aa9161f7886286509df">
<span class="new-file">
+
test/prune.3.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#a0b229c0ca434e0aad703b9269ca69e97e09029b">
<span class="new-file">
+
test/prune.3.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#a89d7fa3e4682669ca05dae7dfc2ae075e9f6a23">
<span class="new-file">
+
test/prune.3.3.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#d09b688f828ad2783243b812f91a677c050d8af2">
<span class="new-file">
+
test/prune.3.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#42d1ab5d6cf6a42339f1762b2c4fc88127d4b18b">
<span class="new-file">
+
test/query.3.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#af9a65930bb1d3d55fed5264246083b3615f9db3">
<span class="new-file">
+
test/query.3.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5f827d7ab4abf1865b55505908e98d6ef9f30529">
<span class="new-file">
+
test/query.3.3.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#7c11c191dc056179f49c07f53e2ca8c5abd10e0f">
<span class="new-file">
+
test/query.3.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#c6bf83eabf5d7624adc23770dd30695f8a5eaf34">
<span class="new-file">
+
test/query.filter.14.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#6ac6eec64ce9b58f18632c1ead8c4ee572333b14">
<span class="new-file">
+
test/query.filter.14.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#c89b47d0aa19dbab4912a8fef1c9a2e871d9312a">
<span class="new-file">
+
test/query.filter.14.3.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#b90be6b0f9d10d88d4e41829c45c7d8727365106">
<span class="new-file">
+
test/query.filter.14.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#2c887104db409d1d2069b224acc16b0f1fd73576">
<span class="new-file">
+
test/query.filter.15.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#0ae0631a65cc23601759f59b019fe50fbb513191">
<span class="new-file">
+
test/query.filter.15.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#13a77ba9942767d77d2e56b0f6e2878da95d9899">
<span class="new-file">
+
test/query.filter.15.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#d38098bf1ce2e6ca4437b320a40aabaafed03c2e">
<span class="new-file">
+
test/query.func.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#1ad000c8f6d3bdf83b1ea58949ceed9f2f9fc3d1">
<span class="new-file">
+
test/query.func.1.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#8322464b5b9500d4fed2c0426ffd59dee9dbc41d">
<span class="new-file">
+
test/query.func.1.3.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#9713bbbb13bc955b38a6fba8a26b336d26cdaf95">
<span class="new-file">
+
test/query.func.1.4.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#0afa54e1cb0e22cced03c477e976556487f46f51">
<span class="new-file">
+
test/query.func.1.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#83adab77a2ffba0eab52d727db739f6accad85cb">
<span class="new-file">
+
test/samples.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#7312c6ce423ad50936821a74aa08fa1d8a8492d4">
<span class="new-file">
+
test/samples.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#5607352bb2bec6dc0797cc98e1bd393ec73506b9">
<span class="new-file">
+
test/samples.vcf
</span>
</a>
</li>
<li class="file-stats">
<a href="#399db2db2699ba258b214bc10358f2dbbd0ced97">
<span class="new-file">
+
test/setGT.2.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#2cbf526d9a6fa7395cd05ef10e6c7e1a2170d8ed">
<span class="new-file">
+
test/setGT.3.7.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#0c947c664ea658eefcc6745a87ce57f4ef49c961">
<span class="new-file">
+
test/split-vep.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#fc0fe659ee8314a464aa3b71278ae81153d08d0f">
<span class="new-file">
+
test/split-vep.13.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#2e7f15861fdc4c551b93c7d468e1ab7c141ca835">
<span class="new-file">
+
test/split-vep.2.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#54e4647e485431e9341738657d62f4671c037569">
<span class="new-file">
+
test/split-vep.3.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#91b54ac09d9c2ab16594c8280c90f6b13a7f5b2d">
<span class="new-file">
+
test/split-vep.7.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#1dafee15289de195cc70f0739a91d5b95f8e8889">
test/test.pl
</a>
</li>
<li class="file-stats">
<a href="#b3d077f84e471deb1a732c03592c9b3f61b5fc70">
test/trio-dnm/trio-dnm.11.1.out
</a>
</li>
<li class="file-stats">
<a href="#611752b739a50e136937157d996ee84eef9854b4">
test/trio-dnm/trio-dnm.11.2.out
</a>
</li>
<li class="file-stats">
<a href="#6b80cd0cf8e974da6d6f885d2c0bdd82264c267c">
test/trio-dnm/trio-dnm.11.vcf
</a>
</li>
<li class="file-stats">
<a href="#6d472181e06ec135e59d1035c19faf408476f277">
<span class="new-file">
+
test/vcf2table.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#7ea7d0f4311df05a3e380bed16b50edd1bf7ecb3">
<span class="new-file">
+
test/vcf2table.2.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#9a428f1c09bb8c8cdfb7f4d3f48e06bf517e735d">
<span class="new-file">
+
test/vrfs.1.1.out
</span>
</a>
</li>
<li class="file-stats">
<a href="#a023a56a9ea6f06b2b240c32ae877a8b263d1768">
<span class="new-file">
+
test/vrfs.sites.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#fabfe3f694bc2e3b51074fef9d35ac48788cb963">
vcfannotate.c
</a>
</li>
<li class="file-stats">
<a href="#fb7f7d2ed44273faeb516b01732f24ff0814f5ff">
vcfbuf.c
</a>
</li>
<li class="file-stats">
<a href="#eca1036d22fed7bb364be3fb96b0c1be00651923">
vcfbuf.h
</a>
</li>
<li class="file-stats">
<a href="#7b0bbafa420a2b4152ff6519992b13d1e75597f6">
vcfcall.c
</a>
</li>
<li class="file-stats">
<a href="#150627725be011a1c0b008a4325fa70b4b86e65f">
vcfcnv.c
</a>
</li>
<li class="file-stats">
<a href="#4a49fd24e5da20562a057bee70f215baae44d3bc">
vcfconcat.c
</a>
</li>
<li class="file-stats">
<a href="#3f72e72d4e2a4fd4279128fd76ab9780ea07828b">
vcfconvert.c
</a>
</li>
<li class="file-stats">
<a href="#bc1d2752d6ab9de28eaae129899f6931eaeef3ab">
vcffilter.c
</a>
</li>
<li class="file-stats">
<a href="#92cc54c05b07996c3778099046456afe4477ffcb">
vcfgtcheck.c
</a>
</li>
<li class="file-stats">
<a href="#8a16bd68116e1169ca3187dadcdd3875bd45855b">
vcfhead.c
</a>
</li>
<li class="file-stats">
<a href="#5ed117042212122e7eb539ed82695fc504c71d62">
vcfindex.c
</a>
</li>
<li class="file-stats">
<a href="#87f8f8e172c330f38bf1e2a45d891e6150990187">
vcfisec.c
</a>
</li>
<li class="file-stats">
<a href="#4f1fa3c780f7fdb441b0a2f7add5a0837555a13a">
vcfmerge.c
</a>
</li>
<li class="file-stats">
<a href="#5bb5b301a5d8cf43cad4dd1061b35189fca4b2a3">
vcfnorm.c
</a>
</li>
<li class="file-stats">
<a href="#6a0d20aefd8ea61b92b316396d7129be787b1e10">
vcfplugin.c
</a>
</li>
<li class="file-stats">
<a href="#764cc17ac0a3ff1dc1b670ebf34e35a677004825">
vcfquery.c
</a>
</li>
<li class="file-stats">
<a href="#f9f41ab395ee964e0ea922fe2d9278c9c5bfc9b7">
vcfroh.c
</a>
</li>
<li class="file-stats">
<a href="#1ebc9804cf6cb90f30af3a13d582a85922f79d54">
vcfsort.c
</a>
</li>
<li class="file-stats">
<a href="#cc3127cbffeeec769bfd465f79c642d24f938d2a">
vcfstats.c
</a>
</li>
<li class="file-stats">
<a href="#02da6871e798f6dd51c3d1c33a8fc6856a2f4660">
vcfview.c
</a>
</li>
<li class="file-stats">
<a href="#baf93939b4d3781fb9df8c1f112bda9d162d4044">
version.c
</a>
</li>
<li class="file-stats">
<a href="#79af080a263b467ea1886b300bde6b2d35c43aa8">
version.sh
</a>
</li>
</ul>
<h5 style="margin-top: 10px; margin-bottom: 10px; font-size: .875rem;">
The diff was not included because it is too large.
</h5>

</div>
<div class="footer" style="margin-top: 10px;">
<p style="font-size: small; color: #626168;">

<br>
<a href="https://salsa.debian.org/med-team/bcftools/-/compare/97185075bb2916a200ba662d1a5feb8b5778ae0b...7f818e8a29a900c7a15a0855695e5158b5b0f8f6">View it on GitLab</a>.
<br>
You're receiving this email because of your account on <a target="_blank" rel="noopener noreferrer" href="https://salsa.debian.org">salsa.debian.org</a>. <a href="https://salsa.debian.org/-/profile/notifications" target="_blank" rel="noopener noreferrer" class="mng-notif-link">Manage all notifications</a> · <a href="https://salsa.debian.org/help" target="_blank" rel="noopener noreferrer" class="help-link">Help</a>



</p>
</div>
</body>
</html>