<!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;">
Andreas Tille pushed to branch master at <a href="https://salsa.debian.org/med-team/diamond-aligner">Debian Med / diamond-aligner</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/diamond-aligner/-/commit/92bb63b764b5d2aff640de9f5d35facb8e2fca6d">92bb63b7</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:34:07+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;'>Fix build with CMake 4 Closes: #1112842
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/f62d0ea5e3aea9acbdd83bf0ef4607d882d59d9c">f62d0ea5</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:35:52+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;'>d/watch: version=5
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/738c7f0a5e109bd82bdb214b8949925788d701c9">738c7f0a</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:36:05+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 2.1.14</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/1f07ea1a3a05208ea36686800f759f1f535a78e1">1f07ea1a</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:36:05+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/diamond-aligner/-/commit/50b52f3124921cb9a3f3c03b7b8cb61d33ac2ea1">50b52f31</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:36:11+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/2.1.14'
Update to upstream version '2.1.14'
with Debian dir e956277166279a3320e40b9a37200b6b163e1cb9</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/cbb7921cb6b39031d716acece8a32410682fcf5c">cbb7921c</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:38:24+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;'>debputy lint --auto-fix (routine-update)
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/360f93b54bbb8ae7616c314628079dbae9334277">360f93b5</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:44:15+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;'>Patches applied upstream
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/dd9098526076532bb5a4198965bb339f6d6eb471">dd909852</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2025-10-17T11:50:24+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;'>Upload to unstable
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
439 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#4123588cdef112aa874bf52a300e9ed01db3ccd2">
<span class="new-file">
+
.github/FUNDING.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#a5cc2925ca8258af241be7e5b0381edf30266302">
.gitignore
</a>
</li>
<li class="file-stats">
<a href="#2f473ef69010f24d2546e13263bcc2c49befd2f3">
CITATION.cff
</a>
</li>
<li class="file-stats">
<a href="#9a2aa4db38d3115ed60da621e012c0efc0172aae">
CMakeLists.txt
</a>
</li>
<li class="file-stats">
<a href="#6651ddff6eb82c840ced7c1dddee15c6e1913dd4">
Dockerfile
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</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="#c5e7ff555e7656b10b14de9999a8610ea3ff8fa1">
<span class="deleted-file">
−
debian/patches/fix_missing_cstring_riscv64.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<span class="deleted-file">
−
debian/patches/series
</span>
</a>
</li>
<li class="file-stats">
<a href="#738bfe9eb140bee362e519ae990e19d7391f9b5f">
<span class="deleted-file">
−
debian/patches/typo.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#68ef9f98c01c7eecd4c605cc26048a06f3304b79">
debian/watch
</a>
</li>
<li class="file-stats">
<a href="#ba308c53c268704c3008f5e2e6e8129f9f6bf3fe">
src/ChangeLog
</a>
</li>
<li class="file-stats">
<a href="#f76380e3e66f9453de89e5ac198478544cf1e6e4">
src/align/align.cpp
</a>
</li>
<li class="file-stats">
<a href="#61cd51bfb6b0ef754d2fbb366e90b8ad35f3fc02">
src/align/alt_hsp.cpp
</a>
</li>
<li class="file-stats">
<a href="#8310f6d8c536d182ebd128c5e462f7c6addcbf6d">
src/align/culling.cpp
</a>
</li>
<li class="file-stats">
<a href="#d594b71a9f28bc686d4f75f12a6229c2e586ecae">
src/align/def.h
</a>
</li>
<li class="file-stats">
<a href="#5a2381540b8362260dcaa6747086bb358097256e">
src/align/extend.cpp
</a>
</li>
<li class="file-stats">
<a href="#52ecbb45dea21619756b1951b32ef00fa81a1d54">
src/align/extend.h
</a>
</li>
<li class="file-stats">
<a href="#9abb86c9c0e32c795b4af4f78707811c1e585671">
<span class="deleted-file">
−
src/align/extend_chunk.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#a70d5a64b741f28155bdcdf591968e4b59b60de4">
src/align/full_db.cpp
</a>
</li>
<li class="file-stats">
<a href="#9fc8681bb50d867858382e8ecdfd9bc32570af85">
src/align/gapped_final.cpp
</a>
</li>
<li class="file-stats">
<a href="#7540abd0721601ec3b35ecdd671f39ce63cef20f">
src/align/gapped_score.cpp
</a>
</li>
<li class="file-stats">
<a href="#1885ffadb5308ef489a619e821b06986ef227e22">
src/align/global_ranking/extend.cpp
</a>
</li>
<li class="file-stats">
<a href="#1b90f5ee8b6ca86e42623b99dcbd74ad0880c831">
src/align/global_ranking/global_ranking.cpp
</a>
</li>
<li class="file-stats">
<a href="#8f9453cefaa66bad075c8bcb49a08b740b24e222">
src/align/legacy/banded_swipe_pipeline.cpp
</a>
</li>
<li class="file-stats">
<a href="#79b081d050ff058cc4444df01970041d95b03792">
src/align/legacy/query_mapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#84d656034746137b8c6b0226ff878a5b99cc6bb3">
src/align/output.cpp
</a>
</li>
<li class="file-stats">
<a href="#5cc8cb26fecab273379048ee80c7f3325d52f978">
<span class="deleted-file">
−
src/align/short.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#6d09ff6bcfac65c792218c53e21ca1a9e62a26ba">
src/align/target.h
</a>
</li>
<li class="file-stats">
<a href="#f8990446cab751baed0b8c7fc38171e7d68cb1f7">
src/align/ungapped.cpp
</a>
</li>
<li class="file-stats">
<a href="#76d5a97c09cca591280144de40f9c04a5ec57ef7">
src/basic/basic.cpp
</a>
</li>
<li class="file-stats">
<a href="#fe8c534c15ea9cf93547993244c3ab903c4895ff">
src/basic/config.cpp
</a>
</li>
<li class="file-stats">
<a href="#79a175a8b141cc4f06683108fcd39b79a555f1cd">
src/basic/config.h
</a>
</li>
<li class="file-stats">
<a href="#da280a51d91809345347036c4e31920b2c744ab7">
src/basic/const.h
</a>
</li>
<li class="file-stats">
<a href="#80dc9ea59410b77519d86244d5b42337fb185f2f">
src/basic/hssp.cpp
</a>
</li>
<li class="file-stats">
<a href="#f9492756ecc3a6486c8d8a74972ab3c60ae604a2">
src/basic/match.h
</a>
</li>
<li class="file-stats">
<a href="#3acb533977ddcbc123b4fc5fa6a1f7d171564189">
src/basic/reduction.h
</a>
</li>
<li class="file-stats">
<a href="#689ab503b8a95eba671e19a8c7ce2bc890fbc058">
src/basic/seed_iterator.h
</a>
</li>
<li class="file-stats">
<a href="#9cdd6e619760f59a971d25b80727732f834f4813">
src/basic/sequence.h
</a>
</li>
<li class="file-stats">
<a href="#eeb9c797e717eb3e4f468bca3e84923ae3c9a8db">
src/basic/shape.h
</a>
</li>
<li class="file-stats">
<a href="#d1d2ba256c4329ff664d58fbab99b8c6c1002067">
src/basic/shape_config.h
</a>
</li>
<li class="file-stats">
<a href="#02748963ebfdb263f232fa8cc7afc742d6771e86">
src/basic/statistics.h
</a>
</li>
<li class="file-stats">
<a href="#819fd68aeb8b724e4ef44ffab4f5609cf4e86b19">
src/basic/value.cpp
</a>
</li>
<li class="file-stats">
<a href="#8a5f881f4845d400ba2859f82f929e365c1a4601">
src/basic/value.h
</a>
</li>
<li class="file-stats">
<a href="#7bc00812820c44b9fa7aa9f50e4b3b0430e24d99">
src/chaining/smith_waterman.cpp
</a>
</li>
<li class="file-stats">
<a href="#843b0c321950eaab30ec044ec3ceb34583b31189">
src/cluster/cascaded/cascaded.cpp
</a>
</li>
<li class="file-stats">
<a href="#6444af7c027138203099756fde20af9fa7cae118">
src/cluster/cascaded/cascaded.h
</a>
</li>
<li class="file-stats">
<a href="#afd2efeccfbb0d08402b8781faab7a8e3500da7c">
src/cluster/cascaded/helpers.cpp
</a>
</li>
<li class="file-stats">
<a href="#5bc1484cf89972fcb12a4416856680fe6ec184a1">
src/cluster/cascaded/wrapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#c7558a430a868ecba94d3e69b7d00b0c0d6ede31">
<span class="new-file">
+
src/cluster/external/align.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#3643d35b9b1655fa382fe1468ba90cb3d850a999">
<span class="new-file">
+
src/cluster/external/build_pair_table.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#b9d0397fb64bb13061ea052fa0c4984fef90da66">
<span class="new-file">
+
src/cluster/external/cluster.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#dcaaa43a52baca3f09d9208234c2db44359ee526">
<span class="new-file">
+
src/cluster/external/external.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#0dcf12821468fee02fcd939b591b64dad4ed3ee4">
<span class="new-file">
+
src/cluster/external/external.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#79e97ddd25a11baacb7c308611460c06645f18b4">
<span class="deleted-file">
−
src/cluster/external/make_seed_table.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#fba90d48554db621b03eef75cbd2f95aa0d8b82c">
<span class="new-file">
+
src/cluster/external/output.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#9855be6073a251d5c63c4217137a9971891b53bc">
<span class="new-file">
+
src/cluster/external/radix_sort.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#e32575ef2e63f2a583912aa5a951281d34cc36fb">
src/cluster/helpers.cpp
</a>
</li>
<li class="file-stats">
<a href="#5ade76184f5f0172ca86104f68fb1af124446f8c">
src/cluster/output.cpp
</a>
</li>
<li class="file-stats">
<a href="#ed0f43ddafbd5bf4b786d583b7e939448d6496ba">
src/cluster/realign.cpp
</a>
</li>
<li class="file-stats">
<a href="#5859c064ac4f598d89a46570ba2412665cdd9f4e">
<span class="new-file">
+
src/compile-osx.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#0444fe43021017d089b6fc1f148c2030f0e6093a">
src/data/blastdb/blastdb.cpp
</a>
</li>
<li class="file-stats">
<a href="#ac1c0e23f52c429f8eab97118d08a5f2a9b28ac5">
src/data/blastdb/blastdb.h
</a>
</li>
<li class="file-stats">
<a href="#5323775a3afeb31a1b52bc03a3a29c8dd4d59085">
src/data/block/block.cpp
</a>
</li>
<li class="file-stats">
<a href="#394f1138e8ae77896a5ec75199e55de96a2449d0">
src/data/block/block.h
</a>
</li>
<li class="file-stats">
<a href="#277eec65a7cfbcec3c88315439cc493e8de1d6ea">
src/data/block/block_wrapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#4964443f24cef42482e177ecf4a9c3d67f32c859">
src/data/block/block_wrapper.h
</a>
</li>
<li class="file-stats">
<a href="#347f215615f06265eeffada9952dbc291937c580">
src/data/dmnd/dmnd.cpp
</a>
</li>
<li class="file-stats">
<a href="#3a9fa83164adc15751223f5774232235a331f272">
src/data/dmnd/dmnd.h
</a>
</li>
<li class="file-stats">
<a href="#e6e2b3527f529d48f8a32acefa574071b43672cd">
src/data/enum_seeds.h
</a>
</li>
<li class="file-stats">
<a href="#1beb2481a1ae484d005a27579fe801d22473a9a3">
src/data/fasta/fasta_file.cpp
</a>
</li>
<li class="file-stats">
<a href="#f2f7c42acad5b7d251cfbea13c80029c6c09c3d0">
src/data/fasta/fasta_file.h
</a>
</li>
<li class="file-stats">
<a href="#d14b315ca606330c6dc72fb0780134e6c4ad1941">
src/data/flags.h
</a>
</li>
<li class="file-stats">
<a href="#af270a5f463afe55fef4ca1b02a192b43d43c034">
src/data/index.cpp
</a>
</li>
<li class="file-stats">
<a href="#3242023770c774c21829a5d1054295533df67d76">
src/data/queries.cpp
</a>
</li>
<li class="file-stats">
<a href="#8366fdef1b3e7c06b4325bf704ef6a9a25477168">
src/data/seed_array.cpp
</a>
</li>
<li class="file-stats">
<a href="#9c37c4df093936b94df7b27d0cbb7131fc65f410">
src/data/seed_histogram.cpp
</a>
</li>
<li class="file-stats">
<a href="#ba1fe9d599e92a9d975e18977693af394d3b027a">
src/data/seed_histogram.h
</a>
</li>
<li class="file-stats">
<a href="#30a61fffd2ff734f5e8f9f2db126813927258784">
src/data/seed_set.cpp
</a>
</li>
<li class="file-stats">
<a href="#5c4d25a3bf084a13332788f6b32777e540c59b50">
src/data/sequence_file.cpp
</a>
</li>
<li class="file-stats">
<a href="#e69b05256f632245743ec08f6499a6bb6b55b37c">
src/data/sequence_file.h
</a>
</li>
<li class="file-stats">
<a href="#a8818daed31f1129cbf1f3c1e931985886c354ed">
src/data/sequence_set.cpp
</a>
</li>
<li class="file-stats">
<a href="#e5e8b7750c545f0ef36aceeddc714113e4dff0b0">
src/data/sequence_set.h
</a>
</li>
<li class="file-stats">
<a href="#24fed6804ba4c0d4d9f53892ff5dec3edd9b4422">
src/data/taxonomy.cpp
</a>
</li>
<li class="file-stats">
<a href="#13bbe1d3b68a02e5ec86aeeb4b7cf691b8dffd03">
src/data/taxonomy_nodes.h
</a>
</li>
<li class="file-stats">
<a href="#681060858f53613aebc0e374d1943b837e701d0f">
src/dp/dp.h
</a>
</li>
<li class="file-stats">
<a href="#b6bf516c174707aa1c0852f7d288395cbf477083">
src/dp/score_profile.cpp
</a>
</li>
<li class="file-stats">
<a href="#6f71db29921869a2f96d2d9b686bc84a45655af1">
src/dp/score_profile.h
</a>
</li>
<li class="file-stats">
<a href="#503a0d0a04d792d79a548b340f7e1a9201a8d375">
src/dp/score_vector_int16.h
</a>
</li>
<li class="file-stats">
<a href="#fca48027490c3c37433bb7bfe054875f42886c49">
src/dp/score_vector_int8.h
</a>
</li>
<li class="file-stats">
<a href="#b71c617f6c21dd8f42636e50b3499b22a233c5a1">
src/dp/swipe/anchored.h
</a>
</li>
<li class="file-stats">
<a href="#ff02aa0c0e989c8688ac5fc5e560dff8115046c8">
src/dp/swipe/anchored_wrapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#b1173ed1c50b6ea5c8e60148187f7ec31a652782">
src/dp/swipe/banded_matrix.h
</a>
</li>
<li class="file-stats">
<a href="#3895b3c92f5954d61a368fe229b92c15caa8177d">
src/dp/swipe/banded_swipe.h
</a>
</li>
<li class="file-stats">
<a href="#6fa71ee6d42314cff4e305c0857524d86af32917">
src/dp/swipe/config.h
</a>
</li>
<li class="file-stats">
<a href="#f22dbb432f34ebbde855082d0b3934c8d73c1daf">
src/dp/swipe/full_swipe.h
</a>
</li>
<li class="file-stats">
<a href="#a06527298ef02c89fb54496eac3383e92599dcb7">
src/dp/swipe/swipe_wrapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#18dfda8832c0aa49538985ad5f5809874b9049c2">
src/dp/swipe/target_iterator.h
</a>
</li>
<li class="file-stats">
<a href="#66b66ba9115bc2222fea14baac514586ea9d9910">
src/legacy/util/task_queue.h
</a>
</li>
<li class="file-stats">
<a href="#7c64da5a21ed84f2d386919ec4bc6900a7d62c84">
src/lib/Eigen/src/Core/util/Meta.h
</a>
</li>
<li class="file-stats">
<a href="#5b6a59337648545d6843e8e079a8e1748ed6e618">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/CMakeLists.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#21619945fe70de80efa1a4871091fc9341ab1fda">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/LICENSE
</span>
</a>
</li>
<li class="file-stats">
<a href="#660c3d85e2cc0a39095ce3d3f26713f4355f727c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/README.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#b8a58f9160cde0ae8f177e7bf4f8c3616552ab5a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/VERSION.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#b4632fee90e29af071229a6c0997ff83b7086952">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/affine2p_penalties.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#b77973a2e70813af55d5ab681c557009679cfde4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/affine2p_penalties.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#671db9cc08878fecf9d5318b43819753668622bb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/affine_penalties.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#3a26b5fe0d437f37c3111e8525e12b19664c6092">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/affine_penalties.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#6d32224ecde66594520514daedb99ac643616252">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/cigar.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#732b2995920b10b31d6e1cbe32850fc8b4a3560e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/cigar.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#f7f4377db8e2c1b66faaeea0ee01f7c67d5d5bc8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/linear_penalties.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc539bfa0097ce63c90a8ca7639685a33123849e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/score_matrix.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#0de282b2d0cfc900e0d570556411537165c688a1">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/alignment/score_matrix.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#a5e2dd2cb9a46dd73aabdb097fcdbbba844a5c7a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/bindings/cpp/WFAligner.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#8499286bf54a169ce5a89d849705d996518ad316">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/bindings/cpp/WFAligner.hpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#8af77df35a9655c51c78e4f19b5adc8d37421b17">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/bindings/rust/build.rs
</span>
</a>
</li>
<li class="file-stats">
<a href="#809a923e949cf4254e810f98e961cb03719b09e4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/bindings/rust/example.rs
</span>
</a>
</li>
<li class="file-stats">
<a href="#69a77c38687285c6bd322c3b6235430cb19c82c4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/README.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#9a0c02dd1ee78a17e6f2e4b2d74570fa3401abc3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/wfa_adapt.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#4e3916959a4148e1a07011b5322d5c37ffbe3215">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/wfa_basic.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#af4a7c50e583b9e581034f51b861ce2d57bd1798">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/wfa_bindings.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#e9c1ec35bf404208523d4334f6d1a51fd55f1e52">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/wfa_lambda.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#d31b7b87659d35da50129ca1550e5aea6a8c673a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/examples/wfa_repeated.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#37b1670bcefac065485433b666320a0729e5fd80">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/guix.scm
</span>
</a>
</li>
<li class="file-stats">
<a href="#c567dbad7f7634fa594ab55c47355e461eec525a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.aband.10.10.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#b2676112659dc75df9fc03688913f3cbfe254703">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.aband.50.50.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#d6f6c0d3557fba25674077651771308992df86fc">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.band.10.10.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#8fd1a7317bd62f4b48f5ee5f6494900739d7a7b2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.band.10.150.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#467338b252e3c21e742af5ede3fd397f127895c2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.drop.none.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#26a16e581f43d6355a513cc0d23964bc96600b1f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.none.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#c1ba0f6b33c72362833333231b8ed0485877474a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.wfadap.10.50.1.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#a05f20e6785c9f77a1bf6e00e4a7df586eadbffb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.wfadap.10.50.10.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#5b78108a681349138a58fbfaa11b2cc3dc6a9753">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.xdrop.200.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#cdfcfd759dadf05cb746bca700ecc48b65014c2d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/heuristics.zdrop.200.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#794beaf049770da64814a54af8429e46875b071c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/wfa.endsfree.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#bbc10e45fdcf712407cd39c551c0e1940c303616">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/img/wfa.vs.swg.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#cc28c6a5256e2b240552094376e4daf424b6d227">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/fasta2seq.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#683b9089cfce8ac7bc83281d78a185435cb69a7f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/seq2fasta.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#2a25858de91da6ef950bb80560f61df517c4e241">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/wfa.alg.cmp.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#a6bb29bbd1b8aa48502378a947bba4c03616b8ed">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/wfa.alg.cmp.score.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#95e4f34e20584e546936d68d2cacadc72243a1e6">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/wfa.alg.rescore.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#5e9c82ab7cca61a0809dd88aa540e361146f8e2e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/scripts/wfa.plot.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#ea684398a8efad6cc3185e3b7c370daf69bc0cd8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/mm_allocator.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#b805b8d14acc3fa9190c96244945e95712c43269">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/mm_allocator.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#72904dd63c528e072be741cf35d70aeca7ea5fc3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/mm_stack.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#e8a9d8f62915c9ab14e49d3f37808cc67f7cc27e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/mm_stack.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#603adc9a78ee5eaeb33b4fa687a10125ecec0f8a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/profiler_counter.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#97ca72305c6c0ba030407e4547f59df4ed2e90c6">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/profiler_counter.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#5e260067ad73c2c5366320012d0d08e8bbd4e46e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/profiler_timer.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#93ddcdeaead69c8a39aff90d58f8a445e1098c15">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/system/profiler_timer.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#d5cefe21c4bac94cc90d9933e688c8d7fa8c2930">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#3ed35078258ac46bc7df544359b39e6d3b27f52c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#2c62ef67baf62c5e2f1d9e14acd53426e2de5bd9">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#a56def6b06d4380e799aa6b44954bbe2621cc9aa">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p2.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#c3278dddd557f9cd9bc1460c04b76973cef11cef">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p3.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#7d6d3d7ed30db67720bf2c3c47e9db62e1b14c8f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p4.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#d3886dc87c082ca8ebafd725c773fa60343c8a9b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.p5.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#afb4195d1f34a2db49eb9993b4594c4177a6c999">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.wfapt0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#a30f05a00677c501a248cf9a0f4d2ee9defd503d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine.wfapt1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#54791f5b061ab9fd5fc2515ad9d0ea58ceb3acd3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.affine2p.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#587760c379365cbc28778dfe5cac3a91b94afe55">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#c673393f49446dbf007286adf4879ab8fe0a4d08">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#cee67e22d0c1af249277a5777e4ccf74ca99f1d0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#355e8ec03407776891f0cf1e4a99ee2c06739c9b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p2.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#cae82e78b87d82c7782d5d3a10cfb5186a8619ad">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p3.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#acac121b1204d3a2a7fb2e54cde99bad89b29c00">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p4.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#c2b5c4ad63fb6bfe726d98d8ba0af73a865d61e2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.p5.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#09d36eff35f8d64a5bc0bf5375b0c4ad31b697e0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.wfapt0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#51bda0225cb8089b250e7a16628b9fa8631a8607">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine.wfapt1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#28c1eeb5336649ad0f592bb82a448f5ae0f9ba40">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.affine2p.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#afa8df8ee984572112b37b783e40456a042d623b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.edit.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#eb217989800d9993dad01fce237c569f79fcbcbf">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.indel.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#85014d26a709c250ea1522dd19220234029a7494">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#131fca33ec01afb1feb394202bba68346a7bee5d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#88fdcc774c5aa1d801c2d697287515b951e082bc">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#ae97f0e430b7a2efbed693ce1d5935e47ad4c27f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p2.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#bf13d339cb38ebda0592582c5935e8db3b9c1305">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p3.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#5010dbd6b62f82d419f1d0c4f77e56f0057ce85a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p4.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#29d779fc9dcd8e8d1d407a22b51a71f0759888e8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.p5.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#33a126a06ff694091e12db5b48e9594dab6d3d19">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.wfapt0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#fd79fe23b83873724356be2f358fa0ca0cf5159f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine.wfapt1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#ddd9c6c141f2a25401a3e24840f35bfde1b00783">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.affine2p.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#27c95bbdbcb99dc609f35c4246d4e6aa3a16d287">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.edit.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#c2d009040b351a72e7838dcef6fe16ad6ded37e0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.biwfa.score.indel.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#7c13cc720404e99f62008d27490ece869e63642a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.edit.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#40a20ef860461dc47e0fa02e964cc18160d8300c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.indel.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#aa069f1e9333e9b4fbcb45dc5aa1bd3499538cb1">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#d0f60bd2bdd5602bcf4cad0dccb544b9dc653e67">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#728112fbed50158c7d6cb870108537ac0742dc37">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#ed60984e8162463b74e309ee37d8485afe05720d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p2.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#48988e4427a35951aba1a40afaf9d0b49e4265dd">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p3.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#028a0d506105548f1309261f7ed1d1f0b54e15ab">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p4.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#3907171acb947d11d55a6f31a46e76eae94da76a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.p5.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#0663a1af77bfd84a69d26fd10576b9170d320685">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.wfapt0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#0ba1ce5d2fc36c8853a744e14110b11d2af9e3e7">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine.wfapt1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#aa92579f1c4752f7a2350e4ab0461b58e3270857">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.affine2p.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#3ddf140bc20bc8fe548722f09b467bd3c9a16980">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.edit.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#02fd86543eaa79915be9dea893499e974201920e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.pb.indel.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#b3ffc085e7252f33a66d552b5d7329b93d8d1282">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#78f89652ccf5335ef7f704022e42bcfd10256936">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#305aad7bac3e104bf5f42374caca9b5418a604a2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#9d393917b0ce74b4687d84ffaeb92d7d36e4b9a5">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p2.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#a173a02b38f98380286fff8d1535b2b5a2dcae62">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p3.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#31c3f623d80d4c78b458b8ed7dcb60e68da918f3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p4.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#b898d00b09c626b21bafac0565266acd3ee97a2e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.p5.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#e65f11654b236df9e51289f7add4e20913da5e3d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.wfapt0.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#eed2909a64e1d42c11415a63de9fb9ddec0a3e84">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine.wfapt1.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#8abe21ddad47597e8cabf59ef9b31fb329746032">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.affine2p.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#567265e48cb0cc2a56274215843fcc09e901d1a8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.edit.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#5d9293752869ba45baf563451a613c4e583557dd">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/test.score.indel.alg
</span>
</a>
</li>
<li class="file-stats">
<a href="#e3b93f15b3fcfb55e0e5a827ced6c1e6f4cebff5">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/wfa.utest.log
</span>
</a>
</li>
<li class="file-stats">
<a href="#7c20612920e641c9bd1a13e95481211c09ae09b3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/wfa.utest.log.mem
</span>
</a>
</li>
<li class="file-stats">
<a href="#daf78dfdf9a6add2e38ec8b5632fc45162562fb5">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.check/wfa.utest.log.time
</span>
</a>
</li>
<li class="file-stats">
<a href="#d825b01a3e92c7c43def83eee387c247b89c7e0a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.clean.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#2c4f42f4285cc2a09260a232bef9075628c38b81">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.cmp.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#f0c6dfa6ed3a1fa5644b866da86c866e37ea37c6">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.performance.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#6d8565605377126f75292220493c3931dc191979">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.seq
</span>
</a>
</li>
<li class="file-stats">
<a href="#e520e0a807a17f6c72458cbe7e9b3ec2ad2e83ae">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#4db080c13b7d853afde8bfeba6769841e4dd62b8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tests/wfa.utest.valgrind.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#68957a6606fdcbf2e53171beabdd2af8f0f573b2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/README.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#a89e01cb9f20b4755c9d1be9ba9aef1f76683587">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/align_benchmark.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#56f72bff6866336d177bac100a956540a7eb3900">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/align_benchmark_params.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#9d86c1f5e0e6889bdfae1742755d63ac176b9137">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/align_benchmark_params.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#3f33cd90f3d064ea58f326cbb53adb5dfb1f2d25">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_check.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#c50982ef9b6c221387eef3a1ae39c4a92a582ddc">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_check.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#7c1f9326b42221f291cfdae307a8fc80f010a5c0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_edit.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#93a96353034760ebe635c1f2a6813a39132c8953">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_edit.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#af54ffcd57503c57775ae9a3544e7e5bb9971464">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_affine.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#b1f7ac3dfb232c55a0de26cacd8b514920db0e7d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_affine.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#8d2f82ec80749f35042b03fe6fc4cabd63efe2bd">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_affine2p.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#8d59bd53f33a324e415edb8905996dcec9ba40a1">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_affine2p.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#570c806c3e781614987bcbd8bf275cb92764f62c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_linear.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#7570abc8f3862fff40c5151bf4a3dc3430de0df8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_gap_linear.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#fa74d27b51e1b8a7c69c31e258953c4d59dd0ed0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_indel.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#021331c0df7627dc81bc03a62379f4b86ca74510">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_indel.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#978895931e0c1af44c562e13bbcc1c6c602c9fa4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_utils.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#1e040b44f428337500f54ccc9fd1fbcddcbaa4cb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/benchmark/benchmark_utils.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#a4f6f2e943b806b565e62d012bc332fe5ccceffc">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/edit/edit_bpm.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#3be065ccff2d5bbe3a4e77e77e84206e3b97a528">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/edit/edit_bpm.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c1c12a8e388878559ef169fa6ce0c3622aed760c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/edit/edit_dp.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#56d82b99e614a12240210d9ca4e17f0fc208687b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/edit/edit_dp.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c2c82384c6a6bdb3c985305a55a67c2acb5ae381">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine/affine_matrix.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#694180fc75646e30df7b22e6b614a6b64445e766">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine/affine_matrix.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#9e62fb5579215d7af9ce3c8ebb4b67c06a7e1ec3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine/swg.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#295c2166f42b90872557cedcf471e5542e92960b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine/swg.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#901bcac8be403743f04918b3ef5d0429f9468dd4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine2p/affine2p_dp.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#d4069fdcadaacd3dab48440c37a8796bcdf6b7c3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine2p/affine2p_dp.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#4b715a0b4c1899d2f6dca84b8674921552313742">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine2p/affine2p_matrix.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#74e9e7b835d389c7b034b91d5aab8cdb2880cbb4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_affine2p/affine2p_matrix.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#168bd02c4cc80f10b5598ba1f778caa190e0f38f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_linear/nw.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#277d4d0e44e7db2215fc839682f72ad48578e317">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/gap_linear/nw.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#313acc257f2291c16e3520c4486de357f91ca5cb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/indel/indel_dp.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#2a5b6627db4a1982452d07ccd8019d1e08297a23">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/align_benchmark/indel/indel_dp.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#b4e63b97199284b202d78eb97de773d123e89f29">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/tools/generate_dataset/generate_dataset.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#f2e9db0df9787601870d30663b63d6a797ecc0da">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/bitmap.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#4838032c370212b47b7902bb4a6a45bf6339b7d9">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/bitmap.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#2db512fc87e6ab6cd18b2d62d1af7cf8d5dc6578">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/commons.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#9734e248bb6b7fb386796d954b56672f18239163">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/commons.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#359e094d34fc5a53264e135cf2effb665d16c4ef">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/dna_text.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#da29c67bcd365db92715244f9d901228b0496e7b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/dna_text.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#995b1ec7460340825d31fd973799141d5a002fdb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/heatmap.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#737689915979052c4b8d3ac586e3f5f478f05187">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/heatmap.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#3a86d546634725ca87839c2e5def95bb0b30abc7">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/sequence_buffer.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#5d03d503318e9becbd18e2c9e3344dcbfb155b68">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/sequence_buffer.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#181154b56caf3a3c001c6cef74260cdd9e18b6e1">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/vector.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#44e5535f57b5380abf24ba63eed2db34f821c9f0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/utils/vector.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#8de3d10fd1d43320f54d0f046c301967ee9352d5">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#f2f3f2b6666c0680a3bcd51b9ba34f23cf722dae">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#7a07653891e39887ce928360e6a611f68e736cd1">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_align.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#3acf58f2a8c6fccc4c054807d14806b800606cf0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_align.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#bd42084afaeb4555f7628172739844e7cfd41a34">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_aligner.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#82f60030833ae8aad4471b36bce0bd366e881854">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_aligner.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c71d2879a05c95fb8f640ed0dc0b7cd21d1e07a7">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_attributes.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#5ea2b702b18aa543efd6bbb7aaaaa8f9c1956759">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_attributes.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#ab7ea6987f803b08f3efc2a0a0ff7b40696f285d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#bcdfc206324f0c0b54da2e0a28e9895eae3809be">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#29aea35fd0d4a2c1628f40704733454555e59db5">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace_buffer.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#a7336e62d40f25a4f1bd340db2ed575de13e1990">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace_buffer.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc6b44bf1ff2569ffec7ddf5d9fd16b1b75e71a8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace_offload.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#b0309b186c63ea4395e81d90a4e8fd7020046790">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_backtrace_offload.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#f01095016303af566049d7088f94cbc5d0c919bf">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_bialign.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#415e0cc888d42afec8d34e639254574a61fe0e5d">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_bialign.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#07a9f946b8913fbce6e9e507105accb77fd00fb8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_bialigner.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#bd0680a6c03d25dfe8900914cf4aa6a4cf8429a3">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_bialigner.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#d3fcd8e663caa0f711e42045906f85efbaa61e0a">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_components.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#2f7cfc459bf3253826fdab847add4112443e93a7">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_components.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#95e6d53093e7b8ca23562022b1ba3a170a81f734">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#8c5d8306487f3036cdeec184c4a93e115b4cbc94">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c383a9b200c6bbd9e00d74aa66063989caeb1142">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_affine.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#e4679e143d783d13edbd48e380dab00a7347351b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_affine.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#4d307cf345a773249577f624df7b1bea8453fef4">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_affine2p.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#a89e4f917ff00b653d467817a5aa31878b35ba56">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_affine2p.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#705d810ab03496b743485258606dfb419001d142">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_edit.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#aa04a3dbd138c19aa35a43ab4f0e913d7622eb1e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_edit.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#00f68bc9974ddfc985ffc514484a417ffecde69e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_linear.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#c064ae6074991cabf1f08ace012d6de9a37a6384">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_compute_linear.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#5ec7a6d0cfbaea0b41cece724fc6a357724f6f6c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_debug.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#d2621d15f2e600ce984e94bfc13a85c085898952">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_debug.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#f68deefc9131f2978231d866ea00ef8243c72571">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_display.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#89e590646db6ff35bb8b18ea835cbb4752f3db07">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_display.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c41448bc4a963eb5db7fcb78d7ca98346e9b7ef2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#a48c43c019c479d3b2c3bdb655991b2ead60d411">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#92205f69fdb554f4ea489e05b6ee323001686440">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend_kernels.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#96a8ae466722e604474fcfc07db7ea4a998679cb">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend_kernels.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#99621d9b245c6a884523d5402be36737351784b2">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend_kernels_avx.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#b0c75bc7d5a6b1df835afe7cec4beba8cbab4b87">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_extend_kernels_avx.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#3a2633cfdfe9748f52631a56fc7941a4a015949c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_heuristic.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#355873159109d22d9b99bc92f04169dc6b6a08de">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_heuristic.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#2dc3cd1eabd3f65dea281237263bce22bbfec79e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_offset.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#829d383beba68cbcdd77edc4ff32b893d8570edd">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_pcigar.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#23e164c315615368083fbc9f7618f2a9ad80c05b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_pcigar.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#6be2a8957be02c6c84ab727aaea15ac6bf8652fd">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_penalties.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#48954eb7ff8eec47acac22143f1e30ddd3f06d7c">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_penalties.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#0366d64dc8bffeec9fe9210e75f61ecd72a4b15b">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_plot.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#c700c5681401f11b25e07398afe253f22c8678a8">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_plot.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#3ce334fff3908110f97a7f2355982a123ec2433f">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_sequences.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#bd8eed6c052fdc79cd0d813d09be05e292bdb437">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_sequences.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#64c3062cf5507ffd6648ac0daad5ce8f9e18b3ee">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_slab.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#bb70036b6636ee6079134576a9e04e89a33f9315">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_slab.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#bf67b7b02917486cb002117a1a09a3982d385692">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_termination.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#03722d87e79c2cd7f5cd5d53fe56c52eff456c4e">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_termination.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#bb3c5d93d07eccbd78243dcd2efe3e434fba5ef0">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_unialign.c
</span>
</a>
</li>
<li class="file-stats">
<a href="#4cde9848fc20d7d8a6b3af47740b7aff39f93694">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wavefront_unialign.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c65edaeeba0df587194a0c0c0ebf359c38262542">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wfa.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#2c1ac7e13d3bab0b4a8fe2c3970f284d91cf3912">
<span class="deleted-file">
−
src/lib/WFA2-lib.diamond/wavefront/wfa.hpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#4679133a30983cab642fd99c117e69b3d9944f5b">
src/lib/alp/njn_dynprogproblim.hpp
</a>
</li>
<li class="file-stats">
<a href="#da6bbc21a64486ffb03d30f992411ca54328be0a">
src/lib/alp/sls_alp_data.cpp
</a>
</li>
<li class="file-stats">
<a href="#73fc911b2cfc4f20ebbacd24a0708e02215924b4">
src/lib/atomic_wait/atomic_wait
</a>
</li>
<li class="file-stats">
<a href="#bc31b253437197a3cec9113c07936b352d9834fe">
src/lib/atomic_wait/semaphore
</a>
</li>
<li class="file-stats">
<a href="#f500d15c2d41dc0c0b9deb44aa91f93757e818ea">
src/lib/blast/blastn_score.cpp
</a>
</li>
<li class="file-stats">
<a href="#a431546ac32e9656d715122fc9982d175c997e5d">
<span class="deleted-file">
−
src/lib/cgranges/IITree.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#df66c2b154adc278ca3080dc9f5e1cb0eab7a595">
src/lib/mio/mmap.hpp
</a>
</li>
<li class="file-stats">
<a href="#bcd6ab1ec1e46235401e2cdf0dbcd78baec82f2d">
src/lib/mio/page.hpp
</a>
</li>
<li class="file-stats">
<a href="#77dc003f9cf8e8c6d70002dec11aea0accd98e86">
src/masking/tantan.cpp
</a>
</li>
<li class="file-stats">
<a href="#346bceae9c69aa640029837166a86eae0c98d3c6">
src/output/blast_pairwise_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#e744f4de2bef9a2b087868b317337a012d7e61ce">
src/output/blast_tab_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#d445f33ebb9fdd755fb39c8c351498de83a12c28">
src/output/daa/daa_record.cpp
</a>
</li>
<li class="file-stats">
<a href="#5b87a6bf1d7d697a31809518eed0a23641abb6b3">
src/output/daa/view.cpp
</a>
</li>
<li class="file-stats">
<a href="#65307de337e167903442e96d1ad09c9c5a614a41">
src/output/def.h
</a>
</li>
<li class="file-stats">
<a href="#6fed452838a966857e7560c09b7a25b6286a05bd">
src/output/join_blocks.cpp
</a>
</li>
<li class="file-stats">
<a href="#886ff73257cc2fb53eac3407b1ad5694ed69a174">
src/output/output.h
</a>
</li>
<li class="file-stats">
<a href="#47835b94538bcd69b2fa4694d560d8c54a48c330">
src/output/output_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#c7eb006568a8601edbd3ff5da55610baa6a9fc6f">
src/output/output_format.h
</a>
</li>
<li class="file-stats">
<a href="#7863fd2cdf1ec9a2526f933e45a8e91b54482c4a">
src/output/output_sink.cpp
</a>
</li>
<li class="file-stats">
<a href="#181002023c5471b2e4eafc21b66c8b455752bcf2">
src/output/paf_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#e2932890f006da7eb4b419e8c8a14c04cf051fe4">
src/output/sam_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#4a2557d2b7796aa2b7561d04d559deffdb557a28">
src/output/taxon_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#137d889d14fbc5bfe09a93491e5e120162ff3eea">
src/output/xml_format.cpp
</a>
</li>
<li class="file-stats">
<a href="#0ee070ce2ae60556b7508b21b4b5aa7a147643a1">
src/run/config.cpp
</a>
</li>
<li class="file-stats">
<a href="#6be14467706b0701ea97be436aa3ba348c3966dd">
src/run/config.h
</a>
</li>
<li class="file-stats">
<a href="#aa612a337fc66ae885c76e4eb2a819dfd69117f8">
src/run/double_indexed.cpp
</a>
</li>
<li class="file-stats">
<a href="#3550d99932a84c79895ecbcd490f1998f4cd963e">
src/run/main.cpp
</a>
</li>
<li class="file-stats">
<a href="#3e51b235d8bb7c3e73d2ab2f5aef5ce7adab48ae">
src/run/tools.h
</a>
</li>
<li class="file-stats">
<a href="#279e5f0b99b59d5410869efffbf9534837dbf70a">
src/search/finger_print.h
</a>
</li>
<li class="file-stats">
<a href="#deee33639c371a37669586ac131ec304c2687a8b">
src/search/hit.h
</a>
</li>
<li class="file-stats">
<a href="#cd4e239a6165148f5c27b9993d1dab45dd1baeb2">
<span class="new-file">
+
src/search/hit_buffer.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#43cef0fb7dfc62f23566ec8ce5b1f24bfb0706a0">
src/util/async_buffer.h
→
src/search/hit_buffer.h
</a>
</li>
<li class="file-stats">
<a href="#3d9236f90647dcdbf1271be1c5598ea6c93b80fc">
src/search/search.h
</a>
</li>
<li class="file-stats">
<a href="#82f6b0caee3293455f207972117c6999eb5081a0">
src/search/seed_complexity.cpp
</a>
</li>
<li class="file-stats">
<a href="#cfaa737b21f29a41655e955dde9c8a8adbb33172">
src/search/setup.cpp
</a>
</li>
<li class="file-stats">
<a href="#22b29def3b7d81ec16e39675fe266f4f8251562a">
src/search/sse_dist.h
</a>
</li>
<li class="file-stats">
<a href="#34873bcdc47da3313794b389ddd7f986b16fe12b">
src/search/stage0.cpp
</a>
</li>
<li class="file-stats">
<a href="#cf437c2859cf45bfaea0b16a1a3542dac8b39082">
src/search/stage2.h
</a>
</li>
<li class="file-stats">
<a href="#fbdd7a336d9d9a44600a75e6cf2f50c40618b5d0">
<span class="new-file">
+
src/stats/blast/linear_algebra.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#5943261ddc56a019f076302fa160bcc284ad3628">
<span class="new-file">
+
src/stats/blast/linear_algebra_ncbi.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#14d60ec2e5e33c44a7d3e2e873214b597fae51ac">
<span class="new-file">
+
src/stats/blast/math.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#1604a5e7a407cdd3487edb067839f7ec7c66a866">
<span class="new-file">
+
src/stats/blast/matrix_adjust.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#3b411ea00f3ba13858c83da3cc15c5dc81a7148b">
<span class="new-file">
+
src/stats/blast/matrix_adjust.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#544bbc35d84fb6bf54e6f6a2418f43aad706db6c">
<span class="new-file">
+
src/stats/blast/ncbi.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#e06e878b1989263e359bbb21280228fe503dab9b">
src/stats/cbs.cpp
</a>
</li>
<li class="file-stats">
<a href="#8d55c28ee98fae13dc483a0af411a0e04ff8fad9">
src/stats/cbs.h
</a>
</li>
<li class="file-stats">
<a href="#c796d676a563f0a4cd445667e037e68d6b7fa560">
src/stats/comp_based_stats.cpp
</a>
</li>
<li class="file-stats">
<a href="#108119e1cbf77fc0cf01743deeac327408d5d7de">
src/stats/matrices/blosum45.cpp
→
src/stats/matrices/blosum45.h
</a>
</li>
<li class="file-stats">
<a href="#af296d1991247847deb6d8e1b51b59287bcff5d4">
src/stats/matrices/blosum50.cpp
→
src/stats/matrices/blosum50.h
</a>
</li>
<li class="file-stats">
<a href="#f6c3b0a59fde933778c6ae7488efbb28f56b3f65">
src/stats/matrices/blosum62.cpp
→
src/stats/matrices/blosum62.h
</a>
</li>
<li class="file-stats">
<a href="#65e53c2e26866520f3b3d7aba8e6b9ff587beeb8">
src/stats/matrices/blosum80.cpp
→
src/stats/matrices/blosum80.h
</a>
</li>
<li class="file-stats">
<a href="#8c39c41b53c1e73e17b96862489d8eabc3b1b9c8">
src/stats/matrices/blosum90.cpp
→
src/stats/matrices/blosum90.h
</a>
</li>
<li class="file-stats">
<a href="#51a301fd50671364930a634bdb0c175e003d69e5">
src/stats/matrices/pam250.cpp
→
src/stats/matrices/pam250.h
</a>
</li>
<li class="file-stats">
<a href="#fc40783bd2502d61899fcc6277f33e1e5ece4ea2">
src/stats/matrices/pam30.cpp
→
src/stats/matrices/pam30.h
</a>
</li>
<li class="file-stats">
<a href="#4b692d2d60c6ef40d97fd45eb13547ccd3b81937">
src/stats/matrices/pam70.cpp
→
src/stats/matrices/pam70.h
</a>
</li>
<li class="file-stats">
<a href="#2058a9ae67e2c771bb0e80871996a46bc37218f7">
src/stats/matrix_adjust.cpp
</a>
</li>
<li class="file-stats">
<a href="#9b32ee7378b59f4b52eac57c29cbf196dcec9a3a">
<span class="deleted-file">
−
src/stats/matrix_adjust_eigen.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#2662c71fe68f3eb908dc367dc77c48ac6b94c8fd">
src/stats/score_matrix.cpp
</a>
</li>
<li class="file-stats">
<a href="#357a43007bc6c5664c4cb9059c749e2573334c27">
src/stats/score_matrix.h
</a>
</li>
<li class="file-stats">
<a href="#63e6bfee4b88d523eb9e5c3e73b677ddd55bb21e">
src/stats/standard_matrix.h
</a>
</li>
<li class="file-stats">
<a href="#0d294e23f65196b29bb05fdb39bceaf01d5612cc">
src/stats/stats.cpp
</a>
</li>
<li class="file-stats">
<a href="#aa259442e19873ad55a6f52ffa51a238a63c79d3">
src/test/test_cases.cpp
</a>
</li>
<li class="file-stats">
<a href="#3062314bb150f152af7ac80cd0fca55e311e2fc5">
src/tools/benchmark.cpp
</a>
</li>
<li class="file-stats">
<a href="#c652d0826c5cf759b0a589cc9d4562f3845d0780">
src/tools/greedy_vertex_cover.cpp
</a>
</li>
<li class="file-stats">
<a href="#53d875c0d7bce24ba3a63ce00696edfd99ed773c">
src/tools/tools.cpp
</a>
</li>
<li class="file-stats">
<a href="#f9a425b3c0db610cdbbd757d70b9e5f713794271">
src/util/algo/algo.h
</a>
</li>
<li class="file-stats">
<a href="#235c85871e05bf46e7bfc1d8a9cbcc4c087b319e">
src/util/algo/greedy_vertex_cover.cpp
</a>
</li>
<li class="file-stats">
<a href="#efff378a60ce9e869f6a083455099368a68ae592">
<span class="new-file">
+
src/util/algo/hyperloglog.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#490e50169060a5454eb4cab9921e3d6601d51c07">
<span class="new-file">
+
src/util/algo/mcl.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#4e29f8d1b4fc3f076b0352ccadd67ca2465f74b6">
src/util/algo/merge_files.h
</a>
</li>
<li class="file-stats">
<a href="#f63e8840b0286a9161ece80bb3c12a35eba2143e">
<span class="new-file">
+
src/util/algo/pagerank.cpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#b39225173ec87e52d859028018d239f6fb6fe340">
src/util/algo/sort_helper.h
</a>
</li>
<li class="file-stats">
<a href="#ff06bc246a2f06ed6d5c94602b862dd82b45b7e8">
src/util/algo/transform_iterator.h
</a>
</li>
<li class="file-stats">
<a href="#17426cc0df7da313f32d94db67e3db11e4c9672b">
src/util/binary_buffer.h
</a>
</li>
<li class="file-stats">
<a href="#b67b6158c203c4c7d7d0e5143244e2ab08a4f683">
src/util/data_structures/deque.h
</a>
</li>
<li class="file-stats">
<a href="#73d612738fb780a34cac14c41184df600df617a4">
src/util/data_structures/flat_array.h
</a>
</li>
<li class="file-stats">
<a href="#8887b1e4e793c55bd535639378d687ad42c7d0b2">
<span class="new-file">
+
src/util/data_structures/queue.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#e113bf8ef92fc57e907fd6a4dbbf85ca44226a43">
<span class="deleted-file">
−
src/util/data_structures/writer.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#82b8d2c8c60bbfd6e7a27156eecaf84b7831a36b">
<span class="deleted-file">
−
src/util/io/async_file.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#c7d88e9da122b13c83c70a0ad1751b23082281b4">
<span class="new-file">
+
src/util/io/compressed_buffer.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#1b62d2f9781ea3d39adec1cf8d57f51a4230a9a9">
src/util/io/compressed_stream.h
</a>
</li>
<li class="file-stats">
<a href="#36fcb697a287bbe8796a30b974f5abbb73278d43">
src/util/io/file_sink.cpp
</a>
</li>
<li class="file-stats">
<a href="#2c193e60e2e4b57078d3d04fc0b236c596841fdd">
src/util/io/file_sink.h
</a>
</li>
<li class="file-stats">
<a href="#a398452d4efb8f79635a5dc9752a9ea0845d4a13">
<span class="new-file">
+
src/util/io/mmap.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#8db0cbf2b742a23d191d0fdde9638917462a5521">
src/util/io/output_file.cpp
</a>
</li>
<li class="file-stats">
<a href="#426d7539253ee2d0a3532e750733269c6ff70bc9">
src/util/io/output_file.h
</a>
</li>
<li class="file-stats">
<a href="#3c4840cb551ad2a26153fea6d99b67fed0c17351">
<span class="deleted-file">
−
src/util/io/serialize.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#30432471979454d21978e6d6f0c55b5e8b5cccc0">
src/util/io/serializer.h
</a>
</li>
<li class="file-stats">
<a href="#1a076e7a556e6e7e20c7917b28d75a906b943e76">
src/util/io/stream_entity.h
</a>
</li>
<li class="file-stats">
<a href="#d7cc4906956f41fd1ab5a474f924cefcaca5c537">
src/util/io/temp_file.cpp
</a>
</li>
<li class="file-stats">
<a href="#dfed6aedc06d97ae5ff5bc3a25b9ca74943d05b2">
src/util/io/text_input_file.cpp
</a>
</li>
<li class="file-stats">
<a href="#a5067ee589797e11b583ba150f3f0688629981ee">
src/util/io/text_input_file.h
</a>
</li>
<li class="file-stats">
<a href="#31f161378ac35e7e81cc8cd57b7bcc9342b0786b">
src/util/io/zstd_stream.h
</a>
</li>
<li class="file-stats">
<a href="#51a1d40f0ead02e3e909bdd2183479f13d2f0116">
<span class="new-file">
+
src/util/memory_resource.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#e82dce7726c90038b952cbdcf6c55fabae54353b">
src/util/options/option.h
</a>
</li>
<li class="file-stats">
<a href="#42bc40f40b8537acc19e5b9cb3de92ad1abafcb2">
<span class="new-file">
+
src/util/parallel/atomic.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#7858529a9994d043f885358674e34be9f2315f66">
src/util/parallel/filestack.cpp
</a>
</li>
<li class="file-stats">
<a href="#8d2879354b317aec877a32a2e3f87cf408d84fd7">
src/util/parallel/filestack.h
</a>
</li>
<li class="file-stats">
<a href="#36baf713a3806a6addd50160c976c2f41314c702">
src/util/parallel/parallelizer.cpp
</a>
</li>
<li class="file-stats">
<a href="#23e18ee7d78d7da5c61a9a05d41cd2787fd9d9fb">
src/util/parallel/thread_pool.h
</a>
</li>
<li class="file-stats">
<a href="#6617a4e233ece137e70a9cee9c81ae7e9db251da">
src/util/sequence/sequence.cpp
</a>
</li>
<li class="file-stats">
<a href="#096443e603f657ce4c4620bf9da201a0766a4a89">
src/util/sequence/sequence.h
</a>
</li>
<li class="file-stats">
<a href="#5719a0cf0b73fef582667514105b1fe00f124a8c">
src/util/string/string.cpp
</a>
</li>
<li class="file-stats">
<a href="#2a31d0435e6db0f0a528d9f0a8f2370e703d739e">
src/util/string/string.h
</a>
</li>
<li class="file-stats">
<a href="#6d989bd121c156c01f5f2e9f4e690d872143f7aa">
src/util/string/tokenizer_dyn.h
</a>
</li>
<li class="file-stats">
<a href="#b5fac3acdf3c19bc73d991f6a4f794f61e336a79">
src/util/system/getRSS.cpp
</a>
</li>
<li class="file-stats">
<a href="#2ec7dc43068fc79fd78773238616dba736db6015">
src/util/system/system.cpp
</a>
</li>
<li class="file-stats">
<a href="#669364dd640ece5a57d17d123809803b6c661829">
src/util/system/system.h
</a>
</li>
<li class="file-stats">
<a href="#38a96df7b4353cd62e244f31fc5c994bf0641171">
src/util/tsv/file.cpp
</a>
</li>
<li class="file-stats">
<a href="#53b9c2cb67ee96dee1a2c2ec9236123d8fa77c40">
src/util/tsv/file.h
</a>
</li>
<li class="file-stats">
<a href="#f810b42354a4a0fcace7a607dcef9838dca07927">
src/util/tsv/read_tsv.cpp
</a>
</li>
<li class="file-stats">
<a href="#1e7776cc61c3eb8772d256a392d6881310bf1e8c">
src/util/util.cpp
</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/diamond-aligner/-/compare/08a9db9c54c90622b1210036d486472b01a50a69...dd9098526076532bb5a4198965bb339f6d6eb471">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>
<span style="color: transparent; font-size: 0; display: none; overflow: hidden; opacity: 0; width: 0; height: 0; max-width: 0; max-height: 0;">
Notification message regarding https://salsa.debian.org/med-team/diamond-aligner/-/compare/08a9db9c54c90622b1210036d486472b01a50a69...dd9098526076532bb5a4198965bb339f6d6eb471 at 1760694697
</span>
</p>
</div>
</body>
</html>