<!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;">

Pierre Gruet pushed to branch upstream at <a href="https://salsa.debian.org/med-team/htsjdk">Debian Med / htsjdk</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/htsjdk/-/commit/395c9dfdaa72b49a24a2f7f1ff7b3a6d8910be95">395c9dfd</a></strong>

<div>

<span> by Pierre Gruet </span> <i> at 2025-12-23T15:04:55+01:00 </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 4.3.0+dfsg</pre>

</li>

</ul>

<h4 style="margin-top: 10px; margin-bottom: 10px;">

1378 changed files:

</h4>

<ul>

<li class="file-stats">

<a href="#6b8eb1151e11abd72b31ffb764de06790e5bda1e">

.github/workflows/tests.yml

</a>

</li>

<li class="file-stats">

<a href="#a5cc2925ca8258af241be7e5b0381edf30266302">

.gitignore

</a>

</li>

<li class="file-stats">

<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">

README.md

</a>

</li>

<li class="file-stats">

<a href="#f07866736216be0ee2aba49e392191aeae700a35">

build.gradle

</a>

</li>

<li class="file-stats">

<a href="#c1fd3ddfa5246209d0d5cf69c072e1b6767bfac0">

scripts/install-samtools.sh

</a>

</li>

<li class="file-stats">

<a href="#1b7fbb76928f788f4ade31d7c1d398472247e17d">

src/main/java/htsjdk/beta/codecs/hapref/fasta/FASTACodecV1_0.java

</a>

</li>

<li class="file-stats">

<a href="#cfb2c495b10b95bd2908683cfcbf1506ed49459c">

src/main/java/htsjdk/beta/codecs/hapref/fasta/FASTADecoderV1_0.java

</a>

</li>

<li class="file-stats">

<a href="#90adbf101e160de03b5bd2b5fa3397590b2fe5fe">

<span class="new-file">

+

src/main/java/htsjdk/beta/codecs/reads/cram/cramV3_1/CRAMCodecV3_1.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#fb73b08749fa9f5d8f53d17449005eee31cf1e4d">

<span class="new-file">

+

src/main/java/htsjdk/beta/codecs/reads/cram/cramV3_1/CRAMDecoderV3_1.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb38b1a158f03aeea6ee66b9b8b4ae8d5bce4418">

<span class="new-file">

+

src/main/java/htsjdk/beta/codecs/reads/cram/cramV3_1/CRAMEncoderV3_1.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#91f8906d8dfec8c1d293e3b916307690278a8e70">

src/main/java/htsjdk/beta/codecs/variants/vcf/VCFCodec.java

</a>

</li>

<li class="file-stats">

<a href="#f3f98961afb3245310af57610b473c1470bc8d33">

src/main/java/htsjdk/beta/io/bundle/BundleResourceType.java

</a>

</li>

<li class="file-stats">

<a href="#28dd595e5422e5ceba60fd14ec9110c27208ac98">

src/main/java/htsjdk/beta/plugin/registry/HaploidReferenceResolver.java

</a>

</li>

<li class="file-stats">

<a href="#43ebd549d05ce5cbf4918a9b6d075661823bd6dc">

src/main/java/htsjdk/beta/plugin/registry/HtsCodecResolver.java

</a>

</li>

<li class="file-stats">

<a href="#7186ed35490a53729b13c07e15960002a82761a7">

src/main/java/htsjdk/beta/plugin/registry/HtsDefaultRegistry.java

</a>

</li>

<li class="file-stats">

<a href="#2f6e0ad4134ddcd579579a9ba6753cbd0328d611">

src/main/java/htsjdk/beta/plugin/registry/ReadsResolver.java

</a>

</li>

<li class="file-stats">

<a href="#5992920c55e8369d7f086236ebadfb20b0eeabfa">

src/main/java/htsjdk/beta/plugin/variants/VariantsBundle.java

</a>

</li>

<li class="file-stats">

<a href="#30f7b506fd0bafc28f47b0d5a735e0aa735fdc08">

src/main/java/htsjdk/samtools/MemoryMappedFileBuffer.java

</a>

</li>

<li class="file-stats">

<a href="#5a18e0c98433afb554990592498d397c7561778b">

src/main/java/htsjdk/samtools/SamPairUtil.java

</a>

</li>

<li class="file-stats">

<a href="#41a7c80e6460cacb0a0be3d2242e72618b65cc35">

src/main/java/htsjdk/samtools/cram/common/CramVersions.java

</a>

</li>

<li class="file-stats">

<a href="#b79d801491d6e7e0d63cf4a613f8ed7e3c66c7f6">

src/main/java/htsjdk/samtools/cram/compression/BZIP2ExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#d9b3026a2e59e78a514a5449eedc9288296e4608">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/CompressionUtils.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#2b29961138fab93123ff8cbf519791a0b80021d9">

src/main/java/htsjdk/samtools/cram/compression/ExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#fa48e93635ae38431bba0c5025bebde9c2721e9d">

src/main/java/htsjdk/samtools/cram/compression/GZIPExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#21f218b9f84f25dabadd3bbd5e1cd9fd069ff6c8">

src/main/java/htsjdk/samtools/cram/compression/LZMAExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#d7e9d8ba0f20576f1e43540818879b5441517afe">

src/main/java/htsjdk/samtools/cram/compression/RANSExternalCompressor.java

→

src/main/java/htsjdk/samtools/cram/compression/RANS4x8ExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#4020231b26e63c73922ea9f36ec31604076f6c69">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/RANSNx16ExternalCompressor.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#25e8b6fabf72913b394f57141010e5c8d9691c52">

src/main/java/htsjdk/samtools/cram/compression/RAWExternalCompressor.java

</a>

</li>

<li class="file-stats">

<a href="#461f36f7c5a7fae3ff06914b9fc79c77139c3404">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZCompDecode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#67aacd981cd09d1dce6387dc5fba1af383b53384">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZCompEncode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d4d6293e705bbd8d9094ee77fd20d834eaa7ea6">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZCompExternalCompressor.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#bfa6e4dca4e007ec0e182ea6e7d3fd816c81913c">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZGlobalFlags.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#641b911cc8a8f41c6237c79ed4446767f1cd997d">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZModels.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#11adfb80dc6c1f2baa9cc8d85e68c1159eb4076e">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZParam.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#78163a904f575fca0c9e0ae00c85e7fc46cc34fc">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZParams.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#7f991fd19fd32418c16e1cc0040bcda335078b5f">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZState.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#594516b5525c424a9ee5c1678c8cc277c73fb5f0">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/fqzcomp/FQZUtils.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#417687d00d6726c5c2011c5905547701a61fe1ca">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/nametokenisation/NameTokenisationDecode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#f016c1c1df278037da5f689a48afaaf8bbee84a3">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/nametokenisation/NameTokenisationEncode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#13ba65a0155f6b0d2b74e8ecc49280b55a301378">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/nametokenisation/NameTokeniserExternalCompressor.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#a23808f84f4b0d8b96fc983081be14e59c982de7">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/nametokenisation/TokenStreams.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#5462e1f9d2cfa49993802689014fd62448950307">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/nametokenisation/tokens/EncodeToken.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#b45518dc8f854ccdbdb4ff5feb999b6ffac24d06">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/ByteModel.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#4ea073be6626d637e225d8536ff89038c0e7f4f6">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/Constants.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#2a7964488f1e9595bd2b397d1fddb90fc970ad98">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/RangeCoder.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#fad3801cd38206a2a968519733585072626d2c37">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/RangeDecode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#0653ba1b1167bc75110a99407de7b0c902586431">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/RangeEncode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#495bc3e51fe918c1963033d4e1a4291194493bee">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/RangeExternalCompressor.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f31a423809c03e5be71aae7a01f8caeabf9643a">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/range/RangeParams.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#fc74d05be664c05eacaa02d74737c3e8427fe1fe">

src/main/java/htsjdk/samtools/cram/compression/rans/ArithmeticDecoder.java

</a>

</li>

<li class="file-stats">

<a href="#78a28d077007182249dee1bf72274440d3f8c513">

src/main/java/htsjdk/samtools/cram/compression/rans/Constants.java

</a>

</li>

<li class="file-stats">

<a href="#12be68ec2ada0534a5e2c781b0fd81cad1425e39">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/D04.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#ba78578f349e5e977d9b614eb8ec4201fdcb5b34">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/D14.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a043f6c84275301b2bd12da79f7f5a98ac3928b">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/E04.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#1bd0431f09f4b48baaedfefaa917a833b556c486">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/E14.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#fd2894629976979bf6e68c8406f0b35b1522df48">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/FC.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#94e42f190cba52e1525f30f31e16f98c5dfe89c6">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/Frequencies.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe568f64f5a3cf2f796e77a210c1ebe52a525d22">

<span class="deleted-file">

−

src/main/java/htsjdk/samtools/cram/compression/rans/RANS.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#e6fd5be8c529ae144e3ea10a7ccd338e2ee8f9e7">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/RANSDecode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#e211c88b1c0fe30705dd342885d71ee91ce50598">

src/main/java/htsjdk/samtools/cram/compression/rans/RANSDecodingSymbol.java

</a>

</li>

<li class="file-stats">

<a href="#fa3fe33126c3536ba1d808ca03ae4cb5eeff11fd">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/RANSEncode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc0e855715d10cc6d8ed165e58959a84c3193c1e">

src/main/java/htsjdk/samtools/cram/compression/rans/RANSEncodingSymbol.java

</a>

</li>

<li class="file-stats">

<a href="#3dd51fc516479a64d2d68f829ea58a8dd76facff">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/RANSParams.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#3753368e60ed0cc0805d025388170fc169516a76">

src/main/java/htsjdk/samtools/cram/compression/rans/Utils.java

</a>

</li>

<li class="file-stats">

<a href="#61e24c613acf63bd5d7ff445cee7ed8cb23d3004">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/rans4x8/RANS4x8Decode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#71b7fd6967752aa226e522bdd99b1fa4cd0cf489">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/rans4x8/RANS4x8Encode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#5dcde80afc7df435a56410a0d74e61832fd2f851">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/rans4x8/RANS4x8Params.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#534aa421be2cdcb8cb0dec5378ab9d718850a2bd">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/ransnx16/RANSNx16Decode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#882127bf8b5116916cb0624bec817ad3b85f82be">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/ransnx16/RANSNx16Encode.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#119de4bb1fa3dbd24ce33c97360365d5bf0c735b">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/compression/rans/ransnx16/RANSNx16Params.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#4b3460cefcedef95f86f1ff7cb29a63b93341a29">

src/main/java/htsjdk/samtools/cram/encoding/writer/CramRecordWriter.java

</a>

</li>

<li class="file-stats">

<a href="#44a24902cf5b29d54a515decb506be606e27cd96">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/structure/CRAMCodecModelContext.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#e1627d176c25c8bc9ee553827fd75812a005319f">

src/main/java/htsjdk/samtools/cram/structure/CompressionHeaderEncodingMap.java

</a>

</li>

<li class="file-stats">

<a href="#6e47e93006276f16762f6f566d8864f8881671af">

src/main/java/htsjdk/samtools/cram/structure/CompressorCache.java

</a>

</li>

<li class="file-stats">

<a href="#79e145fd36f7644e7c46fa6775a9d9caf2d04ff8">

src/main/java/htsjdk/samtools/cram/structure/Slice.java

</a>

</li>

<li class="file-stats">

<a href="#626793433a29daf01bf9e0d42dcb87311e414206">

src/main/java/htsjdk/samtools/cram/structure/SliceBlocksWriteStreams.java

</a>

</li>

<li class="file-stats">

<a href="#403fe0a769182b053dc2e3e218e37c6cbb0c6939">

src/main/java/htsjdk/samtools/cram/structure/block/Block.java

</a>

</li>

<li class="file-stats">

<a href="#d0aa603c41ff1abd9ae5ee062168a94cb83d3385">

src/main/java/htsjdk/samtools/cram/structure/block/BlockCompressionMethod.java

</a>

</li>

<li class="file-stats">

<a href="#bc13c014fe0ca8d277f0721eb09aaba8701798d7">

src/main/java/htsjdk/samtools/reference/AbstractFastaSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#49d803b55acabb045f323ae7c8ba16646143cdd6">

src/main/java/htsjdk/samtools/reference/AbstractIndexedFastaSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#984f14a1a6054051cf78b3db4538d2cad3933c9f">

src/main/java/htsjdk/samtools/reference/BlockCompressedIndexedFastaSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#e4ffcdbe11ac23aa7fdfad1c7f3fa5b958c84e7c">

src/main/java/htsjdk/samtools/reference/FastaSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#39cb14b00c9506677664b4bea7fabb8e7ef6e227">

src/main/java/htsjdk/samtools/reference/IndexedFastaSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#7634217b60c31720dda64a49b55898e23f5fd2ac">

src/main/java/htsjdk/samtools/reference/ReferenceSequenceFile.java

</a>

</li>

<li class="file-stats">

<a href="#d59f1a02b410074b6c3a69af125a843b34baffbf">

src/main/java/htsjdk/samtools/reference/ReferenceSequenceFileFactory.java

</a>

</li>

<li class="file-stats">

<a href="#3f9268fa9498d5bb51f8a66e50e9fcbc74d0bd4c">

src/main/java/htsjdk/samtools/reference/ReferenceSequenceFileWalker.java

</a>

</li>

<li class="file-stats">

<a href="#08893f21c192e1983e27bd3198004ddaf362041a">

src/main/java/htsjdk/samtools/util/FileExtensions.java

</a>

</li>

<li class="file-stats">

<a href="#dedc1745a49e489931c07352d270a4c8c147b60c">

src/main/java/htsjdk/samtools/util/GZIIndex.java

</a>

</li>

<li class="file-stats">

<a href="#3ae3bb0dbd07714c834165b2262e7aa13b68b384">

src/main/java/htsjdk/tribble/gff/Gff3BaseData.java

</a>

</li>

<li class="file-stats">

<a href="#6009bf7933bd3830438251405e12f7c06706a33c">

src/main/java/htsjdk/tribble/gff/Gff3Feature.java

</a>

</li>

<li class="file-stats">

<a href="#002c3a5bb8cb730b5b93839944fc5fff57a4c609">

src/main/resources/META-INF/services/htsjdk.beta.plugin.HtsCodec

</a>

</li>

<li class="file-stats">

<a href="#cca252d652c65321187342fbd32ff4b2e061c5ce">

<span class="new-file">

+

src/test/java/htsjdk/beta/codecs/hapref/fasta/HaploidReferenceResolverTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#7b13aa05854a4e99ddfd9b1bd9a35a7d6ec099bd">

<span class="new-file">

+

src/test/java/htsjdk/beta/codecs/reads/cram/HtsCRAMCodec31Test.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#681d36db936e19c083a762187133eea9a5568e5c">

src/test/java/htsjdk/samtools/CRAMAllEncodingStrategiesTest.java

</a>

</li>

<li class="file-stats">

<a href="#624d8cf07d5549b3e7cce010a8bf853a246d9e08">

src/test/java/htsjdk/samtools/CRAMEdgeCasesTest.java

</a>

</li>

<li class="file-stats">

<a href="#83b0dd1e8eeddf3d6cf6866eca9476fa1081705e">

src/test/java/htsjdk/samtools/SamPairUtilTest.java

</a>

</li>

<li class="file-stats">

<a href="#ffaa27116d1e5c24ff7b7dd6e725a316e475b78d">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/CRAM31Tests.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#148b51c128975d0404bf901ab87d1943ae48b482">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/CRAMInteropTestUtils.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#bfd6790808d0e91ab7ded5da66f7ed5af26e73cf">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/FQZCompInteropTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ef014644cff54ce0f7a511f599ae5f2bc4504a3">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/NameTokenizationInteropTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#4ecb905e77aaeefc427713603561b099fcaa7b72">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/RANSInteropTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#6cce9b9a12661bbf2827c0627170926b3bd5862c">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/RangeInteropTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#9ac25cfaa93cf8f90678bc58ac87292f90250b22">

src/test/java/htsjdk/samtools/cram/build/CramIOTest.java

</a>

</li>

<li class="file-stats">

<a href="#9e0c456f5bb5fe0b48bd1f44ff43fd0137996d3e">

src/test/java/htsjdk/samtools/cram/build/SliceFactoryTest.java

</a>

</li>

<li class="file-stats">

<a href="#cf40a22658443b9f2ef8413322df967aaaf9fec0">

src/test/java/htsjdk/samtools/cram/compression/CompressorCacheTest.java

</a>

</li>

<li class="file-stats">

<a href="#d485cd7144855e06a77b044db2df493c9b6db339">

src/test/java/htsjdk/samtools/cram/compression/ExternalCompressionTest.java

</a>

</li>

<li class="file-stats">

<a href="#68ac90f1d167f9d807f2c9f57f3410afad432d4d">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/compression/nametokenisation/NameTokenisationTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#ac8171a5e93c900110e0ec3de17658f7d3e7ba4d">

<span class="new-file">

+

src/test/java/htsjdk/samtools/cram/compression/range/RangeTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#8d7257108069a153602987093b313d4bbd0ad2c0">

src/test/java/htsjdk/samtools/cram/compression/rans/RansTest.java

</a>

</li>

<li class="file-stats">

<a href="#dab8d37c2f8475290cf5c2685ef8ab335129163e">

src/test/java/htsjdk/samtools/cram/structure/SliceBlockReadStreamTest.java

</a>

</li>

<li class="file-stats">

<a href="#e89e1aba4c77a60cf56dc065419be7928f83abd6">

src/test/java/htsjdk/samtools/cram/structure/SliceBlockWriteStreamTest.java

</a>

</li>

<li class="file-stats">

<a href="#f02b4be58b63129e4d99a39db6098f4131fbce06">

src/test/java/htsjdk/samtools/cram/structure/SliceBlocksTest.java

</a>

</li>

<li class="file-stats">

<a href="#bd3c8a32636e16e584bee5de2f61ee245f575486">

src/test/java/htsjdk/samtools/cram/structure/StructureTestUtils.java

</a>

</li>

<li class="file-stats">

<a href="#3ab5f50bdef7d289da1039b0f3dd255faf1a5ac0">

src/test/java/htsjdk/samtools/cram/structure/block/BlockTest.java

</a>

</li>

<li class="file-stats">

<a href="#6212863b5a35f54082f21cc7f235a38317160a6a">

<span class="new-file">

+

src/test/java/htsjdk/samtools/reference/AbstractFastaSequenceFileTest.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#a550a63c74d18c2aef2f1494cab4ea2ac2ef3135">

src/test/java/htsjdk/samtools/reference/AbstractIndexedFastaSequenceFileTest.java

</a>

</li>

<li class="file-stats">

<a href="#30cd612039afbe0c4783653040222c7216e34f96">

src/test/java/htsjdk/samtools/reference/ReferenceSequenceFileFactoryTests.java

</a>

</li>

<li class="file-stats">

<a href="#c4e666afe9a8a27ef8a0d806459c6dc4743280fe">

src/test/java/htsjdk/tribble/gff/Gff3CodecTest.java

</a>

</li>

<li class="file-stats">

<a href="#c98d2777d714dfdf4fc7ed83fa894b0171f472e6">

src/test/java/htsjdk/utils/SamtoolsTestUtils.java

</a>

</li>

<li class="file-stats">

<a href="#2f2bf030b6b3ed92800ba23cf12a56678ff7b835">

src/test/java/htsjdk/utils/SamtoolsTestUtilsTest.java

</a>

</li>

<li class="file-stats">

<a href="#259e3dfd840df50c00ea909fe59649803a7bf5c2">

src/test/java/htsjdk/variant/variantcontext/writer/VCFWriterUnitTest.java

</a>

</li>

<li class="file-stats">

<a href="#1cfd97b7ad7a895cb7dfa68a7c1dfaa4a6468e95">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#78abf1ff22d67870a81200795bfcefc0275c61e9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#296b5f6f2fd706e9a1f2c5732e8a31d809c70c34">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-chebi.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#63336ca5b98bfdbc16830f7598f12cdf3902a0b0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-chebi.txt

</span>

</a>

</li>

<li class="file-stats">

<a href="#522f984d4a60b28dce222b1ad1731eec65dd016c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-double.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f194674b1dfede64ca781f4a192448ff13f197b9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-double.txt

</span>

</a>

</li>

<li class="file-stats">

<a href="#6a332648dcdb0614e4e1ec07deed6271430b3dfc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-explicit.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6d6b18951777426894151495c43cf74619d65f30">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-explicit.txt

</span>

</a>

</li>

<li class="file-stats">

<a href="#70a2f63eaafc7d9cc5984066157b85600bf41dfa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-multi.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#981ccef5eec176f9b1a894b8da81bc92d653dbcf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-multi.txt

</span>

</a>

</li>

<li class="file-stats">

<a href="#feb2a8f3c542447211f9037e9b65d908487e2dee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-orient.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#77c264bb4c7fbef48240c3859f86f9d0bac95431">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/MM-orient.txt

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a486a403309e3835f4f6b9a894f90c1191d21a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#a688b2cca384ad28c0032d726af40d12f984cb90">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/SAMtags/parse_mm.pl

</span>

</a>

</li>

<li class="file-stats">

<a href="#40019620639810d6dc6c5882869490ebf44dba11">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/bam/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf5485870ec81a88e924eefcc4aea8e0866734ed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/bam/passed/level-1.bam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f695086a94194c7eb3c52a26c7f222277a2bc1c6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/bam/passed/level-9.bam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c083b6defb3fd9244050c7205f91eebab58f408f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#dafaf55e14844c0ee9e5ef7ff24241e404c7eb37">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#538502af7b3e4ac2d0a14ab3250b03b47399213b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/failed/0000_empty_noeof.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#8aacbf8438226497dd91af4d8df28428c49d6d6d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/failed/0000_empty_noeof.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#63732ee33068dbda9bbf35641ac188631a20ee5c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0001_empty_eof.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#049bebb64cfc66c9afbee8b42e202447c7c29593">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0001_empty_eof.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e21770fa3904eacdf17a488d4bb6c9cccbd482c8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0100_header1.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ac310d02a70654cf48eab36d83d46093b3e44fb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0100_header1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d2a8d6972c623cfde5e70db95aac8e93f7853ad3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0101_header2.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#885cfb220c6101312d95ca8252fc086ebb0b29a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0101_header2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ee4cc4ea908e50ea5bda2f07e80ad8f631db9e00">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0200_cmpr_hdr.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#f52ff9c576ecc33ed52ab2daa3196df22b9c6e7e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0200_cmpr_hdr.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d6421890621fa232a423fe31d76c58cb8a6e81b9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0300_unmapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#1b00cddaf15b5ce76f56969db06b27121a199192">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0300_unmapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#02914dc8baff53c54481521bd451d3e0b5abb1fe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0301_unmapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#700ff65f842a54fa802365ca5b84ef522acf63d1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0301_unmapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ce384d7dafea43de5470ce452e280accfc8353f7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0302_unmapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#cf6cf2a9001022d98184738b9554c423314290c1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0302_unmapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e7a0efec923370ac28d4f8cc8c2505a19c8d93b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0303_unmapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#d0704a99b5d0ef144b1d63309249fa8c643f3af1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0303_unmapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#0bdd601f890d1ba0085c988017c2f00972fd8dd2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0400_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#52234578854ae0d6fcf85308742f563507093a18">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0400_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#877aabf28b36ded1f3bdaee3bd72b8cbce1da4c8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0401_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#78c8cb2a3a370d9605187a7834362b10e140adbb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0401_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3cb8dc14b3ece124f42a8f273039779398f914d8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0402_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#e49e78ce670f39a0a4404ddc4d06758283302ee2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0402_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5880eab091e3d6a80d068f6bb1062509025c1da0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0403_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a9a7d94c6305c2fba61ba5d8203ac791271a67f1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0403_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a36f67a658dd9670982aacc04c8a42f32251fc9e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0500_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f92aa759db4b73fbf077f985118de3562a6b698">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0500_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#27ef241b21c009dc271074709930f27175678bbf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0501_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#308893bcc7b9379a8f5b0bfda29ff54fce9012ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0501_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f7f897a57e85a020aad65d5e48ea867cca5fc9c4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0502_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#8511c441d63223f694b2de62d99b882eaa3d49fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0502_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#47787794aafd59132a802e8aa971f6e207b381e2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0503_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#06acdc53b9029fd2da493d703508e11563b162e4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0503_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d8f597225275714a0362e36d31742a574e53411a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0504_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#1d7a93a8a0ac40f134898eb39cec059112697852">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0504_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#cfc23053a70ade0afcc58bafe83746d32d4e9a50">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0505_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#d316315ec3c0e5966898151a58c75e1f6fb84fef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0505_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a974a283a2db55a4befa8e1f54ba0e4666c6f7ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0506_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#0fd3d218422303443e932b361dc4dcb8119b0ea4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0506_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#126d7cb34da3aa5eaeb9d541a42850bfe5ed650f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0507_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#be776a4504fe646adf56c57b26a47b8e82e50d85">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0507_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c7fa50e7145f0c249ba5127a39794dd8ddb335ab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0600_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#9c6023548b1e9ea9ef625f3deed7179bd7a7541a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0600_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#02835f95efe56b0b1ea6a23b764660c111111467">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0601_mapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#e667e879978d3da3f78e9c1dd3fb1dd3347cdbd8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0601_mapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c23bab777a3351e757f2546d0335b83863fc8125">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0700_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#41463bc1f72037b94c8f8a54c0cda5d08d0948a4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0700_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a883b11d2a88b09477d1404c8a074add0dd5eb57">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0701_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a1ae4ea86fc17ae08ceae9262b48227fec75e32">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0701_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9cbca986470c5a875b1e5fde984f887216a45304">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0702_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#ad10aa5366fb67daf10810d1ecdfb869fb896660">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0702_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ed4556cfe8da09279a4a90ba33da6b08ea8f5aee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0703_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#518eebf3f55e4ab30cd3b9c9f09f43489f451616">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0703_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#416d7e44f0b19029ea32686396d5095c96cbfd86">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0704_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a918490d9229b65d4c5366dfb13692bc1a0f9a53">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0704_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ab57310a6282a4214e086b6e94e987dfc2b8a3c2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0705_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#769f4ce7a59504b7da298e1d1335df19f0120180">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0705_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc7c83b69c149542e7a7f6574c3191a202674db3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0706_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a1c2d26ff622eaf1feaa1b2c2695be036980f846">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0706_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#60fd9889141a06b90d6a36d65065f83f14ee9e26">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0707_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0d1181ab67e93e69025985c9d82b8e55c1ffe12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0707_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4bbb3af46795129e548c1551d9837ab33359f822">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0708_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#4e38fa23d44faffe017caccfbe96132f085a6891">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0708_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e4e2ea7ef7699e5286c562ddeb76c85aa0ad4633">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0709_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#61762394e8709a55761769171b5370fba39f0024">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0709_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9a19ca14270e9b43d3a2a984615af52efced5aea">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0710_tag.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#980fc757bed5d6e7039dc33d678228fee812797c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0710_tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#347ea76967fa29f0e35e410247cf3686b5317a7e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0800_ctr.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#9637d741f3ba2b544aebca883833d2d6a75daaef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0800_ctr.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d750ec6df1c29717c5ad8a149ea046acb1a0cf81">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0801_ctr.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#22445e5950723e57fcf6c8dd9a257d9f02224ffe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0801_ctr.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#8f49bf402ba95f03ed6222d263810f0aa4ea03f2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0802_ctr.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#45e1a493be61678d1757a47c8447fa0482a2036b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0802_ctr.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c928f642173e6d57c8c18ae8f1a22e868b6849af">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0900_comp_raw.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#931e1e2cb7d8b9b7a6684b1a58fdd66a9f5c4075">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0900_comp_raw.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6ef86b95673f8783bde140042f9f59e97f80847e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0901_comp_gz.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#c88f0a188c5a9666707b911ea820a505f4221f68">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0901_comp_gz.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ef89159abee6a69354c78a9a8c48e451fa449a92">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0902_comp_bz2.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a671f632cd4adb73e7e7e412049940c46c97d933">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0902_comp_bz2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#842381a2f9582b775cffc7ef5a6b57e9fb0c7f30">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0903_comp_lzma.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#f68dd0e60d723c062f917e16e925b0b30ab3eb10">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0903_comp_lzma.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#aaedeb21bede7f996747466ce8dbd6d556125b78">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0904_comp_rans0.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#4c7aa71c664bee6e31d7618296b1c59954725fa7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0904_comp_rans0.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3895143a0cd036fec601150e4a8f40ad0ee268dc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0905_comp_rans1.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a5694bd56f62b9477adefff9b2ea70fb0980dfdc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/0905_comp_rans1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4ca199f948b5c8224393ad01e8b8f0e2d38fb840">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1000_name.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#bff5c553a416ccc700550ac82f72adeb076dcd1b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1000_name.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f8d433c6fd972ce21cad487cacf93e3627bf6fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1001_name.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#1d7c0f68ae10a9fefb92d9786ca210ad6585e8f0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1001_name.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4a8e7090395bb542f8de9a264f471e55bb8be853">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1002_qual.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#d756764940ddd39bff1e9bc64051a6131e093c90">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1002_qual.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c18ab11bebf87cf9753168f5d9c86d9c19bc033e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1003_qual.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#5b01baf1f731cc6be31623c29768783ec8695869">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1003_qual.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cbeed381bf54bdbec28b51e38e0fcebdebad1eb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1004_qual.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#f6cac2a75af16db01b8e699a09b302bee79e79fa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1004_qual.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#45a576827ea61a29f2bb3e6790a6a4a2959d7ccb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1005_qual.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#26cc7511ccb80e1da052e864b3a71ea2b1588697">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1005_qual.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#8e0f35b8d57b0f1388bddd4a9a3bd418410b92eb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1006_seq.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#7b68fde0b567018cfcd6377db337c000d03590c9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1006_seq.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#da92c4be23134bdacb59f7c2abd9153cfe49aee6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1007_seq.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#83477a420e2d6960a5d2437ce585786c6548190e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1007_seq.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#32a3bb4156b513b341b1f717fc5baecc84ed1d16">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1100_HUFFMAN.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#6bd4f0be073e5a5c07f777e754ac165630ad71ef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1100_HUFFMAN.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#70b77b7600355b2135133224cafca3b2c6b0b45f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1101_BETA.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#e4e6f7011a007cb06219b26c69c95dc356b8a464">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1101_BETA.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#2e350d4848da622d18c37e35893ddc3f8ed1e62e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1200_overflow.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#d4702a3697d2098ec89d35d778c2c15c2edc829f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1200_overflow.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#61a55c19ada2a6e8979ae694b019b1c31ff654b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1300_slice_aux.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#cff1ace636d069e7b8d9073a15e379cd18be1016">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1300_slice_aux.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d224deb74e735c98e032565add1b01829994783">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1301_slice_aux.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#e55010a729968db3be4db331f6158c20a8d9fb47">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1301_slice_aux.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#72d8245a9997cd2482cd89ef6f2f21795ebe5f94">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1400_index_simple.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#8843d5ef5f368704c7d6a80b8b8140df822c6561">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1400_index_simple.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#deb28803f1bd47a0217d02116a12ef64ad9d3dc3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1400_index_simple.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#41c2aff210ff1ad130230dc4e388f8822526f630">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1401_index_unmapped.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#d16201aef204c3ee5c4c62c3ea8e4158ce491504">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1401_index_unmapped.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#329cf27fdefcebe9e2ebd696a39a62cf8775de95">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1401_index_unmapped.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#75d9294e511850894bfbd2615ebbfd9f365fdd56">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1402_index_3ref.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#e8fae98eb29c115d42d63ed8ff3d2d2536299fcb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1402_index_3ref.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#1fa6985dfb173f11c8a3c8ce03ba38583936b90a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1402_index_3ref.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf839d9239a5aea5f03c790cc4afeaeff44cda88">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1403_index_multiref.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#5853039b2621679084e65991d1dedf24e6506597">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1403_index_multiref.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#aa03cf53bdc5f9e00c095a7bacb79b72e839561f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1403_index_multiref.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#cf4e12b1f7292cab2cd9458313deba59a4adf952">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1404_index_multislice.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#4f6d1ac3e5d219c303fe7ee4d78d57bb6d76ef35">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1404_index_multislice.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#c306d01abf4ab6a9a4c42fbd4ca3299b49542e7d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1404_index_multislice.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c2b23c95747ed1bb30764856ecd3595597efb309">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1405_index_multisliceref.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#eb8512702a65fe84b449222fc2b86b71d81410c4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1405_index_multisliceref.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#cdc566bce4bfabfd05e7c091a793c6d6175969d3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1405_index_multisliceref.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d6b33b0a0659b305844a8d08139e077e7c299a80">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1406_index_long.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#959d24f9a6867b26a27c5dea98c82bb82cf9648e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1406_index_long.cram.crai

</span>

</a>

</li>

<li class="file-stats">

<a href="#657f9ec9aef5b6c2ed189aaa36fcac850fbca4c8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/1406_index_long.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#87ee845add615be5ff8b4d8ac8bc849f98fe2869">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/level-1.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#a2390b4d3d099a770a458edc74e43f75ebf4bde9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/level-2.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#40886182dbb8b1f43b933f0494f70d4f4186f703">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.0/passed/level-4.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#928386337d21c9814ad48a9b55906487babfc3af">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#ed5f8ada68bf301ef5be71e747c5a8e2a5783400">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#b3eb909cc29004b68f99b41dc071b0b340f3c0fa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/passed/level-1.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#4c07aad93cd4cb4db6b0a1433475892c9c27da5d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/passed/level-2.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#f6ae76b7e7a7313cf3aba3e5fddce6b0c896116e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/passed/level-3.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d8fa33d348d7612e8a8083ec79e9f828a7347e8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/3.1/passed/level-4.cram

</span>

</a>

</li>

<li class="file-stats">

<a href="#31087d59dcd22e820e29760d3615cdc577eeb101">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/ce.fa

</span>

</a>

</li>

<li class="file-stats">

<a href="#42b3583e97ff539442c43baaa8e360ea56af666c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/ce.fa.fai

</span>

</a>

</li>

<li class="file-stats">

<a href="#630607813673e1305f73d218afd503045ba2e59d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#793bbadf7fdebbfb96178e23c7c3d320bb385d3d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d448367fdb64ee94a89fa41ed50dccf45cffe62">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q4.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#64c0b1ae4f5b7e8630ec2029ab5b644a70f6f954">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q4.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#9dfabbd34057c31b852e06ade9443ce735583ed0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q4.2

</span>

</a>

</li>

<li class="file-stats">

<a href="#ba55d03fa19be18fc27a84d7ae99a5dba0da0c94">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q4.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#dfc3bb3d1c3c26db9aa6a80d7c12b2705f427fd6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q40+dir.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#a10d91570e4f694f763a9c0a90f684903532b3b0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q40+dir.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#10d189ae09eccf8f5c6dfc40c12173493a0d5a59">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q40+dir.2

</span>

</a>

</li>

<li class="file-stats">

<a href="#d40f7222f1845e60baeebe8a62f4459bbf16f9d1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q40+dir.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#de298007da790fb0998f0beef6be2b2247f89f41">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q8.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#833cbc385f05c66d0a79ee625ab896c953fc2994">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q8.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#03eb5016d599c55747382e029d6e83436ba7ca61">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q8.2

</span>

</a>

</li>

<li class="file-stats">

<a href="#98e308c8f80b9b6ddf6ff0292694e99ebedcba39">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/q8.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#b30c3b31961af81b055afaff90b00a022096c425">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/qvar.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#6138a0cb159ad4ab13f61a04365df385661ef2ed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/qvar.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#a60c37d9ba4dec9586af1dddfda5e130eff260bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/qvar.2

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc4d1dd6feb739bec2d54dab868d2f36b0b3dde3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/fqzcomp/qvar.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#52d83f57938d5042d73d54d0f4817da069de1f7a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/01.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d4f7d4888b87036f4dc4d7e296e5ccfe69360a9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/02.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#d8cd9ec1f84bdff74cd19db3ecca35ffa0b4459d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/03.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#e622f49d34ae0684ef5160564eeefb58161e82aa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/05.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#04fc964c5939fc10012ecd8efe1695ea26f79420">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/08.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#dddcaa8d1070e92384ce1f7e00a20265d3267f9b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/09.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#bb52d64cbfa8576a21d039604f29a34996183431">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/10.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ddffc90c7161e09b7c11d280c3a3328e38054ce">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/20.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#47208a41035819046f187fb86f61bd23a105e84b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/nv.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#43b5d50099d9e809a95cb50d2f84c70c7f96067f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/nv2.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#a4e034c22d7567fd1a4299e739d99ab1c2b49aad">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/q4.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc2d2c9fc2b4fdc5fede23498205d3ff01c44185">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/q40+dir.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#425b1c10c513430123a143aac272b4d6de60ce74">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/q8.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#0142f4023628521770ec06db6c0ac32d63faa63c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/qvar.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#f2ed9953c97c0266fe385b4ec0d5430c1c2f3faf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/rr.names.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#8942b4b34400f2a7783c191a4dd50cc17512a92c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/gzip/u32.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#1606d833638abef02d0766a0fec799d0c2ccee26">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#1274a82d0240cf87c33f9542b087ad61174590c1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc4b12a49f5bb23beb378d2cd913fca590673af1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.128

</span>

</a>

</li>

<li class="file-stats">

<a href="#c2b22e5f8e05bcf9b5d29f0c2dd8b10c4da81773">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.129

</span>

</a>

</li>

<li class="file-stats">

<a href="#c787f6ed8f38e021353b47401203a045018492a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.192

</span>

</a>

</li>

<li class="file-stats">

<a href="#ffaca2870bb4433a094439017f887181ad110fdb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.193

</span>

</a>

</li>

<li class="file-stats">

<a href="#0a3f32bae1752a8f62ea5648b2cd628f7dcf720e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#1479486ea7c17db4c97ceffc7f3e6fefd1a39ffb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#e1c65984393cb94de60db7286537426981041d40">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.8

</span>

</a>

</li>

<li class="file-stats">

<a href="#a546b646051bc669f3daa3b45ab404885e9a138d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q4.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#540f16ce78ca547a57542ba015393554fdadb9cb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#568313cfd3c7f620828b9878ba5f3a5a31a0da2f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#33d3c812b5a4393ff2946ede2b0b869db0a466a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf182952e6237c5dc8a964db3ce8bcc4881dae71">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#91b5635f87dda237e98daf19c82dd16f2c3f980f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.8

</span>

</a>

</li>

<li class="file-stats">

<a href="#8a21d89fdcf76ef1a6565158ece5d34d0b699c20">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q40+dir.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#19ecb83f44e2fdbef0c50118e81338d5e5464e58">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#50fbdf69559c45e56b91f99febb920bb7f54feb4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#bddd54c959eb2fe671d53fec00902057982af667">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.128

</span>

</a>

</li>

<li class="file-stats">

<a href="#0060b09f277e21bfcc7ebf6e251b93581046bfa5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.129

</span>

</a>

</li>

<li class="file-stats">

<a href="#4a2d9b77a7660d98e821513b23669ac1346ce015">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.192

</span>

</a>

</li>

<li class="file-stats">

<a href="#209fd894e9a80662c0a476892e080098be0dafc6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.193

</span>

</a>

</li>

<li class="file-stats">

<a href="#07477ce4a2bafd27c76b8f64b2de9b77ac3b95f7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#c8436bc32f43993b7f9b975bf729f084bf2e75d9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/q8.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#ffeed4d9191ca703ee01f5fa4251f5fb67478bcd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/qvar.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#b6b15fb311762aff866a7c32d5a13776497ef0bf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/qvar.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#b6da0cdb6b6476d29f04f91afe9e47f073443d61">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/qvar.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#22e7e4abc6235e4ac18a86ff1af64ed9cf86ace1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/qvar.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#fea82c1970568e7ab294e3449412f80df074331d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/u32.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#b748a6ece8b9653474db60d6a9b645961a9414af">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/u32.4

</span>

</a>

</li>

<li class="file-stats">

<a href="#5fe396d57d3d48820cb09fbe2fc71f33f5e57e43">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/u32.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#401d11eaa4104b3d4584fc7f9e3ae056eb63471a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/range/u32.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#8dc94833872424c3a3d02283298ed1e8f340e478">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q4.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#4cc6efeccb3a1f1c6ed54609a1be15251bff04ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q4.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#1baa5899f4861559802aa650ba76d77c75feb24e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q40+dir.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#cdf818b549c2e5590f64033c6e090b74fc81d793">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q40+dir.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#025225b0b5a3075d52b72096f075a2637c69c3b0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q8.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#0d7f5f8e3431adc225aad805867c2010f4f8581b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/q8.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#5164b3c843fdc15f0b03698dc08a11c9cbbc220b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/qvar.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#a2c00a1ff3416db4d3bdb50803f33bcd9e14b690">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/rans4x8/qvar.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf647f29aaee765e8455a4c30160d438f727757a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#9cda695f44a66226d67c4cd53ae051c762295093">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#4dcac66627709a86517408d72d8eeb00ff4d550d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.128

</span>

</a>

</li>

<li class="file-stats">

<a href="#64f440b3ab544bf9bbbd24fe77e06c22e7796628">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.129

</span>

</a>

</li>

<li class="file-stats">

<a href="#b6bccf70fde46fb666160abe7eae5462b353331c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.192

</span>

</a>

</li>

<li class="file-stats">

<a href="#64e0c01656178ff94afef5c50b70e7ffbbb3f714">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.193

</span>

</a>

</li>

<li class="file-stats">

<a href="#3c6fad2efc156efbf8e50f9b5c97243d18e69fbb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.4

</span>

</a>

</li>

<li class="file-stats">

<a href="#e6924f89e63ef6c4b6fc09e2b7fcee84d88e3c4c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#de332710af02e50f882bf91514e79024854b6047">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#b510ef76babd199ab9b7926d868e2400b1f5ca68">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q4.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#aa29de983bc740c46da5d7059dabc9344886d66f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q40+dir.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#3357731a9aba43975376cc79dcedd18fbbf3c7ef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q40+dir.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#bd268e3c76339ca9a43d50e7dace05534b3439a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q40+dir.4

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb17222b7a1fd66ded83ebbad812b87c977549cd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q40+dir.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d69cfb9e055b7318bd36edf330abfdedccdd5ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q40+dir.8

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf81d4682755d949935db0f00f3316a154988f66">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#b0a3f9b6c79c263a5e7cff669d6e5788045ad565">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#c50587959e8edccd58df017e983702ca913b8dda">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.128

</span>

</a>

</li>

<li class="file-stats">

<a href="#6b22e3e738940134af2ca608bd233e4ce06cda19">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.129

</span>

</a>

</li>

<li class="file-stats">

<a href="#d93db8193bcc6f9e7afcb126aabacf9fe2d8e1fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.192

</span>

</a>

</li>

<li class="file-stats">

<a href="#4e3cfe6d1de36069ecf04a26306d6fbbe4d0b34c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.193

</span>

</a>

</li>

<li class="file-stats">

<a href="#8b78e7ef66b30ad8a75e9d3f4f2125da8cd430f4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.4

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf1e1c6571182ea3be5e42b554433bd859300bfd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#9cf1070c20c970241ffa565291870c9fe5dea4d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.64

</span>

</a>

</li>

<li class="file-stats">

<a href="#d7fd1926d9d2c79fc53732f62ead8ef96f3507ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/q8.65

</span>

</a>

</li>

<li class="file-stats">

<a href="#b113c709654d0c28ab69339a415d1f7225de75d7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/qvar.0

</span>

</a>

</li>

<li class="file-stats">

<a href="#daa9f4f279c9dee786c14f3f6aea670629abbf22">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/qvar.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#32a08a75da3ac0cdeb57a748502265a872b0d5ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/qvar.4

</span>

</a>

</li>

<li class="file-stats">

<a href="#5ab6e602558f38ec380b2b1452f58231978d49c4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/qvar.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#a308a2a0d9c3a24236e818777c2db71c685882f0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/u32.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#1305bea360861fef43c069cf6ef13d62716e7d23">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/ransNx16/u32.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#249e87e8424151de019de60b81b738e50882391d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#3202c5388e57387b76f9f5617a623677908969e4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#8542391c23ebcd550ebf7b5686fab6a9084a0401">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#b88abb261a3a6ad9a000976cfbac770f5ed31311">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#ae0dfa9a50923edd8b7ec23597a9ff73adc6552c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#4d217a376e6a356f88f91a46c89b548192ec42be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#b211f14219e3044ebb0c6d87b2ea74a6cece42b5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#a3b332009728600cb123cad25c8befe9a72186a5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#76c7652eaf69554128e289a51d36c41f3a2884d6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#65dbb8ee219f09f1725e6513925d694b9571d2cc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/01.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#49c03d92036c2be3122893a8c32036e3680ab80d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#489c374f2d91c6dc12a6182b56eacc292a54de40">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#d007e1c4b01461e383cfd270af0dbef9ec6a90b5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#661d825652dccff509e8dc120e52a27bd614408d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#6034f85d3f348cf2626eeda4264feb001f56a6be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#85c7191db89ead59ac98c5c31ef37a6a154b4af6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#417a204cee301d4a0c6a723407fe7a05a550edf9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#683414c1d68952ce8fcbcfeebd849597a8ac5d77">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#9c1e6197b94bb79d3999ad3f0f5c6943d295ed9f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0a52940d536814b9c785623df94afa38a7cbb61">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/02.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#29caa24004d96809688a54d61f2a6bfa13fa00c7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#3c3c7d070194a3999cff35ea042247aa7d154c18">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#4835c20b98006b958da623b090f31603326baddc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#dd81a8e0e964570618c5c5ae4846c376ae7e3ad9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e734568d83280bfcf8bfda52068a3ffe1ae9d1a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#8dffffad08ea56834795fd6273022231cd7d962a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#dd736e37626d62142b5a3ec2352ce2f8da5c145e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#12fcc97b793eb19113a4af75a16c87b7606f8065">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a2e26fe9f97b3e50156a5e3f819868f2c2740ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#92825b099a5b3eea87033de115a38ab3eb104b41">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/03.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#575e9dba2e9086b1d29b65ac6cb2da093b947de1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4bb4d3ea4af2af715ae17112422b683016f3286">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#9435fba6111592fe2aa2946d483e9ff537856605">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#6822d13d32434d9730b2c9ee502d5412f100651e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#6f63ca446e8a19719a9b931c574b6d0ea1d484c5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#1eabe4953b3a24a7697cd47141a94900bc455391">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#d87d7bb321941fb648ebeecccdca43487e5ab105">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#2a8cf47eecb5146a07f06a76ce3aac9319e7addc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#c0f8183bdbfeb3b740917e1df3494931c59bd330">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#eca5c305be20e8d457826a675320a34e4dd0c9e6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/05.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d720eceedc81e62caea2d71689ae9e6c2549ce6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#7a052e1528c143f7495c3e3cfa859df4f3452656">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#65a624cac38bf99221919f722d015e4563832329">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#a85835e21ace766babed3e0046cf97949d5a7b35">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#c06ba5112ec70c6789dca7bce8381500dbb30a9b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#202e1de5cb40da0883b890c11f3e5c7e555fc48f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#f4794795745801b722b0078ffb25393238f765d9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#36b6446a0c091460173c0776fbbb031e36b5bf8c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#898a38c4f5cad62a9b5e22a6fd89b17170fff176">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#13cf907340f8fccc5a90d26af6af065bd9030019">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/08.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#8bbdffb0865932c426cda34e75b56688648a888f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#730b76257b686a7e1f7393c64b0c49dd87a54035">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cab05909f1b1a259edce36cf0d32eee656b04a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#3837888eb06826a82dcc1ea5f3e566ce89e8d4f6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#2a3f38068118508ae0140bebcf0caa56633f7962">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#889539141120bf6e09955dd0fa01f800014a4360">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#7779c9daecc1280507664dee87b4940e4a17e1b2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a8a32e5ae805e739f4b692daba6d8a506a03bc1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d926b28c5f256aaddf5a3be30336138969ec3ea">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#a2a689f451948641c09b0470fdc5faf713a5d0ed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/09.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#545f868d895ddd5937c46fe45a5c79c2d0728a98">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#52d9f8a4e224d4f202d5676c04829ffdb1ee8974">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#be3c832a22fae7349161faa846b97211a1799dd3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#f308357bdd9c0012933dedf2b823bb00a981fd0c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#d10b7c59a287ae40e01e2b742ce749cd38f38654">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#e0c4ecc27c11639a5f335302c05a269f29a6a2ff">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#01ddfe51c89e7285b73dc34953153451efaa7665">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#73712d15a389877a0521926307d8bcc899a85eaf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#63c40a2a8e1c249576d5c62f07418a711136a4ce">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#b11290610ff88e4f20b060343843d3cae38b9bf3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/10.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#6cb8d15877dfd346fa1811464f64f89d2d3b6553">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#a7c6f38742f9187918ccdcf6219a903af9f52bb4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#e87d21f2c8f623261a4fb57c6f351af7a4fe878c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#07b5dfe9c5708ead5f4a2bae364c13d386205ba1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#4edb3162e30393101e8474d3572d90f4433cf0d1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#e92fcb3fc10bb3550a8b807f7747ffccc4468926">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#713aeefa9291092535daad2daec818be8b9c36cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#747e361415cf1d04c91f850c67c2c516bf520b26">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#7ae5a6edc22835062ba595a9cc6c94dcf43b5de7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#26ed5bbb717142ece8df7356f00df6d73ea3a81d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/20.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4b0d75d9c1a51285f9634e614cc011852671d8c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#5afdc90205e4bd08392d55b5d1639f6124b265d9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#ea4dcdd9a27864745ce87e1cefa3e43111ad62c3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#adae3a2adcecfbd94dcd4bfcf708ac2c0989a482">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#717e0fcdedbc5f685a942603cb7dc5e524941685">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#37850f5b99c768a55858a9f18bc9cc9a4dd75c99">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#8086b1e57a0247a8c0642a9583ce9f90c0bc8c8a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#677ddcbbf685ca85797b7bf2c1846061a103bf3a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#482874a1b7cd123d929157f324e10228591022d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ab24e000ffb0b8fdee595529b96327c7e4b146c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#618434b94a7467ce3d510d3c18d601806b852b5b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#d621a201baf7200092ad24a5b03b8de7942caf58">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#9724f6eb9b9ee4f356d4b9d68a8853938d456d03">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#e66f18f31f15776e1c0b36bdef6a5ba6bb132d0f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#63fc146e1835d7559c13cd98fbce1da5f5618142">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#1b2af5ef0d08f267575e7227e175839d677d35cb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#e7b674cbc06e16f14cfe9c240619a38148bc7e68">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#207c2ee9b7b33d97db41d82af4b497b6e1b2947f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#b07c74fde274808e84312541f2c24c8a7d6175c9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#9cec1dbc9bbc96faa4054e9b63f28d723c6298db">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/nv2.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#4d673fc3d1421a37094a93d7f9746a62616f6299">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.1

</span>

</a>

</li>

<li class="file-stats">

<a href="#794ef8ba295757f5d846d0ed8f6aa586f03a6ff7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.11

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4aedb210259529470b05c624afa9d665d327415">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.13

</span>

</a>

</li>

<li class="file-stats">

<a href="#89efb7c32458a0bf3a21b1740f6114c07aa3fea6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.15

</span>

</a>

</li>

<li class="file-stats">

<a href="#e708d7a7c4cf1fab6d595bbda1ea7919260f5362">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.17

</span>

</a>

</li>

<li class="file-stats">

<a href="#869c0c3641e1816817f3b25a7ce34359ac8d1d39">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.19

</span>

</a>

</li>

<li class="file-stats">

<a href="#ae1fbc3e3cc5c86c27c1950e71317e720268d78b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.3

</span>

</a>

</li>

<li class="file-stats">

<a href="#16abf19679a0d5d4fa2e2f21bb9b4d58584913dc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.5

</span>

</a>

</li>

<li class="file-stats">

<a href="#b15feaa6c7dfe96b680ba6bf62bc114d17177638">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.7

</span>

</a>

</li>

<li class="file-stats">

<a href="#a76b0823e427fba5be48280a36118fe2d731a952">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/cram/codecs/tok3/rr.names.9

</span>

</a>

</li>

<li class="file-stats">

<a href="#38c52d85b1c76d194de0b8a2a353f1b415a875a7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d7349eaa3df1c602adeabfaebbd8dc527d148cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/README.md

</span>

</a>

</li>

<li class="file-stats">

<a href="#2c073e3b27529eb14c5e63175854f5eb0913037b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/compare_sam.pl

</span>

</a>

</li>

<li class="file-stats">

<a href="#bcbd1b300970e50efff30c34b9ee0c8a7f301634">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-A.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#606dcbcaf5d1a4589085e7494a508e955acdd67f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-A2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b2d07e8e8de8bf996e7e6c513b4dbb69fa2e7540">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-B1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#274944a1ba0fcd0760a96fcb5e9500307fa2d8ff">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-B2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6cd6e5ea4209e071009be729c040fd19fe3c2f4a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-B3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#2cf0da19f2ae227ebefee4b85a56b1c938b5cfbf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-B4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f3ce60b8f284a65e55189a2730658a0de91776a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-H1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5f12a3fee072fdfcf22dc96a50a3431e3ba23dab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-H2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3750c10d2d686eed2fc63ef41adf28f0af39a835">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-Z1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#24282bc89a3ca6b19894cdf08978f2424bb24b3f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-f1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1320395aaa3073101f4386b5b10f653eddd9107f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-f2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#aa89292a05fb9e9c9c3aeb97da33b17fd6b14fb3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-f3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9df68330949b81832bae976289c916ce53eff4dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-f4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#80ab39b4f46808d647ded2e079d902e7859c8871">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-format1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f1bfc334faf44e79633a0268e048a625c615d596">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-format2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#930962fbd659135e061e24f1a8a3f7be4ec431e5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-format3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#754d3b668df6ce434a82c493de2cca87a7347fa0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-format4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#62b78f0ca3168e2249e6695bf8fe3bf63101ef9d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-i1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc5a8c691435ba15a8926f1f3e51cb57820367aa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-i2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#09e23b8cd775eb2be2f35ffd7b989d110189e075">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-i3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d5a84f08497697a582fb21903a714b5bdc4f7169">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-i4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9ba622cc023d7728798e4ed0d2ffcfb9bcffd15e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f0737b239b60c54084e65fab529293bae776a94c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/aux.fail-tag2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#235a9d9432a76eb4999ec8082e37ad3c8903e088">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/cigar.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b74f49a90b042e2dc174da472cef4d54f90a1357">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/cigar.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#50996c323cee61e68915e80f996ce334dead7eef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/cigar.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#14e570351dd298edfc79e6099fc6ec998a13512b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/cigar.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1643aaa705f366a2eb4c51baaea6c1416cafd9ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/cigar.fail5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f149ac0242dcb782bae0aad40f0a76c1ae297b12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/flag.fail.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6743b29e575fb1b78496fcdb4e93c37e3d3741ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/flag.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b218aeba3424e34263dd65e92c011a0eafc3da8d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/flag.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3cf6ce4045ff87abb3fba4f206cb999013f909a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/flag.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5efb79c0bd5de75786762324a1342237b19a6f76">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/flag.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#00cea1a34b22dcfe77ab7700d2d2f5bd46c522dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#befefdfcc83cf03f4b4611b130a9d8422207da88">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d72229614943d7de8de083e38627cc679c78befa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d4281861a61c59abab5bb098d3c4f84b6c81198d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#92065c1970eb86c6a0b930ab79eb9e2d3b146cc7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a6387f74b3eb12bc1282e7593012a6c6afaa0943">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5d9bcb586ada38aead65b2db1fe0729f2a14f5bd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.HD7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#114ae58bde1906a892e8e5fc0a23e2db638ef667">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.PG1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#2d3abd371ed5eaef78b50fb6a8ead21e6160deed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.PG2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#558350c517465d186d2516153949f5e425f198db">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.PG3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#de0cca0189fcf8f4c9f51d785799a4eb5ff9e731">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG0.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4c4dd45aed1f5f8e42dfaae74f6e8b621e7585b0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb398652af306dfffecc00e2cef7ec1c87eb43b5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ccdfcdf872402ce023756cf1ea7d350ed3cd3a21">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3e1e55f0746894b1f8422976cce8436f80338af8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4e8c89ae38dd5e14dc9acf6c89c9b24fca22c485">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#153bb4ae5911612928cb8be5d6b273218a51c795">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.RG6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#00116dedd8264880ece38f2795a91ebaca0ed059">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#38b392ae0ac4b5b4d74c9732ae82675916a7ce1d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#239865f799d8a3261c5a7c44a7d2a3aa93ab86ff">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ11.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc59981865f653bf892feae69b7ea97eb18e9951">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ12.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#807d23d6af4919c39e5c6a9f55b190d9c70bd9b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ13.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ebd4080fe652463cabb189d4f6ad96199a27b707">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ14.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b80cf13040e14f7b37aac1dbbe3baac786a2fc4f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#34854b6ca50eb4efa4cfbeae69515b1fcab6cec2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d2d0225e1890329faf1bf5328d6c99cc3efbff38">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3269a504dbcddd630c910dec6c586540fc2743bd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d9d2bfa6f750e22e7d885a54a05dc8975aa123e2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#20fa97cfbd49d96d8e50f8ddc54a1a467cc6f871">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#232c214a2cabe3cb853b17b4215547807d20e1f1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1315ff2b512df6728e816f127b4e65d5b1fbbad6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/hdr.SQ9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b110ab34d400561d76751072f8e2103db6c452cc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/mapq.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#401ee50cad2d115dac5ee1d7030c3091444c4e6d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/mapq.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#89318ebd6b197a70cf97073b2b88bea3723ea826">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/mapq.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#dec88d76d0b5480ecc5b141c5b3a0bd5c3b2b8a6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pnext.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ae2d9229c6717cf26388e71c3fe265c0bbefca23">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pnext.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a7b36273a2a3ecddb3b2cd392bb5c9397ed8a0e7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pnext.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#036b689e1b21d9f8ddcec897aacf0acbe97244cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pos.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5cb58914b4c87caea2df597e7f21379835c789ad">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pos.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#fc227e069eb45d022bc910c0f00c3f6540ef3279">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pos.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0926c899cb51092821649407904eaddcd429374">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/pos.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#0bda1250a4f5f2695dc2bfede7a8e79cc433c882">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qname.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#431818084fbd47564628d322f0e59dda03816868">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qname.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d7f730f0c4310a17c617ddeb6ebd9ddc512c0b29">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qname.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#76463b1b46861adb1aa143eacd1622e75e7570a4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qname.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a18f8e5b63183d14c56a8bb0577a33599766038">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qual.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a9bfe4e86961f2a1ea8660abf1ebe89f2bae47e2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qual.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e8a23fbb9054417afcac4dab23d9e1efa787daeb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qual.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#bc6770c434196b11f52c5ef969a1df43efd420d8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qual.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#cf6e00b5d30de205f826c490fe2ea72c6208dbf4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/qual.fail5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ccf0a9960218f7852802aaffd90fe244b26ae27">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#841d278c6b83c1e818208c5b5d7806db282d0235">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#73c5b4e15f1f476c9dfee62aecee5a3a7f510f2c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d99164b759b28b96309875898e1f2c1ae0a06668">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#95533771f95aebe70734e6a1b6c1e862fc2a10eb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#de3e789e98b56d322360cc9f7b38311fcebfb6cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#81371a60830c101d892afad45e785fa2b3f43f1e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4dc4f436ef1e2ce7e5a09b333438bf4c49242d7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e345570983f6bdef7f982f75da4dacf7d6160dc0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#befbe7f30ad87b57bb3c6bd45af4ec85892c0fce">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rname.fail9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5d4aa810b0726e63d8f32329372924bc2a1561bd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#96dbd8b7260bce7bd0e7b309d915fe98f75a0a0b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#96e667770905f3711eab7e4732279ce38913416c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e0a236545e5c550ae2fa6ebc75c21eb099a23caf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#949868b9ef59412245e4b28bfbef1f7f701e2bcc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#bd38ba145cbe91f71f099e715a1f286b035f3707">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#06c2ef937ff2141ff571fdcea1d5a467f1f5ca52">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ef14dc5ea4a49ef4295a1bd5b9b278c58687817a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#946f4f21c4c23551ce11778d0b957e4192331eee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1bc9b11cfdbdfafad92bc2b99f332d7cdd27065e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/rnext.fail9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ecbccda4267e1fca4384826832a83e46c4148654">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/seq.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#33e7542ba77beaa9ab03cbde2e199447fe777ec6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/seq.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#07bf798bc5ccbc38f25198795317d6a5d52ac7fa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/seq.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e13b41a820ce989eec902695e63905f76fd6a688">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/tlen.fail1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4201ac87f0b9808b670a0a678278782a109db46b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/tlen.fail2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#eab19e4ab77a5462c01f3918eecf5f4b0d21c82d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/failed/tlen.fail3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4153534ca70fa88e1c584a8da04f4a73d9cbce1f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-A.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#27c0ffdf19d920aa76eda3c06369a3eeeacd8292">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-B.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#88123f5565116e1762a16f974d4089316d521042">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-H.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#833e0636ccee58029294db41d6d2876edc424f53">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-Z.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4b44a80355542ac533ef6099f7059757a0e6466d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-f.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d11e42d97e600de47cb353f7533546b9d81d0d66">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-i.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#17d0e762a3d583a4fdc3098ae59690aa4f60944e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass-tag.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#fa61d5d96bbb8d82039d98f56bb6cff60a910362">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/aux.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9b064c444e23749fecb95b64f96dfcafcaa9456c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f1e88f70fe645c661f1802611773226bc99b65ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b1219fc3ec7ca9e470953d7dd1f5910ba692ef15">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#80aedeeea3498d504ea8c04bdce90a359705c491">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#711d10c8569af4720dada2ee70ecf3f34ff9f779">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d0e114a3240979dd1af59afbfc59a139a8b1a12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.pass6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9107216845a4fdae863565ea374d51950277988a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.warn1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3c61397ccd152717e9cc581b1e4d6010b03965de">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/cigar.warn2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#414078e98cf4a65a76f06ec6aacc210782cab3c9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/flag.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1d4e8c8060b43ccfcdef4bfca8450da9ceeaae96">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/flag.warn.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#38d11cdd113edc42057857f1507a5b34c4ac2ac0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.CO.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5b1404770893fc8af52fd6a3379dfa99b0424365">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#fc5e2c7a7d1d3fb0afbfe1aa4da2683d040473be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9e41c2d90af2170ae92fc542f0e5b69d7051e3d9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD11.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#22e981a65d1f0238bf996640c86b8d3396067b38">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#77cc5e4397fc2657a88058f9736ebd4b3ca30d09">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e7a700fa4feac5d2d07639620f65c2ca31eecdf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#df5fafac66e8a6425e671f85c0798171019e374b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#229ffdcfcdffab3c5fb21db6d55601b4f81ec16c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f63daa0b4627ab6b0443413589874b2a9daf97d8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d08a99a478a79e785875df8ea3de281ab7206958">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9c199e280b34a3b72825a772b93db165ec7eb520">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.HD9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#8fcf149d4c0e55336d22a83f6e3fa88d6bdd2dfd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e96b93d8427a29fa929f57b818b9f75f4e4ace47">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d87dcbe8532a0daa436f309db18d9ab7797f1292">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#0b0eb4950d48b8fc76585d46a8b91c11b050ab23">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4430af0fba1344807e46fccbb9ae0c340441888e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#bb6d26cb79c4fbe8f53aa625a9b34cbde577092c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.PG6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#24851cb357ad7d4262ef8e6f2ef70506172dd6f9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#571bf25f131138c580e49fea8651da96172f9b21">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#012bc8f12b3ee44016d029394f001e9bf2394986">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG11.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c139dd788ef4b8847198f38246ebe9ef1106d782">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG12.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c29d95c7b0368a3ed0be502be584d1a800e285ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG13.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#7234c35d6bea1f4ab422f05f01288f25ef9d514f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b5406b1bb637346f6cc27bae76fafc1b3e799752">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d11f820f528f613de6712400c0ea56be9fa489d3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a65a373be604855897643029b309f9facdb74808">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9e9888c2926b4dd2db9970528bf81871849be5dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c797f978f5aaa5cb1304c04e32e45a6f95cd7ab3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#0fcfe0be3cf351e2b1a47ee0f52a09bc341071d3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9ef30ab77384b0c415dbe8c261b7e8775c9c38fc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.RG9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#0ae0461bd66a58def3fdb28bf0efbd258dbb111e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9fba130731e291bc974e4ae2f9640c2d109e8555">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ10.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4fd2c53fccd25a0d63a469fe810063c4f07a055a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#71f8e09556c5a758bed6454e699747899e032b65">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ3.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6a3e4c4fa97fc4eb3a755cd8bb222969e3248ac8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ4.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#f3b9b90255460fd201f5abd1a6fc919c3c926f1e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ5.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e8f6038c4fa840d539f16bdada58ed3a5e29e123">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ6.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#33574567f468e845f2001ef20efc2b3f0970675e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ7.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c61121ccd3d7dfaad5d72d8f636a3b7044eae7b5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ8.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#fb829dfb05582719d3ee75e5f4b147b0c84c07b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/hdr.SQ9.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#ee3a5e98e77a384c533176f81ee34dc88b36f824">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/mapq.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0de2e966d95268a8c1b69eeb9c4cca7c0d1bd8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.pair-2nd.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#4d1d50ed1ae8616b271ac4ab4390d41e7ed4ad63">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.pair-supp.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#c91b8182fcb7a1fded9316163e515648db985d24">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#88279ba9e2602773510e9565c7ab601538a68806">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.triplet-2nd.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#bed76270afb928dca9c297b00b856f7a0b166d98">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.triplet-supp.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b4beabda8a6cec3d891fb2450d292dbf10cc2d05">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.triplet.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#7ead2bba68131633654940e5ab0da9a8853dd0e9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.warn-pair-2nd.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b4ccfd8f77cc9045fed23a9c6375e14037cc9e21">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.warn-pair-supp.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#6ca7412bc4da91467b3df505e6844aae78c113b6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pnext.warn.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5f2c78975d3f15d75b4f48a9105b3e510aee491c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pos.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#7283b9ee3659b59ddb3ea7cf52676eeefb7d7774">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pos.warn1.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b99e10b0aa169cd4ab4dfd17bd04476393406fc0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/pos.warn2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#474d60d3bc2f7aa0dde2399c0ef688c2fae699ca">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/qname.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#09581309d112fad62e495c144e13d83df7f2660b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/qual.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#a519905c411480f34e604d2c1b455cee3823915d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/rname.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#d3fc37e696ac4ea77cb670ac8da02cfe805e53cb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/rnext.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1d3aff4988f261316d6ec54d6061e438bd56e8fb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/rnext.warn.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#b65e51a628e2027ef929d37258431e69a8e467c4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/seq.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#3c7e6e3476051e73439bc7e2ad07e6195cbe0000">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/seq.pass2.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e0f17659931b3449eca9e8f0db537ed1f032afc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/seq.warn.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a78d35f1b51d06f8c4d186155d36a4ee3e16fac">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/tlen.pass.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#9771a19f27264b3f5ec7b858a8196eb40dcb5337">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/sam/passed/tlen.warn.sam

</span>

</a>

</li>

<li class="file-stats">

<a href="#e6597d988d2d32552bd1e641f5ae80bd7f6d737f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_alt_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e53f46a08b8a5c2459045bbf233dca1a6fe37401">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9a4a331bf1c3404acee20e144711e91a34204be7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f3685fc969a09b8bca8491c4fdfb98d4a37ae2e4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bedaf9e85a75eee27decf1570613db5c4e9e246b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f57a857850df6161a172f4d819553bdb20ef35a1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_chrom_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b969917c373b521689028044f57be39dc2c1c1a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_chrom_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#294d37b7e3b23ee08171ce72b021b2f4a432dcf0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_chrom_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3a606e4b24d02101167e4fe7cb2779fce8d4a7ef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_chrom_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f100a28b6c2af12b8cc05b9fd7df2569ca2eafbb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_contiguous_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cd00819337392689a69c66ff14b841360dc20a99">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_contiguous_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fea47ad5f7b26c3e658586cb60b44bf792716c2d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_duplicated_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#60b7d8bf9fdb5a4be40d821acd20d31e260a0083">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_duplicated_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b454c12447ba63c384d8bb15ccbb58ed99e3342d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_duplicated_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#707acd3e2522faf46f6fb717a64e3b2cf586ae40">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_duplicated_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc4302cc74c2ee74467a62962d30297c21324860">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_filter_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#829f6d8b9b2f5b98df2e5000761e7ce5c4e1a679">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_filter_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#42ef1985975461baf1ad46c86e8b4b62e17029d7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_filter_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#225db9b3142b61e17c41251e80ce7edc03ce67c2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_filter_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ebc8b0c752574ccc94d82e45e336d5f725ae3e2b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_filter_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f6fd9473a34cf122ed515a8fa9d38ad55a7f9859">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2a691a81fa0c92f7bfd4cab33567a15040791627">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b65147094a0dec8e0c917d41ad5ec0905db5fd89">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#290bcb7b91f7d125ad3b281b39832b050139a79d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e76981e8a1dce633822cfe519445453797a5993">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f86bec21b9732d8c45333ff9052b8a84bc908857">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_id_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7faf1ac16bd097c1f2866151ffda693fb30c2e5a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_id_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7ce7ff863cdddb62092ff407c91146382789dd36">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_id_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#aef6a99a2b3e341b2f4239a57d361da0be4f51bf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72e676d7dcf5226cd0a0fa1f70b71218ca49eea7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ed66c4b81c055b35e31b773f99a043295a2233e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d2f0eaea684dc1f83e6860962cd21525e92be277">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#480dfe94b4c22caf1ef7bba4c077919c6cfc38c7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#414076876aa5cd87ff6dfdc21cb1382113fcfc8d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#538d653ad236bd12849433ed4eb474824f1b2e1e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8dc6b4e65a1ea1f44ebe1f138875c89ded42e1bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a5a9ff8aa71c43bfddff52112e5baa213642dc85">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8cd5e7025b8f07917ce89a7068419aa77c7bfd22">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fc37db50ac95ebdb260b8f19b62c75e23b1329d7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#714e3886d0885cc69afdf0202bfc71aca1194296">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fb38b8d65f215656161b68023efbe507031aeea5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f807195bf95f72973635b3c434ead110e07ceed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b216d9655752bb0be7f901f1df7eb56dfa596c83">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fd8342e4a2e79c66c1c83939075d310732afd19c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2d6574eb10fe3b2effa51f413a6cc691a4c3159e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4bb0a4b44ce72e663f0ed43954dc6e0b238c643">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bc4f07678888d6a0a8e037446d1f3274895dcf49">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c36ad05b2039e7ee0523b2b2cb1d093487c9fdca">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4679b09295e9facc56d4cc6e6749b54f5532408e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#84635cff4f5bcedfb64696cada852f5df1c0fc04">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d5e1c1debbd6edd2a9b8a03a2eabd0f7449f6faa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#01082c2550d359972737ddda0b17651d6c64f6ab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5a4056ff5e6d4fd399a82f2d6d1b00f240a50f64">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#02e862f7db810f36371ec8dad018439c4c1a65ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#10120b178e44baa939e0c68cd07f7fbe3772d921">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a4bcb5863c92f974e67092033cb444ea6c669768">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#512d521b3c10fec5b5f794d1b1cb28b95687c916">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3971d1fa1110aef986a8c9c5ec4fe0358e4626c3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9f7bda3ddac8b23ffd69bad9d2ec35bb7a000bc4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#51b4cbde193985778b14d8423ba6c065b19aa993">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#018067816655b6025522304a3cc5f669dc041dea">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5ca98d49a0f9767b0ddc8dd0554e3018c17a7e73">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_034.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#50d7eedea7a92973800547c6f5298fa93b63888a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_035.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6cad28e785092a2272a3874890313bf3dd50a527">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#86602f1d3f77ca6c76453c334955b7da127a75d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_pos_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4c0052487a89bbe54fdfabfc36f591fa835c71e3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_pos_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7509466e8b14db0860a74d656c067b80d9fdfc0a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_pos_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#00bca03b66b0f63424e78b9730443c4819534c8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_qual_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e3ce1dc19ed88f62ca4bfb84c1aa81371beae035">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_qual_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f1cfdecddd6a800ab690b8754692458fba6f5f3a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_ref_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7eda799c6d30e02172864eb9114ac9cbf29ea826">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_ref_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b667e963c8a68d46d397560010326fc088761a17">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_ref_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ca3f7d72e4723ec1fc0bc76c5a0a75d7483302a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#29836165fc1eb88c416eb7c182a5a6eb10fe7583">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6dc9569e33b283816f7c298766957be558e2e723">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4d5bdd7077101c42bddff1268ca7dcb2f78218bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0d3c1337856d65bfb2e484baa3fd98f216c19f25">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0e03001d6ac8972fa3ca76727529fdd019bae5a4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f38134ff9cf2aadebd59403e50a698d7a41e3774">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f21be962c7ca76e8014e579ac0f689265ec86346">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#134a01ff582e54633584a4d68d8ae63e4eb95086">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#265fb7ec055cc5ac69a14934b3becf1c1175105a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d4e98bae5d734e2a381a1620f990d400be4321bf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_sample_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#65f6eb2d31fd6e8290737cb80d13d6c3dd5f2450">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_samples_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8a27f2e00ee75d6d3142ff6d6010ceb0e72254d0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_samples_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e7088d6cea33ba4f1f42e5d2be1b3d38abdba443">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_samples_ploidy_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#42d0e7649b1acd2a5f20c010d1209425f6604687">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_samples_ploidy_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#89785dc0f9c29c09babf97694bff976e4a76c655">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_body_unsorted_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a87c9c848a70b32b1ffa29fc12875a24fe759291">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_fileformat_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ec334bf49825b2a385cb431657b29d951c3964a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_fileformat_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#21ec93a38eac1cf0f81d63ef08f6eccdb092e268">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ab07849d4bb1b9ae4e97c424b24b40ed53981a56">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9f449fbc24d40f9c068c3ae568427f62f6dcae95">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#56154dc094455ba5af91de4f0c75f2a6c73ab98d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#83c36e480ae0ee0eb7e26eead04529a1f5d11244">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#550cd64f8cf66e15643a68c36451b3ec46af3ea1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72cb9f2ca4bd07b8b4854a786cae128a32cb78c5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a66372530e9fc89e57a663fc963a2e55eacbe16c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#da7544e2b6ea46f9d7d7770a099619e962267ede">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#74c4c84516920bb9f2d4308771539e26b7679fd1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#83d03b7b60cea530d5aef03d43db60f626c272bf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f0c6f55c46836015591af9c73ce4a456980dfebf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#162cf0ab33404d670d026a49f6f6ce83b3764759">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7698d7687f2ea35f069f96c9a94851d9f8fedffe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#58162e3a6752e38c6de3156662c853cb3f00a2cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#537d96bdcf82da41b1c879a73fe07d61490d6308">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8f0e4eff6f178dc377364978a338254ed547a33f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#730b38537d5b81055dcf28a3e24d45bb7b605670">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9f86924051e6a9b82c6bb0dc783f9f1f4484db12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2dfb21a45f2b6428bde8634dced3499ffbaf0282">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#748ebc157aef1eec1dc0369370bd9cc3b101b7c5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c714ca7ffcf6360be965a921b5006f142263bdf5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_alt_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d48ecbc8a234dfa1f9ba6b05c1cd586e1153726">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_assembly_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8222b3937fcbf5ca759efd40253cb063e2609d9c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_assembly_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#47b4f02076824b3e434acffcd609969713648478">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_contig_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#09398b20fb4d6bdeb79a8656f366d024404ab825">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_contig_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cdc7f20e4c03ab98834f2c07b3a55edb41a78b2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_contig_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ca9cfce0dd1308a4902e0a913de436a115a0988f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#41f7f7bf48b60a0bc70c43436b6a62ae9e70e628">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6adfbcd52ca79aa6921f782b1eadae1e370e7fce">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#019dbb4c33b567978efb0230bd195de48c63e818">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#354f1aac9effcc32954bdee7ac3f2011f5a255a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c94796b3200c73c0481c7c01315cc71c1da6bf5d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf682dbd12d5662b52f62e385fec8bf6002c5b48">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#918f5d33f5c6b4791d8cc3ac3779eae4157351e2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c7914aff1e0e6a63cd1f9252866e0769ab849963">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0112b9215e5efe6bb8ba4604957d66aa9ce5d1a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bc29933fbfac9fdd87451e8eb88f0d7a2c7f5dd9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4823eb53e2ddaf89c1f15c8496e7de50fa48f7fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f2a4b9ba7051458f8874891a25979f8bf0c78db5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#283311ac0540facc05647d8c38e9f0900898ae0f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9bc9fa57a378705d2152d0e6adaa65184756b7f6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ce49e4c96bcf913732b2101d420b30316803a5fb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#643b054429a439a5b3cfff843a4f5d1154626763">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5f89310574b3796cfd39ca5a049dec43c4fb0d4d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cb3e032055ad3036139b64f22025ad545a97ff3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5d7c01f4045afa7b41f6ec8bc20f41feb9898b44">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d632393dcf5a772e40eb377c833dde0636e4cfbf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#296417e7b4f1f048f39242977c9a2947ec8f1790">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#88ddfcdda2cf07b34908e0c561736508c6bab923">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4d95c5dce8ed340137a36c41efc80e1581e0561a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#16067b225f8162a09cd4a63e68c1a8dc88b01977">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#daf439ef2a3c1642bfdfd4c380fe5aff515cee8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f86e13d1fcde98ed8aae2f42c5bdf2c30d000114">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9cfb669d06f8bc9fba3e7988c8967f45324961e0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#60e220731f33ae10e8447ef71e14202b61ff3466">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4c4e475936f9fe06462c8c3b4c5c3e9590042ec6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5dcbfd38f437290f6d18a7c033ef8384b326e806">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_format_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cb4b8a81ea51ea2b86fdd02322ff3dfbb77fdde">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cae274b5569026e43fa3f3e2497d4c56e8cdc31e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#76fd3b72bdf4efdc227b6f28622f44da57a46f4f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6bd64233ad135517338aa3d0b8c37f183b3f99d3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#469595b504951dfce2b44a0a5e3f661a76cc6a99">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c8a64f02e7b3945c914b1058c0db5329e6ad0220">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ca96fa7cab1b095d6b2fe10cd562b580bb54a301">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#549fb0a06fcec010355c023efc6db782e2ff0ae9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#885f6b3edf5af82ec91c8284e35a38fcb68f58dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe1287cd802a74fdf19bf490da3b262732ff5699">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2e39265ae1ef047fcf49beb43ce61e26b84f1be6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7f37c77eef04e51494fe744c5275ccda4b83f32a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d21cdedd7ec9d065443310a03554f3a2e39a8d91">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#071849acb11242e4ff70c46e9d63d81f06058157">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bf88902ea219031ec32ecca40d2d0096c491a877">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8bd989175d175dead4c5e1517544e0f010996c41">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4f2fd05ce7c2bba0083741c0839d918d65e371c3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4712975dfe154976b78f5dfbd0e123c1f15ae1e6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f0f8d3898fbfecf5da6483b5cacc7161411828dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ab81a72b7736daf740fca43ca34c0e965297ca07">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bd757e83f088bd2a66074ebfc4e2f2b51a5d69e1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#60b26b64a2fe3957a26456f96417b3d70922c010">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#634a1a69e1f0ad5409d99764baf2a1748de264b3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a2a5c064461305d03a8ff2823a9bf4f8e794e2d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0f42cee1adf7842b8d3a893d6af105a6d725c8b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c9d02b01b058bf3a6659aaf79959b3bdde00cb17">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#de787ba181ded7d05ed0f2c08e2d368a802f27aa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e6fe94b31a954af70ed16f65036208e093165aa3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e17cca45d697cb394b11a90ed664f44941b52202">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#22635a17ae7a11d065b842979a8da925e33b2b21">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b0362813687302eda732b340b2100aece973c361">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c534c9afb480c3ca5c476d59af3e95fbe8db4a16">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cdf454711987f3f52d2f036aa882a371b99acab7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_032.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6ddcc104728e232c6b861c43a02b132216d55015">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#54e051dc0e21d4de8acb0d03b0d587f5ec9be9d1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_034.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#32f6299113a48e2a4635849b11ce7a0822b19d05">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_035.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#28cb2c6a7b6358f13cf437b9f688ad4c3be94768">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fce566f1b584f7c55b0cec6260378375cd2c88fa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_info_037.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3b8c7bb714b784c9aff37d58f58a3f68cfdd4cdf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_pedigree_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#21d3ece787cfb09552430ec33734f1f599ba2697">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_pedigree_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9f13c5c938525cf9bf694a717969d0f4ff513714">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_pedigreedb_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1a166733887bcae19f3b6bccf11bddde5bd137a2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_pedigreedb_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fccb1d19f6a79f39b95fd7da8fee4904abfe7bc3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_pedigreedb_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0949d046483109c2f12f733931c157360624db94">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#179f074518fc4c4ced0959ac82cc004289ededcf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/failed/failed_meta_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#23faaf5d16f7451612166ddbcb067f0b48a56487">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/complexfile_passed_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6b95a06f113eb34fc471e5678d93a01cfa6c224b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2133fd5c8e2110df7084662ae935d9c371d1a501">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_chrom.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e446fffe071bc4253a186ee5cb04dccf279e0e4c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_filter.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d518c4e2c41dbc0c7c9ccf8feccf508dfb8168d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_format.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#01112549aee522b398c294965a24d1728411cd7b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_id.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5edf8a24aa1de0616f1403600d6e1a693fe72203">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#864fe37d59a32b6835b8f26368f2f0ca6b3d68df">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_pos.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#90ab89c37ff8b40d495ae2883814a911c3fd1ab3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_qual.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#724e4689535c7251a232cea238678d66e8c21df4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_ref.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9a1522ee581319727b8ec4136dc21e6bc12bb711">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_body_samples.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#49ad37b3885246ef391fc492a46f2065a9530b99">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_fileformat_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c6e309d234d085ef0e7c21e4672c8ca1981f97dd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_fileformat_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#82aa2c3f7b29390c43b7a9d00d1bb82752baf5a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_fileformat_header_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#28986a43297b4f7c9a56d0c3b40559488e50ed39">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#989a04f52c8ed46393ebef8d9b9d04b8048a9451">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_assembly.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a9f0ba9ececd6e33646ffacfa76d8a4905b14db6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_contig.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#05f1a607b644bec6bdd6d45cbab628fa9f7fa450">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_format.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5b1808d4a92949bac8eb1e34bba4ab0e5788ef93">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2a5a827613621b2e991ea7481c57cb9f7825f9ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_pedigree.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a1c0fd02fa422f170ba5e3274f25654b5abbff92">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_pedigreedb.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#eaa5805f06dbedc84f206b6505cce91781ab415b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_meta_sample.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bdd1faa950b968cbc17f47aef0bfb7052993737b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#906514c229dc76170fb40442e04cbbfa4f9875cc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#893304cec16978270009d8b24e68c8015cd6eb25">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.1/passed/passed_symbolic_duplicates.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc3155a1ea9ac8550e32eaea263793af43c8ac50">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_alt_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8d358df8b5552f2513a56b5c754490b44b787fc9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5cc36e8093da157e8a67218a72ed9e6eb6f5a9ed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8efafc549a9e3959378e562e9a49ac3a0acf09d0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5373a25ca091ed83b3557af89aa45841b5c9ee9c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a4bf369b0cb8fa73e54a8782d5e254e13f34e816">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_chrom_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#51728f9d0c8fedb0ebd909881c6047a61078bde7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_chrom_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#66930bd811e0746ffb05bf6b0eea157b5a97bc7f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_chrom_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b90a178f9db139f3690229a8e09e3a21df52e96b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_chrom_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#820caeb61bd6900685ee682a50e6f8b466ec9a44">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_contiguous_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#08db5e09aa51e15852972c0801230c3f63a6fccc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_contiguous_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#10126029e8bff81174cd65a5b06d0291dbb26584">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_duplicated_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7879bcfae48174f5dbd64fcd1ff9add087396bf6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_duplicated_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f82795897acc424df610dee1226b52b23c1d9efb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_duplicated_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b8c828e95306cb20d127af9d13ec2576af252d30">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_duplicated_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2accd80d77c4ad29c94f37cbd675106895012a52">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_filter_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3d4301e29a364e4f42ec7a1e9537930d6de063b9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_filter_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8ccf919c0534ef09f3aaccb89618b0f087558686">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_filter_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b4d169c96ece5820055cbd6847c27cf67a42797c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_filter_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bcd19b3ac763e9ef8163af7b5d8671caa1053ba3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_filter_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1e63d493891c709a7dc50f04faf0160618178e8b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8a526246ea8202847abc35a7d6ce521b627fe731">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2c71d7714b70fa55949e6aaed7866697b1a8ed3b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#52bdfe6e68f686b06892038d7b584e10509ba152">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f733d1d90b157ddc6670ba2b33d9566e563c93bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72274261b4793f15c270e6696ac9a98104e197a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_id_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e00a66a90b18a3811992a4d9c2884bf479f8c5d8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_id_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6531fe6c55f8d0c93fc9f8ee7e04260fda54b68e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_id_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d75d19be488d54a36aa91ebeb269571c7e8c2dfc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6c4a694b3a2c3a97476feae02a529cb8f64d7d00">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc6d13c16fd439df9454abd72a08b2204cca3f76">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#88d0596eee6d26389053833e2686ee916d1a5bf4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4a270c6c0bab1f110a5ab6dad2faf0fcaf43784d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8b29a65c36028b807f39f9afb28b565553b2f92d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6546615670c36dfffc9ba791d6ea5b1cb6be01e6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0893c47af122784f8146ab109812b8cd07f9a2fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0fdfe34587bfa94f1d642c05d70085700095a00f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7f9e25c47584269ab00ed6821427487bb2a6dbd5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe2d5e86b2dee42204495a2a737349f559fc56e1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8bc339acade60a20cdc74cf937724f5d86e70280">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f391bf921f8656951a2bed958afdfd6e187635a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8569907b1b2a6c02576b7181d31de7f890ad79de">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d7d86c80b1fd48ea9d6ed85b5f3c59671fe3c9c3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#975c9f44fc395ac774a0b51ae950a33d9e4d6434">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fcb8b94db5768ffa55b918ff616751429110f2a7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e977c3b6b0711a73887fe0a76763d1a3f2c1847b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d67d031bc973f6c3e2b47d909dc0c8ed5533fd96">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#89d5e8e88b56e77350f77c1009e847c7e4135c0b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ae733542761cd8e2e7bf560917456a7a5d1b20b1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#16803a5918560616c612aa8bd9e841c63828a016">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9427a7c6ff097c86a754519f32e55050c7323387">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5a21f43bcc5afa63febdf2c696646bd60b0c2b10">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#42d9513e6b3316e22b11c3a3b08738e19112e4f5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b50aa1780fe869bb46525785463db3cc41ae0a02">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d4392fa80961375e6b4caed4ddd18eb8c6efdabf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f3214fb7a972564018ed3b139f29f5318e5dd388">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5d98f61fa63dd84a00e49ac491cb21303a6c0379">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#931d141e96ed573e4ed3e444108b4a596ba7b1a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a83a17e278d18cb2c31ea7d819fb2cd44026bfd0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bda6d61dae699abac2bf9adc5e7692ad10003508">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8c0703b6e969838f58dc339f02f4ee73df8a1c14">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#59677e1e1ee9434f1659d376c5c2acecee8325c1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1c8420e58d5b08dbef94b447e9dc3d5103b5e43b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_pos_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb873855253f4e7eed986083db01302140377cbc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_pos_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4345bbd109d14c6bd2bdff46a7cafdc91f93f67">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_pos_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe39fe18519dcbe6416bfeae6d37a066ac76ddaa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_qual_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9d86e802d34812c75e85dad518c828fd97b08ff6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_qual_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#be2d50b364a1d5da9e1069a44f74351c970ac224">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_ref_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9f65670158051be8beca978979592c93706f7f68">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_ref_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe3a5c69db3647fdd41605ea65f5e97be39519b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_ref_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#70262a775b4c639d9f4c361794afca04df12ec14">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3d21e7b2c9b8a0ef00d9915f1747c0e2c0159afe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cdd8c497fec4467100e58e18ee332014b0b59ec4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d1fcb7ccbae3c34a608e9a744697f0c7ca82d8c8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c7faa68368659297597a09e1f7365d4902d6db47">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b2b0fc3d1193cf3616b6bbb843f15f9549cabc6a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9a11d86dc77a78ccca4158befb28887a9b43872f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cd32cd8539f7d803f77050e6afbc6ae4109a7133">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#56c55556bf7dc0bc5f18c413373ef1fb5b373100">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#40eefcae173de66a7515d5efe85cbfa23346c08b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a670e418b5da596881815780235bda667252f68a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ebb9a0452e4cfda02e478262f6dc73fd3fa73cd4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_sample_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d98644e03c4c0421bd80332219e8f8d7baa8b510">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_samples_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e0f6ee7edc544e1909aec22fa89645ed916d4c31">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_samples_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f473c8f8429cc4047b16ff4a38e77694f9ae4dde">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_samples_ploidy_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e0d4073e2f10e735c39e94f016ab8d17b5d9fd93">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_samples_ploidy_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cf4a4ce9eb6d905fd73b4cc182991622c6e09332">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_body_unsorted_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1d07348936bffe551696741eacfca1cd482394ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_fileformat_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#592568a1155534f16a09c2674571cb17f17c332e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_fileformat_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#43b2eb3195be682470907ca4aaf244b55e2fbed4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#def74297d46bc792d66e14609798c222c584bae7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e91f72295a7d975f91121f7c0fe12948891c5b00">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bdc28588077b228a6618c56b19d5c3697daad942">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#899b679f4edffbb9626bc2f35cb357eb6b39441f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#df5d1591a1c36f62019951bfa40e80cc28f0b9ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b54416c5ca943af21cb6e6955743ec0335d08942">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4f2ff0f3c24f7ee27e73c456395e8bc4531d8b2a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2e59272d607b1c911941b5bea1dacc3a2f86b81d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9ce7f4ff80fce6e70e77187f5f264c5f1d09c0ad">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e86947e0f9a294beb19a3fec04f223f7f5c971d1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#be25594e76b4869e461a113dcf1a9f168c677a8f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#facd920d7e94be3bc221785c0836ce42beb3d8bb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72fe4a6ccd8c2d5e00139239e272391b82b1a672">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#992ce370110047024917f6e8dc12bca4caecb573">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4efbe8cb12cc1d4c749cbfafbb2b59c5d61d2869">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6ece9c5ccd2c7b6bdd7b881402d506d1d1022171">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e69961c43aac0ba0f685477795e342b84de47ea6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c7fd7fbbe3ce18773982599da7ccac7bb235f022">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#effd563641b52df503332f7643e0217fdaa54be7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f1b846e36239795f1ca5c40df2d038ea9fe12122">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#34369bc7b177fbb6825c9111f43a64daa380c291">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_alt_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8a0d3d62343bd57bfa6a73e8d5d2442a3f99bede">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_assembly_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e02f371100b6982abda01db73ef1db29949a8e52">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_assembly_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e20963ab3f1fc7d68a9936e239a25693d60106f8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_contig_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ec56a6960f7a98f6c191bcfed5b8d6b7a2471987">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_contig_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3ec6e919a500b0e3de2cdac3c88205f4457c0462">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_contig_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e5709ed798896646919bb34ca3d873466da63eee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ffd9126814fff287a3a16b87c7399c3e13933858">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c34a3da41cc45dd80212f20cf021db2e6887005d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5aaab22090fb0ffeb535e793bb9c446ca4b32b60">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#90b11ae07468f94d67185f33b1e19de72ce39f64">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#af4aaa8581c0d0bba1442290ac4f09eca6108bc8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7bd11157f74dea64589f21308665d34fad6cd688">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#50152410e0ceccc57cdfd5110e89f18c725bcc70">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d933659013c27c208c2abfa5b7768380ec23f0ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d258f93ef48e611f8b13fbcb9ae7c35bace733ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f662504e5f08f6cfe81b2e5fdfb5704a07ef07a5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c5c426900c75c3e64be56c4f84f16e8ceaa40848">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#801f13fcb7474fb0d561283ea75ab4a1cf45899f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0c9570c979fd1787c138776d97201ffa966747e0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f85e0dba3e4320f5f1774b52759595ae21899d52">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#41bad81dac04265518d7b25e66268a72a478efd4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#967cce8c57e2b0f9ff5387f34c81a2ad3adba501">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b4faae9f59b3f825491353141576f5574dd6617d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3b2f454537dd2a493d7d1df6b15156baecc04f2b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#956d2ae73d65ffde53022b30e4d5fdabf7c964e5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#eea6e13567718d5fca5b1522e86bc0e882c5d42c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2f7f353c00527dd2e79fdfb43e83d87e585cd559">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4ad6c9406958ecef261a3005c60449ae6f997df7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c67700a9da2ccb58036a8b04f6d9939747aba803">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#00fe0af4fa9abaef2446923c0aa6dc71c36ded5a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a39c010788c3f22ae55ed04506970c723a0641a0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0b2c09cb6074536558458c62c8e36ed4b1b4ab1c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8bcd8679a73f5cda0413ce832d590b6b5bad311a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#035720351db33e6183c19ea7dab03417fea3f9cc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#069b8cce1b1ae993d1d9b928272feb0febd39722">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_format_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fa50baf60723cffc4b213e823bddf1a835a0264e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e9965d06c01c2fa2dfff47ca0a9b2b5ec4008b7d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0031add62d99d564aba54a84151f140569f34834">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#70190a9ec30570600c2d2610d600c68c59f371c8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#853839aa354e2c28b5426b3e93f579d86b7975ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6f40c7274037ac807575902dcf7a16ba50478f9e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b9c187d84d3ddb8782c81d953ba66fc57fb41f4d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#acfb2c2af55f9486f473bf0ecf76fb96a065e2b1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#188c78507bb02b071c7894124a1cf15f85be1de6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4ceda69cf4f37f64e0787f08ce6966911565998">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4621bd09889ea1927f0c70e0d6a275de50a6c90">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c2844dc3bba159022581cec08b959553e1f531db">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#42d4195c4467fe4ebfe5a664b32c3ad4dfc7db11">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e2981de38bc0c2d6420dd5bd43ce4f5afd4cc973">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2e3b05b3dc75d0f65eb990412594775516cf260c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9127d2f7a77179227e433e754eb3124fb4fd2d12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e964c4da5b4adc6994725cfbeb1ebef54df5b562">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a2f02978c8d1246b9cb2ec30559b3e54811d9ac4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#af6be10b53f8cce5c668d1f8f2802edf7740a667">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#64d1e6a8a25bfae8e7d3db7b20a3a531d191f5a3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2f15c4b0df220986d3eac0dce18778c09f0c771f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3f7e0d1ad826535a527153d8c9cbbfac15f7d727">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e53b478b237e4d1d05ebb976320f17381311448">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2c37821c6a85bdf0790d3c96a462b8811b1f3521">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#65d651066c323774233d0ea0b4a343ac0e864ba6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a5e0c1abbdc69cbe9621f2bbce02f2907410d115">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe8f9bdba0d31b1c18103d36287a87a5244d692f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f04d7e185daf3fbbee70b51622608c56fca11b06">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a53eaf3eecc40aaf2f751e3279bfad444d889115">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f25f5f1d55ad350a9bc1183e1b9cd5f256a4ef29">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#18e9abac7fb5e914bb7d49ab51680e6ad888af3b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c0fdb50054a98673771085a0da272d3d14f3a1d0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#140c9622475d825a0055e0187d316dde169c4d3f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_032.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#85ab7544fdf4f95a1bae37286a3fba3643db712e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ab2f1abb0f76d090aa25f47a14a0007d7636bf49">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_034.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2f456eb3078a086a0aa30cba31e7fb483671b51d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_035.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#545615973a61bb5aef8a17e4478f26e1d04614be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3300e4b6b3dec6954991c1534f8958e63c01c13f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_pedigree_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b2d1244b5b071e4278d7151313e3b5c24445fc24">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_pedigree_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4b5a8b3679f8bfafad0f798c4a312a39c3b35511">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_pedigreedb_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#81064dc24af256f62d337526f8057bda59ecf3ad">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_pedigreedb_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c1c3813f8d212a5329c3c23465e78dbac4cd0f9d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_pedigreedb_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#40d0424135a5a97fc41bfd74d3b0708408cfa3b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#628b778e658194f9cc3573801706f8b0fd1ebb45">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/failed/failed_meta_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3db4c87cf58121ed63eb7f4a4363aaf3f1e5698b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/complexfile_passed_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#56f1be9e9d7f5389cb4c188e128e922586ceeea6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#29526358a65fcba8cd110fe8a494eb9d38a8393e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_chrom.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0cdfb699b4c5ebce7836e59ca365f38ca0e05874">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_filter.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#154691bfef335f102b36c056b7714d6b5ef37380">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_format.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#37a71dc9f010b2b71e101d319596c7f06ebc4d8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_id.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#95b6c8de416add6babdefd955380d9f2a4903c8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#28c11aabcc335f838bddc39b170493608f99e594">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_pos.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bd11ed09dd8e6dcf355befa6a58c2bc63d15087b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_qual.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e84823e7e217e357a726bf962f35279d59c48a7c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_ref.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#252282d58550b68c910a494e9d760a3ab381dd55">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_body_samples.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8279084cf3ca6e4a5179173e87d1a5207e0af643">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_fileformat_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#90794f3cd4361a1c3f48248f4ef52a0d3ba4536b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_fileformat_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#346c1a3fc994538f473ac8f77b61ab4c4659e4ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_fileformat_header_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a36bae2978a995e2eb24921ee7ea0bb27d37434a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d5f9f63e9e93ca45bade140c79d77dfc6ea1afde">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_assembly.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b2d03fb1c264a7973e5f1fd7d0ab3c7a477dd6fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_contig.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#680bcb4ecfb8cc4b6da6be31b92f7f506f90d5e7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_format.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a17c4b5dd620446994afaac42bc42bb56c00f936">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0ff7a35e2394b220f1ee9b85ce645f54ab55cedd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_pedigree.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6ee6f4ba09e7aa15580dfd93905a7f61eb2fb4e6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_pedigreedb.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#27c4991235a3571e5c79d9a69cca9a40994de4ac">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_meta_sample.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8333d2a5d47292e7a1129360db97b54813ac1d1d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#af7d6eed746c922f47ea4194b88b2e07061eea32">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3430ce7323317139aea10903b717094ed054106a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.2/passed/passed_symbolic_duplicates.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#434e9a62f710b82e9e985d00f047c5ec5a86ecde">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_alt_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3492ea17c53410602b3285034dc8cbc09e7cab01">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#75fde703faabe80183fc9e76d99ea6054db0f4d3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#553af027f92424e8feee7cd0695bfd3a277bc8cf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a936abd34843339c42e6542897b94ceeee0a1a6c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#373c6fd18638a0ace89010d7bfee144231b40b65">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_chrom_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#95e604e524fb04d8856fb0e9af1260bac7a55b1e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_chrom_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d93a8a909c0b73dc1225d8fd61d3315321e74669">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_chrom_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2b923a215e03243f30f88754d6b1dea0fb14a506">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_chrom_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#00dde1420e4e80300022343d55f74c280472bdba">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_chrom_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#374eb7b141ee539ae2fc4776e76e7534bfa111e5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_contiguous_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4c92a79fc04be4a365be31016c050321fd8866d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_contiguous_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2de6f567c584ce891320c92b9bbe34336d5f4940">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_duplicated_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#02c0021f94277bafe76994166a5709f6b29d3e1d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_duplicated_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ce632f02285c0dcdb25fa8b996930980bdf6ac9b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_duplicated_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a906d8c7b02a8d78d21966ceb7545ff376dd1520">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_duplicated_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4491e8da8f2946342e894a13a811b6509c9df66e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8c522ed2da87c37625b7a3dc1aa5cc5310c612ff">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2bdc5a675adae08ca42ac92dc5ff4ac6fa865fab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#76a603fd40959db833d1be5243111b9724f2f644">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a3d97c8c002e53b56ba3d700c5eca3f7a87f7bdd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e9a5adedc7e249815f0e32f6e3d8cb65632d35ce">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_filter_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#208575a7f64e0f99a8618cf73c9f5a25c39291b3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2d2db90eb8cf1682d8fd5b8cf57511b2a42b45ca">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#318a0c1750a75974ca719c02594cbb0b45075430">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#198a6943d659decc740a907c46f4b4557723719d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0fb2f4b404a16c11da11f13b6f76d138ab3c0d00">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7745a94e676f02669bec64ad43c24a7807b35351">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#709d95ed76f66bfc55f9a86da1262f10881a5459">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a9085f38136de7c62632fb4e123123879674571e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_format_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#39398d79af62fb3fcaf271bf337815db2f167a6c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_id_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e9a473a9f4f514afc579797ee7e107438e66f523">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_id_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#406c3c595e69fcff49d775eb5447cc7c579d27c6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_id_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6155501bad84468e2e8c2ec6abe2265890bc37db">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_id_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e0a11d2e2b9b0649ffc3b5190b6370c99b850356">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#eb393470161d6b572bfa73defb48fa675dfdf41e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fcc7b359ca5c9aa65a7eba3e7af3c46c745a9ceb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#626a56c394f8ce1cf056ad35d78d8f4f66bc8943">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#02aeb8e35593d82a7136dd3a24d55d2b441cddae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c80c926a26a66cd1eb2369e9704fc95352d01883">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#df0f5fe07260861417b93dbcae96ba704e7f3ee3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#44c065c88fbfc3ce018e2c86e9df443b4ee5a418">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#314e9bdee19c814b5fbe427752498f25ef467b8a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb1d0926ad5dadca759dbfb83d0c43bf065f8b76">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#32af81b6a7da08c6f554ee7309022a77c55a6b89">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7d14156bf23ffd4a59818022cf492b59d585795a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f7403cad4264a21110d069ee8c25981d23aecec3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d5f3f9bac0d52ee08b390f70316b2ebd5f7d04ca">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5f127cf1787c1d48037ce904e57b6141c308eaa7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#281f425bf713199362e22a538f9c0e75edcb5eef">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5a9d254fb77026cc7e8d0baf25c893316e50239f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#517e9f281427cbb10a1dc7daadc784aba80cf8c3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#93fb1fa5068579ffaede08a2c6310ec9ff0674d6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b0102b8c559f61d594e544b9d1f6e5bce7c9b0f3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7f8455b0da826b0fe7b1f9d86850261004cac2bd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e19e7cc0a8dda7d2c8a908865edc4b86027c9796">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6c44baa5b873238e629ff1f63ada44360c145bd1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b11e4d0992ff77e964f63d4b2cad3065ba7f678f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f831fe2ae351351b3cbc719afd453b20831f239e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7cafa62db87b40d5cb8cdcc6b72edd16bd59ff46">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1f85e066823a53f1bea21152380f425fbe6410ec">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7b076cc515e243b2fbc20a5c02f242c6afa5b029">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e00108db5507380f04d4c3aad8744022dd5972e9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ad7ce8d716a2e636cc0d978f625d4790bb5b2628">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#743c79947d1d5d30e1cf661d27e8b020240a47f3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cbe8801312d3f111b2b490b1be37004665606a25">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7e5aae8c31c602c2244a16d3dfd4c73e68cfc71c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f4abeb89753f8d0d647a95190646dca5540c8e71">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#078dae0d3fcdcf42ac2598292a9f4c687a249eda">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_integer_overflow.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c77ae4b5314b64423c41049ce69547a243d5ba5a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_integer_reserved.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d2f6c7ad64d30f2962a88cd69fd646043924da1b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_info_integer_underflow.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b005f8ce313424c0692565f1ffdd440438bc3d80">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_no_newline_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1cb1a701722cb9a6cb7c21c3aa573c70c1e278bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_no_newline_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d743847001922ae808e1f7ebabb0d9678b271750">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_no_newline_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#db211e0859623c7f8b5f58210ef3b129b906e481">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_no_newline_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#aaba79fd9f40873783d273af8faaa9c1b726e2ee">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_no_newline_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5052abc34cf00ffd461322183d5d51fb25de46b0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_pos_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#77bab4c2c99209a6df040d88ccab28ade8b23b9d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_pos_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5ceacfd6e5edf76e1c11ea43e73d9b2406c9adc9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_pos_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c11878704539fd5f35c7505db7822ee2490d976f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_qual_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#754cd0e6632b9288bed3aed5592eb0384605b80a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_qual_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1432b0ab8a942c6d199d0994eb19581ffd0d6949">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_ref_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#af48b375d2b486907cc0f45b399480d9a745d67b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_ref_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#46669a2bbea37288045e9a982c5fae965b68fe3b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_ref_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#30ffe4327c233ea44aa973fdbefb225fb1c93705">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#833a48ea0ba34d37fae875570702c5b0b51958db">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c626c9c04d972f6a6cda1303eed61ecec101fb82">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7846fe815a9369faf263b0cbc6b977a334770cdb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#13c8593987906fa2ad15c6277d2043b024d4a6e3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e9f300c37ea20d85ecff6eb5e5af7441224d2fbc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#77c77510ab93d966560dac69298c9bf94db0ec3f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c4486f9a1f26fc10501a7c487e9cb0386197968b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#50b9ff946a403beb460d9b5d95a3c83b26ee6714">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#887732cc4acfa89c59858431dccef952242c9e64">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b12ba7c7f34f5ff29dd2e205de21233445e76b81">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d4f0932937ac2b055ef5bc98229b349aaf833655">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_sample_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a467952bac4a88c3ce32738fbee0b1299163bea3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_samples_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7b8f49d4097839242dd6c5d720791910a8defe27">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_samples_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cd885cda06b20da0112fc99bb1555d7e24519488">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_samples_ploidy_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6f2bfe795f207eff70ba14554b5f7c1451f4cfd5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_samples_ploidy_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ed7f3b983a6390a95779a0b96f33f06d0928caf7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_body_unsorted_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#28a614623ed49270178114f41e9268d787c4eff1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_empty.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fd0ffc6455cf3da85262730750302f153ecd9110">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_empty_sample.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f6ea6f28a00ddd8bd3f7b1ad656b863b38a5fd3b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_fileformat_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e7bdd60842eee8cbd1533f74d611d8082a2a3a52">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_fileformat_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1574a1bf393c4707b48040fab1eed98559bab27b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8fde551b146052e5b63aa8833de394f4cce90827">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#51f6e9f1fbdeaed8ab6578b27bb4772c209b9d2e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72572d1484e42eb7b5d4f22f215d256ac465840b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#961652171bd757df785b38a40f750b3be25db270">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b1cc959622b6cdda46b094aef3228f48700e6751">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f8dbefa0c43b6c8f43f5207c1969b0804ecdb162">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#367ffa4df9e0e313c332100886dbc36b5ae1299a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d33fe115b569703a6f36f5cc2a4b67f9cb7b2a78">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6d6c2e98a865aa7b9d1c078b9d36b1a6e8227a43">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#16028dfad25fdf671149c2c510b790a6ae9faad0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#23cbe07522222fdd1f6e90797691eb1eac66a2be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#eefc947e4a5b3b72b31112586ffae1dabb8747c0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#80413d45a4c0509fd85f75934085d5a4f0c206a9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e21c384a407beefba843402ca8f524a7859e2517">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cefcdad05223751fd934d6e87cebdb499f24c57d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#16dacf4736e319badd51446a26b5a4d51d958301">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d1e568d80d6c4c61372033d4b0e2c0da04fa43ab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#62b76667f22812b03cc7b25aec0cc2654489a2ab">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0abaf75b48ef205f7809e90f8ece1c90bed77fd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a9305291fb0eb54c897710a3574ebb906b5fea74">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_alt_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#89b14d8ff91689c9ab26413f5666dd0a7f3c449e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_assembly_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b70479518cf4dc1f5ac467e15a8a98959ad7ecf6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_assembly_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#32d158c0f36d381445e06095f9f269ead476891d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_contig_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3b2897792cbe59e3281acdf7e6900ea50c734e16">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_contig_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d89c2dca86ed85a019649bbee208a66dcd9acd67">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_contig_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9b10685b1036c7b867a91a5d4b62ee89f16f83d6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_contig_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cbdd3c88095d1e37baeaf16cacee1e036a1dc621">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#945f3e97e18b91216df5c6b0cc46a4b47ca62a28">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6dfb31918d62b93896ce9c9a730a53d9445de24f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#aecda3190eb18fe33c8a9fdac609934b324724e0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#017f20e61c8983c6dc1f333a109d986c89ffba05">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#416c0888fff9bcc92d303e7d55538c1fc23b0f4f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#db61363a0173a5d96bae1f0d05efef510efa07a7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fdc4fef306c4f83694280ec41e54fdb7a9526ba7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dd546855b171cde731bbd201acbdf3b74253ea14">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#077c34f49036eae39f5a298ea12fe79efc5e7ba1">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2560a31ffcb80b033391812e3cba183ad7b5b606">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#41c4d30280db8253b52eacbf9789d7ae7a15f4cd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3776cf25e793165849cff0f6b330e9b0b3f2ab27">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ff19da262c844f03831a603e3dc884a5ba3ecf1e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#60a469d477d16e0c0e7c9df4e642504efc907ac7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5e7b32f18d2e3a7e2a45c62393a706188af2d6fb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#aae707d000ccc7cda95a67e56c5b2193b408aeaf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ab4579a344b33cc0aa644fd8d55739c4ee113f96">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f943051721898b5ace9afdbd5f9e5eb1a1c7f07f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2677ade1c3953286f38da6dc83cf1a0adf78bd40">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bbf959d981b73813872e3f171263a1e26ddff6e6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#040e2f8d0e3a7501638f766e76cf22e5939b2009">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cc6c661d44ca402ea156e47446c0439e9b76be75">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a822ef8a29365dfe2eee6f01e82f6a997afad523">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#62c6c6ff4a3013e455294bfb2cf3d3167b48ea76">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3005d9221c8e4d3c308e50442795128d2836387c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ea842027b59815f2a4be39804e87bd58cf626ddc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f6743f3e7388403cb72b08a6a7636db98f296eb3">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c78e1a8f2ed65491bf80036ce6abd3cfc0fe363e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e850268ada5dc62bfb3e61e22a84db9bfa9a8707">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b09ebe517a43c5824f2c1bccad42a2606c6f5377">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ac48cb779c8b1813653f0683272bf3f0ee4d0704">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c7ae8393286f5c293f0e1bb212dc61804dbae6b7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_032.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dd73eecf46c0b3ab1631b2626df9b3fd79ac2cc0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_format_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#447eba2cfda480132e3acc18880d2901f681516f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fcb8df943aac3ca03eee70a8335710bdcb77b250">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f65916419a7474203b511dfcd11db64086736141">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5136259c5a3dd47e86419251648ad274560ad3f4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dd52117b50dae8e5671638b1939313a437f988fe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_004.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d8bbd4f9d6357fae6057e1f770f84c9e8a20d608">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_005.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#512953a8dd940865362b5b62e1b11e8024e0cc16">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_006.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c6a55c48359baddb75ab7c2168a1aae8ae3e7462">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_007.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7808196ef27e24dbdb05707d19727d731edaedfb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_008.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#acbdd6af0274deed7e4a9ec32c814408f49c2898">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_009.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a32dd4a7f48a1fa24c5b6cf8cba6f16a781ffe6b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_010.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#173ddcd03f6ad9fd40ecf34d03dfa939519b79f4">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_011.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7da7f27392c692fa7efb55f7cfea831e8824b02b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_012.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7346b580af99df6c8137640390c1a6c1c68f2625">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_013.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2ca537718b909c187398bb568aef703532e7916b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_014.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#bd28203a9b037b1339c27c03c48cb923684aac9a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_015.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#b27645309580d531f8e4501b72a29721d41904d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_016.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7eacd83f73460232047aaf11ba4fd78b035d8e4d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_017.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0c07001ec1996f37bd885a5f52ad4189f44b1bfd">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_018.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2f0a272df3d7f61849899f9616d699bbf1f74b86">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_019.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5fcf0ece354d85e02371f4e1d929ce063b826faf">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_020.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cfb2ffcafe6491ce440a1f9787ecb8926705de4e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_021.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#72159b430a2f84a7f25c11cbb45baa2a7233b9a6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_022.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#989ed9e237c8b3909270408cfb26d7a9428ca87a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_023.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3e5ae8f8525f5b038fd0c874636e2bd3d26a52cc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_024.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fb82292d519acbbf5d92bc39c2718e3aa0b132bc">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_025.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#2f7b7e956df840777fed728849ce8a7f57f99770">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_026.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9767eeed7afebcd22b3e7e0123b284e3422eefd7">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_027.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8d9fa3130f619225832fd8723483e1acec212ed6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_028.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fe58774cc0621ed4b7157fa3240914700d196c2d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_029.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#f29c0d0235936d9b17034dcd4a099cd0f23865ae">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_030.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#51228a408898564d205d13c0ebe329685c10c8ad">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_031.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6552b0bbb348902576f6c86a17e8c223da338fc6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_032.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#e1d87b2cc327a79f7502577a893a24243b775239">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_033.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0445b65d7ee9ab7386530ae9ee66c22b8bbe4be">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_034.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7f03f86909a719ea484dc590dfd7385860165384">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_035.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8af25c6507fd8b219fbbec2c29fe985d69d99235">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_036.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#29c11f9e5dd7e9050888d7829122948e22ade9a6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_037.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c13847b1e95401e3dc0b30eee69da6c4dbec22fb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_038.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d67add37b4b19c7576950c818d639a3df1e23a7e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_039.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ae938dca9a23308552883c995069bb85b94fcce8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_040.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d5b17575455e24052b6b91e0447c5993087dcd6f">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_041.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#00f45a7d39057c7e64a5fe0302649bf4be0547da">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_info_042.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a22fbbae4df5605361b3da231f62317d6885325d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_meta_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc8282868e0de8766a8f7c39710e44e8fb94ab73">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_meta_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#dc18a9decfd57d52b8bf5579b7953fdd2c69d5c2">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_meta_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#6a2ddc6936d6b04c778af5a8e92dc0ce72f91775">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_meta_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8b57e4b1335ae945abdd4253288ab49be1d8fff6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigree_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a71d7bc44a060c980a9265197aca3be1c597932b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigree_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7db8aae0cdfe8ae8e21ebbf460ce5472fa545993">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigree_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#61042fbfb71e319f330b300b5ec7769819345fd8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigree_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#3d153f99aec493817aacec2e339c36b17ee0b36c">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigreedb_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#15d1ee4831edd8d2784088779afe836318615fd8">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigreedb_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#ffcdd4478cc0552dc59855b324345a888da54d81">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_pedigreedb_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8db2dba84374bb20b4c56dc0dfa82c4cbf6fae4b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_sample_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4e65ad83611bff13216f4e7956220487a78f9712">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_sample_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a30abdbe1546aa82b715d9f48628c00a9f06eb16">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_sample_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#5ef6eabf1cdbb6ffc182d6157f07fc38818de501">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/failed/failed_meta_sample_003.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a7c779001a5bbd183c5e125141e05c3628d6dc17">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/complexfile_passed_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#988e4d1913123900eec6c747c78ab85a8cd7ba77">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0a1a3e08375b8e70928942ec996f1e3d9e823a9a">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_chrom.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#85b890554ee8c3d77b78032d6512bc77f9e1af0d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_filter.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#1eb7547845a7a98a0a678234bb13f2d3162a29e9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_id.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9bf83c230a2a748dc6f25ef972ca0b7e6698bd12">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#78186bdf7d08fb959b825006aa9edbaecc82f78b">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_pos.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fa921f1917c8e9e9657cce2d2734532d3ceda9d5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_qual.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#da16d632bc522aa5b3d362d7515ea684e8e76404">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_ref.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#93b0f943436c91e31522c219dfd048217410fdeb">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_body_samples.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0fc2b49231f7d9fe600bb682203db1151a494ebe">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_fileformat_header_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#cea0447fbde780cfc54e9e45775097418d71dcfa">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_fileformat_header_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#9a6e265a9d6ba5a94f965fff989e4b0fe61d01ed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_fileformat_header_002.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#a0a97a52af7f7097d983707c507a957b5a1fdc34">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_alt.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#8976b8894b2cc31156e151a75710defa72d8f2da">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_assembly.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d1f9b8b922e61387f51fa444c87909d9c55d1a70">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_contig.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#168341786b8b8b01c9685ac9c0f2653052c8cdc6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_format.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#d673e04c0cccb3587ec397b383e78a1ec3bc2da9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_info.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#0eb68725d2d4ea60929467bcb40ca58d6eea8a5d">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_meta.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#96ae95e9664b4b55f217ff3bcf76b84eaf6045e5">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_pedigree.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#c497c9dbc468005c8fb3c663155482ecfac5bfed">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_pedigreedb.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#17c423464efe284d37b856a3c426d50261267b8e">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_meta_sample.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#205d72b772dde68dd1ea3e501eaf6ca3217a6ed0">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_ploidy_000.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#fd0ae0d3401de674129e2f95f1df0d778dd462f9">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_ploidy_001.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#adc8a5c43eae14f8194ab0d986db13533c542cd6">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.3/passed/passed_symbolic_duplicates.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#7a3cdf851a6a7821c4c6f3bf67ec3be3cdc89452">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/4.5/passed/zero_length_LAA.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#072ddbc942c55c8a85304b0f855dc47f3b946071">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/LICENSE

</span>

</a>

</li>

<li class="file-stats">

<a href="#e264988914703f3ee29df23179b5114fb3175400">

<span class="new-file">

+

src/test/resources/htsjdk/hts-specs/test/vcf/README.md

</span>

</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/htsjdk/-/commit/395c9dfdaa72b49a24a2f7f1ff7b3a6d8910be95">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/htsjdk/-/commit/395c9dfdaa72b49a24a2f7f1ff7b3a6d8910be95 at 1766733990

</span>

<script type="application/ld+json">{"@context":"http://schema.org","@type":"EmailMessage","action":{"@type":"ViewAction","name":"View Commit","url":"https://salsa.debian.org/med-team/htsjdk/-/commit/395c9dfdaa72b49a24a2f7f1ff7b3a6d8910be95"}}</script>

</p>

</div>

</body>

</html>