<!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=US-ASCII" 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;">
Andrius Merkys pushed to branch master at <a href="https://salsa.debian.org/java-team/cdk">Debian Java Maintainers / cdk</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/java-team/cdk/-/commit/2c0e23f34cc188c866702fc41186ccfe2e87b221">2c0e23f3</a></strong>
<div>
<span> by Andrius Merkys </span> <i> at 2025-03-31T04:05:18-04:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream version 2.11</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/java-team/cdk/-/commit/db59e6c9a8609e3864f102132589707692fccb23">db59e6c9</a></strong>
<div>
<span> by Andrius Merkys </span> <i> at 2025-03-31T04:06:14-04:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Update upstream source from tag 'upstream/2.11'
Update to upstream version '2.11'
with Debian dir 3619f535643a64f5ce214a0edd19da40c9144b70</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/java-team/cdk/-/commit/91970b83ae4d1076507d7651d730b567defc43b4">91970b83</a></strong>
<div>
<span> by Andrius Merkys </span> <i> at 2025-03-31T04:46:23-04:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Update debian/copyright.
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/java-team/cdk/-/commit/d184b3c85f7202e2754cac7ad67368ab2c7f7628">d184b3c8</a></strong>
<div>
<span> by Andrius Merkys </span> <i> at 2025-03-31T04:46:39-04:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Update changelog for 1:2.11-1 release
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
2461 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#94685a47fc817ec795d7c51159a9f90f63cb7fb2">
<span class="new-file">
+
.github/workflows/add_checksums_to_release.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#61b4bab3a8ad00bd858dd878569e73dfdcdde173">
app/depict/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ae386cc2dc49f07cfb5905587c181cc95b9c93d4">
app/depict/src/main/java/org/openscience/cdk/depict/Depiction.java
</a>
</li>
<li class="file-stats">
<a href="#57d147b0790e22a9dc3f6f72067283644bd3b2a2">
app/depict/src/main/java/org/openscience/cdk/depict/DepictionGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#670e916553f699ae4c7fa5076b406b5014ece83e">
app/depict/src/main/java/org/openscience/cdk/depict/FreeHepWrapper.java
</a>
</li>
<li class="file-stats">
<a href="#d8ebe4c46ba29e56f0672e7728095a4bbd09eee5">
app/depict/src/main/java/org/openscience/cdk/depict/MolGridDepiction.java
</a>
</li>
<li class="file-stats">
<a href="#88aeed501b81e8708dc99bea138ede4469a2d93d">
app/depict/src/main/java/org/openscience/cdk/depict/ReactionDepiction.java
</a>
</li>
<li class="file-stats">
<a href="#e7a7c1681258ef27519676af27e85b1fd3bf5a7c">
app/depict/src/main/java/org/openscience/cdk/depict/ReactionSetDepiction.java
</a>
</li>
<li class="file-stats">
<a href="#393b54a143a2f25876bdfcbd2ae6dc1db9c1672e">
app/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#99ea058e90cd0d3a525430521fe44068ac0f085c">
base/atomtype/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#a10026c46a688729757e5c54915a08f8ee11ff79">
base/atomtype/src/main/java/org/openscience/cdk/atomtype/EStateAtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#6edb337d103c253b4a29c1a9a1e89c99e1aad9aa">
base/atomtype/src/main/java/org/openscience/cdk/atomtype/SybylAtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#78eed7cb6e66e21d91d306af38578b98f0a28f18">
base/atomtype/src/main/java/org/openscience/cdk/atomtype/mapper/AtomTypeMapper.java
</a>
</li>
<li class="file-stats">
<a href="#6a6f9059cdce7e8dfd90d0a008f092ec5d19dc42">
base/atomtype/src/main/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeMappingHandler.java
</a>
</li>
<li class="file-stats">
<a href="#17642dae6122dd9a326cf484a386fbdea610e68a">
base/atomtype/src/main/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeMappingReader.java
</a>
</li>
<li class="file-stats">
<a href="#db774826b1c68e35b2057e2e2f8aa3d0f4b3167d">
base/atomtype/src/main/resources/org/openscience/cdk/dict/data/cdk-atom-types.owl
</a>
</li>
<li class="file-stats">
<a href="#247cb9e6680ab006e85d65e7d26e41ad8464964a">
base/core/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ce8a75e915a2b39a8569d405cc014686202cb062">
base/core/src/main/java/org/openscience/cdk/CDK.java
</a>
</li>
<li class="file-stats">
<a href="#55ddc868d7006187eb3d35a54800f8d24d7f0c4f">
base/core/src/main/java/org/openscience/cdk/CDKConstants.java
</a>
</li>
<li class="file-stats">
<a href="#2c0100014611c89e259eee0647ba327f46d50ddf">
base/core/src/main/java/org/openscience/cdk/DynamicFactory.java
</a>
</li>
<li class="file-stats">
<a href="#4472e2c1245cdc769ff8e6bf5a92ffb9f392a42e">
base/core/src/main/java/org/openscience/cdk/atomtype/CDKAtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#a461fa282d3a8568a5c1f5fcd5d964b2d7abb544">
base/core/src/main/java/org/openscience/cdk/atomtype/IAtomTypeGuesser.java
</a>
</li>
<li class="file-stats">
<a href="#1949b7856d85c5f2609ab8625544158733642b16">
base/core/src/main/java/org/openscience/cdk/atomtype/IAtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#ed19a9f8a08512f5fa2878aa60daac3c1a994634">
base/core/src/main/java/org/openscience/cdk/config/AtomTypeFactory.java
</a>
</li>
<li class="file-stats">
<a href="#ff3eddee5ee15e9d58899d822b8496516838a3ff">
base/core/src/main/java/org/openscience/cdk/config/BODRIsotope.java
</a>
</li>
<li class="file-stats">
<a href="#35862590b17dfea748bb1444c173fef4b608c680">
base/core/src/main/java/org/openscience/cdk/config/CDKBasedAtomTypeConfigurator.java
</a>
</li>
<li class="file-stats">
<a href="#4863282068276cdbaf68ff088b7b9e71454ae4a6">
base/core/src/main/java/org/openscience/cdk/config/Elements.java
</a>
</li>
<li class="file-stats">
<a href="#17ff6d4f5fa0427651a04cd5984dda5c9c98e252">
base/core/src/main/java/org/openscience/cdk/config/IAtomTypeConfigurator.java
</a>
</li>
<li class="file-stats">
<a href="#49394c4dca60ca9151910405ca0050063603f0ae">
base/core/src/main/java/org/openscience/cdk/config/IsotopeFactory.java
</a>
</li>
<li class="file-stats">
<a href="#aaf285701920f8f2a46a6b5139ab9d71dbf62672">
base/core/src/main/java/org/openscience/cdk/config/Isotopes.java
</a>
</li>
<li class="file-stats">
<a href="#b7c262c678d58109412fd10a0cad4d67e96e22b9">
base/core/src/main/java/org/openscience/cdk/config/NaturalElement.java
</a>
</li>
<li class="file-stats">
<a href="#0a77932608da134cb1face4d0d0c930296e66145">
base/core/src/main/java/org/openscience/cdk/config/OWLBasedAtomTypeConfigurator.java
</a>
</li>
<li class="file-stats">
<a href="#04531e996000512da0cb077fa27cc3776f3dcc51">
base/core/src/main/java/org/openscience/cdk/config/TXTBasedAtomTypeConfigurator.java
</a>
</li>
<li class="file-stats">
<a href="#c79b8a84d4d705b2afba474baffe0bba840e6c58">
base/core/src/main/java/org/openscience/cdk/config/atomtypes/AtomTypeHandler.java
</a>
</li>
<li class="file-stats">
<a href="#233c108b37e8cbb597b9706788dc4c63bf839d9c">
base/core/src/main/java/org/openscience/cdk/config/atomtypes/AtomTypeReader.java
</a>
</li>
<li class="file-stats">
<a href="#6a3d9dd2d5c26cfa367a242095a2be87bd17a8b3">
base/core/src/main/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeHandler.java
</a>
</li>
<li class="file-stats">
<a href="#622c7b6050cb40a0eb0f28c62e825fc986e05650">
base/core/src/main/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeReader.java
</a>
</li>
<li class="file-stats">
<a href="#1ea8edc75d3ddc0db88c7a7eeef9df9703a7a5de">
base/core/src/main/java/org/openscience/cdk/fingerprint/IBitFingerprint.java
</a>
</li>
<li class="file-stats">
<a href="#9c7a13d5f4a21bd2c990a8ca9d96ce2e693486ce">
base/core/src/main/java/org/openscience/cdk/fingerprint/ICountFingerprint.java
</a>
</li>
<li class="file-stats">
<a href="#ef32f4d9b67a57665d99f0e488968dc517257474">
base/core/src/main/java/org/openscience/cdk/fingerprint/IFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#947475a9bf4fe56544198948f77e03b6fc4c2819">
base/core/src/main/java/org/openscience/cdk/graph/AllCycles.java
</a>
</li>
<li class="file-stats">
<a href="#a3c43c62e48d7308117df976e7a7d7070d55b7b1">
base/core/src/main/java/org/openscience/cdk/graph/AllPairsShortestPaths.java
</a>
</li>
<li class="file-stats">
<a href="#54ace1fc307cab30f88e740f556affa7d607d6b7">
base/core/src/main/java/org/openscience/cdk/graph/BitMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#b4a0564ad131621054c86f4d456938e5d2691d91">
base/core/src/main/java/org/openscience/cdk/graph/ConnectedComponents.java
</a>
</li>
<li class="file-stats">
<a href="#cfaf38c4b516f9c268b9c4010e45874c76526bdd">
base/core/src/main/java/org/openscience/cdk/graph/CycleFinder.java
</a>
</li>
<li class="file-stats">
<a href="#75de47839eb7850ac01135035db4a62df83fa005">
base/core/src/main/java/org/openscience/cdk/graph/Cycles.java
</a>
</li>
<li class="file-stats">
<a href="#282a9958a3c7a60a6aa878cabacd957fd23e7c1e">
base/core/src/main/java/org/openscience/cdk/graph/EdgeShortCycles.java
</a>
</li>
<li class="file-stats">
<a href="#8486b3d94a221de5d3b153030039f4d57b80d18f">
base/core/src/main/java/org/openscience/cdk/graph/EssentialCycles.java
</a>
</li>
<li class="file-stats">
<a href="#096611154a09fb3f346ae9d2daa51b091e39f2b7">
base/core/src/main/java/org/openscience/cdk/graph/GraphUtil.java
</a>
</li>
<li class="file-stats">
<a href="#928df19ad17dfdf2417f334f7d77e767e0252f39">
base/core/src/main/java/org/openscience/cdk/graph/GreedyBasis.java
</a>
</li>
<li class="file-stats">
<a href="#f711a0d33abb3f8f51327e88a3222e908fb3a18f">
base/core/src/main/java/org/openscience/cdk/graph/InitialCycles.java
</a>
</li>
<li class="file-stats">
<a href="#15b39b5f653592636d393d8c9dae9a1458636d62">
base/core/src/main/java/org/openscience/cdk/graph/JumboPathGraph.java
</a>
</li>
<li class="file-stats">
<a href="#5815a17cd810fa5bbee2622b8a7da60d9cb8d7ec">
base/core/src/main/java/org/openscience/cdk/graph/MinimumCycleBasis.java
</a>
</li>
<li class="file-stats">
<a href="#7ea855c02aea5ebef1779d069831f7fdf3a06183">
base/core/src/main/java/org/openscience/cdk/graph/PathGraph.java
</a>
</li>
<li class="file-stats">
<a href="#2cc456b0e443036b21f51218482839f590361f5b">
base/core/src/main/java/org/openscience/cdk/graph/PathTools.java
</a>
</li>
<li class="file-stats">
<a href="#c7ce88c3874b93a0c1c21a42ea9d73e4c4646124">
base/core/src/main/java/org/openscience/cdk/graph/RegularPathGraph.java
</a>
</li>
<li class="file-stats">
<a href="#b6e6ac906b659bd1a5d0354ff0bde35aafbeebf3">
base/core/src/main/java/org/openscience/cdk/graph/RelevantCycles.java
</a>
</li>
<li class="file-stats">
<a href="#a703a3145e3a6994bc7c121316462a1fcdc333da">
base/core/src/main/java/org/openscience/cdk/graph/ShortestPaths.java
</a>
</li>
<li class="file-stats">
<a href="#803de00954aa29c67b96fb4f6a8d5e8b205b732a">
base/core/src/main/java/org/openscience/cdk/graph/SpanningTree.java
</a>
</li>
<li class="file-stats">
<a href="#86d86e791b6842c23a14ca841179969d9bf2aa50">
base/core/src/main/java/org/openscience/cdk/graph/TripletShortCycles.java
</a>
</li>
<li class="file-stats">
<a href="#63d44ddd20a7119eeade3e75083ad437ec22f1e3">
base/core/src/main/java/org/openscience/cdk/graph/VertexShortCycles.java
</a>
</li>
<li class="file-stats">
<a href="#2eb1b303fa74bb185bdfd9bc7a2ceea11efcf435">
base/core/src/main/java/org/openscience/cdk/graph/matrix/AdjacencyMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#bc60739d2052186c2592d02ca003590ebe7d6b6f">
base/core/src/main/java/org/openscience/cdk/io/ChemObjectIO.java
</a>
</li>
<li class="file-stats">
<a href="#77cf7bef25ca527be9b6aef264a2d270149ceee5">
base/core/src/main/java/org/openscience/cdk/io/DefaultChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#3071e690300dcca71dadc453d7ab1365a0733471">
base/core/src/main/java/org/openscience/cdk/io/DefaultChemObjectWriter.java
</a>
</li>
<li class="file-stats">
<a href="#60a1e3c339f4e035d9f4bc1769926740004d4f37">
base/core/src/main/java/org/openscience/cdk/io/iterator/DefaultIteratingChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#b6bc5aca4f49ac0266dc6afd64ea34f1b52c4fb5">
base/core/src/main/java/org/openscience/cdk/io/random/DefaultRandomAccessChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#06f3ae88755dd2bf12e64fb19d16bd13a3c95c70">
base/core/src/main/java/org/openscience/cdk/io/random/RandomAccessReader.java
</a>
</li>
<li class="file-stats">
<a href="#a2f138ee3edfd4e400bd47611d32a5a24fbb5fd5">
base/core/src/main/java/org/openscience/cdk/io/setting/BooleanIOSetting.java
</a>
</li>
<li class="file-stats">
<a href="#96390d2a3be64fd2bda9c1cf3b9de49ec099134e">
base/core/src/main/java/org/openscience/cdk/io/setting/IntegerIOSetting.java
</a>
</li>
<li class="file-stats">
<a href="#d82f729315d4b0ab90eb8c28c571d6f1ccb0848f">
base/core/src/main/java/org/openscience/cdk/io/setting/OptionIOSetting.java
</a>
</li>
<li class="file-stats">
<a href="#83882fe7db0ac2a398702d4dee7a9317a582a572">
base/core/src/main/java/org/openscience/cdk/io/setting/SettingManager.java
</a>
</li>
<li class="file-stats">
<a href="#2667be193df44389575a7940ad981203b0b5c7e5">
base/core/src/main/java/org/openscience/cdk/io/setting/StringIOSetting.java
</a>
</li>
<li class="file-stats">
<a href="#d999c7b4b2132c26c820dbf048cef8eb666f4920">
base/core/src/main/java/org/openscience/cdk/ringsearch/CyclicVertexSearch.java
</a>
</li>
<li class="file-stats">
<a href="#307e6023f360c6b8e820ccf9f107152be8e84797">
base/core/src/main/java/org/openscience/cdk/ringsearch/JumboCyclicVertexSearch.java
</a>
</li>
<li class="file-stats">
<a href="#cbfbb9725b3a32f94820742686d6b3c218322675">
base/core/src/main/java/org/openscience/cdk/ringsearch/RegularCyclicVertexSearch.java
</a>
</li>
<li class="file-stats">
<a href="#f4e0a13cd780c51a7cd533caab4aaff9838b7658">
base/core/src/main/java/org/openscience/cdk/ringsearch/RingSearch.java
</a>
</li>
<li class="file-stats">
<a href="#e1a7703ac51edc51d68093cbcebaed2880debebe">
base/core/src/main/java/org/openscience/cdk/stereo/DoubleBondStereochemistry.java
</a>
</li>
<li class="file-stats">
<a href="#be927c59f02d36765709e2965def16ca0ed04a89">
base/core/src/main/java/org/openscience/cdk/stereo/TetrahedralChirality.java
</a>
</li>
<li class="file-stats">
<a href="#2a1888b4d7434c3cc729b11caeac43888ae21e1a">
base/core/src/main/java/org/openscience/cdk/tools/manipulator/BondManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#1c9e93a16fb96b2b68d2a069fc8f9bccf146049c">
base/core/src/main/java/org/openscience/cdk/tools/periodictable/PeriodicTable.java
</a>
</li>
<li class="file-stats">
<a href="#4ca9d96acb431cc7283d67cc184652612c0c8b36">
<span class="new-file">
+
base/core/src/test/java/org/openscience/cdk/io/setting/BooleanIOSettingTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#caf49580bc57852ab0df049ec407db154f315ed6">
<span class="new-file">
+
base/core/src/test/java/org/openscience/cdk/io/setting/IntegerIOSettingTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#57e5078d96eff4e9ed977fca107b97f7ebb5a13f">
<span class="new-file">
+
base/core/src/test/java/org/openscience/cdk/io/setting/OptionIOSettingTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#6b63b6e478d2b34a22867ada4ed3011bc7c97ffd">
base/data/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#d9baf69979bddfb9c7d0846a2ad784040f7702ea">
base/data/src/main/java/org/openscience/cdk/AminoAcid.java
</a>
</li>
<li class="file-stats">
<a href="#479b8485707b3454eb22e685615a5f94d7446abf">
base/data/src/main/java/org/openscience/cdk/Atom.java
</a>
</li>
<li class="file-stats">
<a href="#8b46023f36000e925b7f1bdd7aa373af60016a77">
base/data/src/main/java/org/openscience/cdk/AtomContainerLegacy.java
</a>
</li>
<li class="file-stats">
<a href="#4c88910cb480648741512d977826335aca12ec26">
base/data/src/main/java/org/openscience/cdk/AtomContainerSet.java
</a>
</li>
<li class="file-stats">
<a href="#19d276cf3a80de2ad8b589f95023abfb04fbfa0c">
base/data/src/main/java/org/openscience/cdk/AtomType.java
</a>
</li>
<li class="file-stats">
<a href="#ed232ef3d52b27515f22890f2d86e7370526b78f">
base/data/src/main/java/org/openscience/cdk/BioPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#90f3df557aaa0b0f81e6e0e66750bf5929e47870">
base/data/src/main/java/org/openscience/cdk/Bond.java
</a>
</li>
<li class="file-stats">
<a href="#edbdfc61f2d040a710ed5c8ea441b35da0a00103">
base/data/src/main/java/org/openscience/cdk/ChemFile.java
</a>
</li>
<li class="file-stats">
<a href="#679c656898adc1235614532e4184104a9bbb966e">
base/data/src/main/java/org/openscience/cdk/ChemModel.java
</a>
</li>
<li class="file-stats">
<a href="#bd09c7233aea9b52cb98cc66c39ced28a6edd629">
base/data/src/main/java/org/openscience/cdk/ChemObject.java
</a>
</li>
<li class="file-stats">
<a href="#2444186fab7a9cc46c51e47a3e996ce4ff4b2145">
base/data/src/main/java/org/openscience/cdk/ChemSequence.java
</a>
</li>
<li class="file-stats">
<a href="#32390cb80fc70b7aa958240bf84d35bd16fe0b92">
base/data/src/main/java/org/openscience/cdk/ConformerContainer.java
</a>
</li>
<li class="file-stats">
<a href="#9ba4f2ffac36a75ebd6d1ac3500403e6271db30f">
base/data/src/main/java/org/openscience/cdk/Crystal.java
</a>
</li>
<li class="file-stats">
<a href="#7cf7e373178c7d0242c41c3986a4daf380b23dd1">
base/data/src/main/java/org/openscience/cdk/DefaultChemObjectBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#810a2c7a2753947c3811c77eb407dfccb4bf87eb">
base/data/src/main/java/org/openscience/cdk/ElectronContainer.java
</a>
</li>
<li class="file-stats">
<a href="#df752d3fbc66af228a7d2c009cc6d20d0a52ad3f">
base/data/src/main/java/org/openscience/cdk/Element.java
</a>
</li>
<li class="file-stats">
<a href="#583f951698a8aa0da166317593bd8d4f6bab8db0">
base/data/src/main/java/org/openscience/cdk/FragmentAtom.java
</a>
</li>
<li class="file-stats">
<a href="#5e9f38e20df3067b892cb5b51c607fc81c20417a">
base/data/src/main/java/org/openscience/cdk/Isotope.java
</a>
</li>
<li class="file-stats">
<a href="#98aa917b36b3450d1b6464e7ed07f6595637b481">
base/data/src/main/java/org/openscience/cdk/LonePair.java
</a>
</li>
<li class="file-stats">
<a href="#2ec4d1ca08dc805751f58cf8a2dcdf7d06435710">
base/data/src/main/java/org/openscience/cdk/Mapping.java
</a>
</li>
<li class="file-stats">
<a href="#d2e7d3954c7c467ef0b1b719c8b3c9884e988901">
base/data/src/main/java/org/openscience/cdk/Monomer.java
</a>
</li>
<li class="file-stats">
<a href="#76deb4a96150a95e99900e6c551faf34b268187d">
base/data/src/main/java/org/openscience/cdk/Polymer.java
</a>
</li>
<li class="file-stats">
<a href="#5c57215388fff52458874c76fdba32ede73aa31e">
base/data/src/main/java/org/openscience/cdk/PseudoAtom.java
</a>
</li>
<li class="file-stats">
<a href="#3c042357adce5b01a38456d36b70a13a8ac4c6cb">
base/data/src/main/java/org/openscience/cdk/Reaction.java
</a>
</li>
<li class="file-stats">
<a href="#d492ae8cf3b9e3ce03129f016ab9d344a78a3ab4">
base/data/src/main/java/org/openscience/cdk/ReactionScheme.java
</a>
</li>
<li class="file-stats">
<a href="#baf2a0e1841b889f5256de46da3d6efe10acbf1f">
base/data/src/main/java/org/openscience/cdk/ReactionSet.java
</a>
</li>
<li class="file-stats">
<a href="#2af63fb99d4f6401919361ab8b9238c3f3a4dddd">
base/data/src/main/java/org/openscience/cdk/Ring.java
</a>
</li>
<li class="file-stats">
<a href="#d73796ab1414816c486076d2e434e159f6b2235c">
base/data/src/main/java/org/openscience/cdk/RingSet.java
</a>
</li>
<li class="file-stats">
<a href="#b119b4efa91a42f1efbecd25e9717a702bc9bdee">
base/data/src/main/java/org/openscience/cdk/SingleElectron.java
</a>
</li>
<li class="file-stats">
<a href="#58ee5756082b39edc6e439e6f65be44729a070e4">
base/data/src/main/java/org/openscience/cdk/Strand.java
</a>
</li>
<li class="file-stats">
<a href="#68f3a3585b4b02c88c9d49ee600310699ebb6802">
base/data/src/main/java/org/openscience/cdk/Substance.java
</a>
</li>
<li class="file-stats">
<a href="#84d61eea3c141ce3f7c520ad98e4d776325ebc86">
base/data/src/main/java/org/openscience/cdk/event/ChemObjectChangeEvent.java
</a>
</li>
<li class="file-stats">
<a href="#78ee5beb70098ac40abf7cac898f73ce3a768a07">
base/data/src/main/java/org/openscience/cdk/formula/AdductFormula.java
</a>
</li>
<li class="file-stats">
<a href="#21462cff3cd5d495979d881137bf91bf853d1afb">
base/data/src/main/java/org/openscience/cdk/formula/MolecularFormula.java
</a>
</li>
<li class="file-stats">
<a href="#eed8f4738d1f7ff2a56e59108fe64760a716f259">
base/data/src/main/java/org/openscience/cdk/formula/MolecularFormulaSet.java
</a>
</li>
<li class="file-stats">
<a href="#b20a35bd87e2e13628128eb718b4a4b766b6f180">
base/data/src/main/java/org/openscience/cdk/protein/data/PDBAtom.java
</a>
</li>
<li class="file-stats">
<a href="#e35435c510c224d4f18c87df61af19d78250d8a4">
base/data/src/main/java/org/openscience/cdk/protein/data/PDBMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#627b7bfdedf788766da5886cd44416f8b1aa526c">
base/data/src/main/java/org/openscience/cdk/protein/data/PDBPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#181c87050bd18396bea863f59400f58489233117">
base/data/src/main/java/org/openscience/cdk/protein/data/PDBStructure.java
</a>
</li>
<li class="file-stats">
<a href="#7570fda3715778a74493e8a0d61d30d135492087">
base/data/src/main/java/org/openscience/cdk/templates/TestMoleculeFactory.java
</a>
</li>
<li class="file-stats">
<a href="#5771ffa0f1de763171f4d196b90352bf1a244796">
base/data/src/test/java/org/openscience/cdk/AminoAcidTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc5625f294c69bf1bb8666105edf77b0bfe9d9c8">
base/data/src/test/java/org/openscience/cdk/AtomContainer2Test.java
</a>
</li>
<li class="file-stats">
<a href="#cfa0212696b9e73b0a8ed983099d46f3e831e116">
base/data/src/test/java/org/openscience/cdk/AtomContainerSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#0f30877ff3f45b2c0fabe744e1a292d66022af13">
base/data/src/test/java/org/openscience/cdk/AtomContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a14e69e647f34dc19306b0dc1f44c5286536e3b6">
base/data/src/test/java/org/openscience/cdk/AtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#25a82a86ff2d030552fac8703c2edc4eaa4ea537">
base/data/src/test/java/org/openscience/cdk/AtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0db8e5d6cd799f931c7522cce7b6243da42fa31">
base/data/src/test/java/org/openscience/cdk/BioPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#9a82e8c8ce3956405366f0aab471dc16046ee2b4">
base/data/src/test/java/org/openscience/cdk/BondTest.java
</a>
</li>
<li class="file-stats">
<a href="#861652b8ecbdac9c9f1860967fb378271806e8ca">
base/data/src/test/java/org/openscience/cdk/ChangeEventPropagationTest.java
</a>
</li>
<li class="file-stats">
<a href="#a0aa2255c6a7bc4c7b6197a9c3e467c19093a14f">
base/data/src/test/java/org/openscience/cdk/ChemFileTest.java
</a>
</li>
<li class="file-stats">
<a href="#df5fdf7a7522542917d789f0ea204b424ba544cb">
base/data/src/test/java/org/openscience/cdk/ChemModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca072c8295a2d1bf0310776880a5adf66c1fbe0c">
base/data/src/test/java/org/openscience/cdk/ChemObjectTest.java
</a>
</li>
<li class="file-stats">
<a href="#092cd24b6372ebe10b7f8bb43aa56cd11fae37bc">
base/data/src/test/java/org/openscience/cdk/ChemSequenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#be23c13fd39b3ec3a9bdeecb05e4c77769ba6981">
base/data/src/test/java/org/openscience/cdk/ConformerContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#430f1274295ec0e638d62b68eaab492240f4edae">
base/data/src/test/java/org/openscience/cdk/CrystalTest.java
</a>
</li>
<li class="file-stats">
<a href="#3a17ae53a8da4e46e5f34bd9111f55ee95c6b33b">
base/data/src/test/java/org/openscience/cdk/DefaultChemObjectBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#cfb5df6d813ee16015ec731f5b0afec2894233d7">
base/data/src/test/java/org/openscience/cdk/ElectronContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#449a1db10d4eb2ecc5f94f7352df2edcdd87ffdd">
base/data/src/test/java/org/openscience/cdk/ElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#cf78a8271655e1c9191ae50dc532adec871b7861">
base/data/src/test/java/org/openscience/cdk/FragmentAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0c6b9079c667ef5de5c8036aa1542f5bfbc4f9f">
base/data/src/test/java/org/openscience/cdk/IsotopeTest.java
</a>
</li>
<li class="file-stats">
<a href="#246e7a24ddc78acd1e8e067fb8dbc5405cb1fa7c">
base/data/src/test/java/org/openscience/cdk/LonePairTest.java
</a>
</li>
<li class="file-stats">
<a href="#32b73293a97bd3711d92eb3c885173c0a9f0d7b0">
base/data/src/test/java/org/openscience/cdk/MappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#7261b8697c81ca69accdc214fb357dcb49a26493">
base/data/src/test/java/org/openscience/cdk/MoleculeTest.java
</a>
</li>
<li class="file-stats">
<a href="#1309e01d7d30ab4141bbb8324a9340ffd717ac5b">
base/data/src/test/java/org/openscience/cdk/MonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a7b0024357a95410e40c51d427c386e563e7c476">
base/data/src/test/java/org/openscience/cdk/PolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#036bd1e64cbd27b4b40d66bdef99f691b19d629f">
base/data/src/test/java/org/openscience/cdk/PseudoAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#d32eb28f07165fc8de1eff54c2e0c8d7131b6124">
base/data/src/test/java/org/openscience/cdk/ReactionSchemeTest.java
</a>
</li>
<li class="file-stats">
<a href="#7a8b2450a8f5af12ef9b2c9cf0e5b09db47a6fe5">
base/data/src/test/java/org/openscience/cdk/ReactionSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#4df9916dc0aee6ff68b04a44821b678e8b5c1cb0">
base/data/src/test/java/org/openscience/cdk/ReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#96b38f04d367f7c42999fc03db3a10d7c32119c4">
base/data/src/test/java/org/openscience/cdk/RingSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#aad7e17680a5020f2597999942f093b25faf6156">
base/data/src/test/java/org/openscience/cdk/RingTest.java
</a>
</li>
<li class="file-stats">
<a href="#d125c4ed31cd08954a4c3cd739a1e39bc3ce0836">
base/data/src/test/java/org/openscience/cdk/SingleElectronTest.java
</a>
</li>
<li class="file-stats">
<a href="#5c848852689045c36c74a19eb1385bc679dda980">
base/data/src/test/java/org/openscience/cdk/StrandTest.java
</a>
</li>
<li class="file-stats">
<a href="#d549a91319bfe479d6f0121f1d943c45186ef50a">
base/data/src/test/java/org/openscience/cdk/SubstanceTest.java
</a>
</li>
<li class="file-stats">
<a href="#6081f2d9844e9661604cfe2cfae83f42cf053e16">
base/data/src/test/java/org/openscience/cdk/event/ChemObjectChangeEventTest.java
</a>
</li>
<li class="file-stats">
<a href="#4e6ea105cd6a1e683e182aa40dd49ce237ec17d6">
base/data/src/test/java/org/openscience/cdk/formula/AdductFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#8f591525e3ece67a85b627b5c3a51b08b306b894">
base/data/src/test/java/org/openscience/cdk/formula/MolecularFormulaSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#589e0ad34f45a01d411483260beb2cdc7ed4cf8f">
base/data/src/test/java/org/openscience/cdk/formula/MolecularFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#83c4916be430c4ce08debb480aa4706ef410a168">
base/data/src/test/java/org/openscience/cdk/protein/data/PDBAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#d8461ae4b121a12098825d92cc5d3513c19ee7d4">
base/data/src/test/java/org/openscience/cdk/protein/data/PDBMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#402191bfc4f7a73e78274c3202fc2cb139f9f3a7">
base/data/src/test/java/org/openscience/cdk/protein/data/PDBPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#1ca8dabaae112d1ecdbe281fb53a49241d99b9be">
base/data/src/test/java/org/openscience/cdk/protein/data/PDBStructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#14d3a9467bc28a9af6b6de150c40fce3c4aac9e5">
base/datadebug/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#9de05111cd84daa086f32948ea628a101b89a6a2">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAdductFormula.java
</a>
</li>
<li class="file-stats">
<a href="#ecaa4cfd098fb1d4d8bac16b60489deb3bec7880">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAminoAcid.java
</a>
</li>
<li class="file-stats">
<a href="#37f3f1036f7877b692e69610093834106ceddc5c">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAtom.java
</a>
</li>
<li class="file-stats">
<a href="#bdbcebeb44bb0f342cd0a30f3280769fd928d6be">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAtomContainer.java
</a>
</li>
<li class="file-stats">
<a href="#b2815094e5b591b1f1d9cca2b59dce144af76a5b">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAtomContainerSet.java
</a>
</li>
<li class="file-stats">
<a href="#ebf16bcf582210585fda5a0417c580729c20ee41">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAtomType.java
</a>
</li>
<li class="file-stats">
<a href="#e873917e5c8c7db881fec5d13735a4fc436201e9">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugBioPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#9dbcc0617b37454b2c13051a1d53a5052cc420d1">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugBond.java
</a>
</li>
<li class="file-stats">
<a href="#51ea6862e86e66e5e65a21bfd069a8763fdeb3dc">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugChemFile.java
</a>
</li>
<li class="file-stats">
<a href="#e73f50ef62b5e9d73b0476aa4ea9af796903905f">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugChemModel.java
</a>
</li>
<li class="file-stats">
<a href="#41d593717facf9e7ea612e208f50eed65a1d386a">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugChemObject.java
</a>
</li>
<li class="file-stats">
<a href="#0ef4649f4ebb1aaba40f6dde1ef1adaafbca52a8">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugChemObjectBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#14042cf95d4c6b6ab91bdef72643bf87a5d1219e">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugChemSequence.java
</a>
</li>
<li class="file-stats">
<a href="#1bd5c1e24e657a785684fd023120cd5c3589cbe6">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugCrystal.java
</a>
</li>
<li class="file-stats">
<a href="#81ba0858f8984acbb24966647bfbd669a49030d8">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugElectronContainer.java
</a>
</li>
<li class="file-stats">
<a href="#3682fa299f8f9358f408dea53e340046ac8885bd">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugElement.java
</a>
</li>
<li class="file-stats">
<a href="#a5e68df594eead9e90a168e66cfafe58c25d2530">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugFragmentAtom.java
</a>
</li>
<li class="file-stats">
<a href="#91a782d852e118c683e176f21c7d3a2793a92d79">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugIsotope.java
</a>
</li>
<li class="file-stats">
<a href="#7ff466ac9d8637e74f775fe15c104b578e103132">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugLonePair.java
</a>
</li>
<li class="file-stats">
<a href="#3941d671f9100fd2dba427c5412756219d8f5308">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugMapping.java
</a>
</li>
<li class="file-stats">
<a href="#2a5769ac9f0b9e22c2308a4b0604d421e6cf8380">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugMolecularFormula.java
</a>
</li>
<li class="file-stats">
<a href="#329e6cc89a87891618c7bea0762daa7754054a33">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugMolecularFormulaSet.java
</a>
</li>
<li class="file-stats">
<a href="#e364f3d8b1ee29d1c4c375bbab69c40294c70647">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#d490029e4b6685abf4213d6cf882397c4de03e0d">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPDBAtom.java
</a>
</li>
<li class="file-stats">
<a href="#04a49deba384412bd288530198393919502b4076">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPDBMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#5f061e958572b6f48f265a22e1f1a31a226e2080">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPDBPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#06f1d7587bcf0758a9712b11cc49fe3992f397e2">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPDBStructure.java
</a>
</li>
<li class="file-stats">
<a href="#1c30c458b31c86769e3ef6d6d953f64a7b09ed9d">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#18dd058356f65712baefd70695de081c61d128d9">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugPseudoAtom.java
</a>
</li>
<li class="file-stats">
<a href="#2be2a2253b0215b39c75c64e0d1514ea2d06545a">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugReaction.java
</a>
</li>
<li class="file-stats">
<a href="#294f3b8497486bb3088c6c5c3b942afa867afb6b">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugReactionScheme.java
</a>
</li>
<li class="file-stats">
<a href="#d22811a8e1786dd8ed949815d251cf12af43e72a">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugReactionSet.java
</a>
</li>
<li class="file-stats">
<a href="#1597e306bb76572c1a7b4308c6b244e6adef3a3c">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugRing.java
</a>
</li>
<li class="file-stats">
<a href="#fdae3417ca58859bd34833f0a9cc1170cfcf50eb">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugRingSet.java
</a>
</li>
<li class="file-stats">
<a href="#91b788e5f86f39672145230846fb2470640b747f">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugSingleElectron.java
</a>
</li>
<li class="file-stats">
<a href="#517537ad5aac78f12ae311dc5fc56be8299bbf29">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugStrand.java
</a>
</li>
<li class="file-stats">
<a href="#a7eab63a7d008922b332dbd2065f0ca364a467cc">
base/datadebug/src/main/java/org/openscience/cdk/debug/DebugSubstance.java
</a>
</li>
<li class="file-stats">
<a href="#05e75af79fd56b970dbb922fd0f4e6f3c48cd934">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAdductFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#cd89392100b3828cc2a056a1e6dd3c45be8cb70f">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAminoAcidTest.java
</a>
</li>
<li class="file-stats">
<a href="#9dfce03c5057f8237dacc2d2954f31c53b6f34bd">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAtomContainerSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#36b10ac3ead618550bdf30d9ddf49a5afc71df80">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAtomContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#82ff478dcb1ec77097dc238ad6bd574dce511a35">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#db54ef476a0333edf0dfaa4828b7bf4e99413faa">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#29ed35adb7672288d9256fed423a1530847a03c7">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugBioPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#9405401612a4abc821e781a38b0c1b75fd5e146e">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#019b4b8c9a3c2040eada2a1e352be9cd55408980">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugChemFileTest.java
</a>
</li>
<li class="file-stats">
<a href="#dcb3563b2ed83520ab8514b063ae4a7be9355fd0">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugChemModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#98d92fccfc0236f55105fbe39e00292aba14f234">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugChemObjectBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#56297ecc04ce7acc24a1ead24921859bcca02cf5">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugChemObjectTest.java
</a>
</li>
<li class="file-stats">
<a href="#e5ed19910f0c9b88cd09ec329b4d914bdf7c05c2">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugChemSequenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#ff828d85aee38a771f2dc1f6f9dbe122ce82817c">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugCrystalTest.java
</a>
</li>
<li class="file-stats">
<a href="#193210b52076d8a7a5aa70879c9d49fc7d6c25e1">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugElectronContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#009c99cf922c8beca490052e17285be02314543c">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#845cda21c3a0976553de2cbf84699783d266ac79">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugFragmentAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#b401f51374777cc40ade8353dcb33f030d160ad3">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugIsotopeTest.java
</a>
</li>
<li class="file-stats">
<a href="#e9aa09535b183651dfddb2d521277d05c17f4c73">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugLonePairTest.java
</a>
</li>
<li class="file-stats">
<a href="#29d9e4c212a94450c8285b85b6be2f9dadb7cd43">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugMappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#bddf294b7169706c43a05f4c0036e6d1194284f2">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugMolecularFormulaSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#f58f5246eec5c6a9afc9e946b2fb59103010bf13">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugMolecularFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#2ca110c4b6870498a7d208de5a45bf534b860122">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a87d6c451330da1d4d8db9a1d11ba788e3ea0665">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPDBAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#9e2511c88f1fb69d5ec609aab32bf12e89d72624">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPDBMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#ab3cb0408ed66c9212e2a6a338c5a96b3aca8829">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPDBPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#f59ef0f1e63c680e7a5d4133278d3759bb24bcda">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPDBStructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#fff644790b7b1cc8290e04a420622f6cc25d3f9e">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#60870a3073257fb6086b29f14cfc6fffad9f63fe">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugPseudoAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#7e669d7f8406f144e9c11174f78689df772b301d">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugReactionSchemeTest.java
</a>
</li>
<li class="file-stats">
<a href="#15abf55cc5ec179b03db5953dcf20725a3d6adfd">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugReactionSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#093d3e304fa3cb46ed622dfa2064ef60762a9552">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#283f1fe50a487786980f63c04597386bc8f3da80">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugRingSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#a01b94ec2ae23d440dbd1346cf342b7e0f8637d1">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugRingTest.java
</a>
</li>
<li class="file-stats">
<a href="#160be722b7636f75f267f839cc73e5e9fe059e8b">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugSingleElectronTest.java
</a>
</li>
<li class="file-stats">
<a href="#c9e55fe5c9a2fa02cec8e3a798fd3b476f434688">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugStrandTest.java
</a>
</li>
<li class="file-stats">
<a href="#771caceb6b40a8fce559505f1c673d60a792c33d">
base/datadebug/src/test/java/org/openscience/cdk/debug/DebugSubstanceTest.java
</a>
</li>
<li class="file-stats">
<a href="#ec937d050a3dd11f57bcc672bbdad9384a377278">
base/dict/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c0036ec96a0c9a987b082662b272fc1c80d791b7">
base/dict/src/main/java/org/openscience/cdk/dict/CDKDictionaryReferences.java
</a>
</li>
<li class="file-stats">
<a href="#d3bdca828d214ec0518b3afaf4dfb04b1d51b22b">
base/dict/src/main/java/org/openscience/cdk/dict/Dictionary.java
</a>
</li>
<li class="file-stats">
<a href="#b2f1bcf2c287cefb8c5ca0832c12fe8f79fcf256">
base/dict/src/main/java/org/openscience/cdk/dict/DictionaryDatabase.java
</a>
</li>
<li class="file-stats">
<a href="#cca33283c30183bf6afa8601760dc25b5172657a">
base/dict/src/main/java/org/openscience/cdk/dict/DictionaryHandler.java
</a>
</li>
<li class="file-stats">
<a href="#6b9228d8171a8d36580954c6f85cb6585c31a2b2">
base/dict/src/main/java/org/openscience/cdk/dict/Entry.java
</a>
</li>
<li class="file-stats">
<a href="#9ae4d099218ee79ef33ef9047b5adf09fea55d65">
base/dict/src/main/java/org/openscience/cdk/dict/EntryReact.java
</a>
</li>
<li class="file-stats">
<a href="#90f0f591a3ab5133a19ecd0e8b15f15cb9376936">
base/dict/src/main/java/org/openscience/cdk/dict/OWLFile.java
</a>
</li>
<li class="file-stats">
<a href="#01f86383298ee1d8a5b21d0c0a78585f2a1e2aa4">
base/dict/src/main/java/org/openscience/cdk/dict/OWLReact.java
</a>
</li>
<li class="file-stats">
<a href="#8d81a15e2ce8c70435aab1f59cbe0b9565ea3bd2">
base/dict/src/test/java/org/openscience/cdk/dict/AbstractDictionaryTest.java
</a>
</li>
<li class="file-stats">
<a href="#0eeb168b108624dee0dc51d7b8eb9320bae145ad">
base/dict/src/test/java/org/openscience/cdk/dict/AbstractEntryTest.java
</a>
</li>
<li class="file-stats">
<a href="#3383e1f2c3228884969ea80061080e37c53584b7">
base/dict/src/test/java/org/openscience/cdk/dict/DictDBReactTest.java
</a>
</li>
<li class="file-stats">
<a href="#1053ca9137646fa1a7dd51f386e7939f620314cd">
base/dict/src/test/java/org/openscience/cdk/dict/DictDBTest.java
</a>
</li>
<li class="file-stats">
<a href="#d3528d9e48d4e9b14287e53be37fcc09551cd14a">
base/dict/src/test/java/org/openscience/cdk/dict/DictionaryTest.java
</a>
</li>
<li class="file-stats">
<a href="#38904750c08dc577b949b946f528f92c99bb0369">
base/dict/src/test/java/org/openscience/cdk/dict/EntryReactTest.java
</a>
</li>
<li class="file-stats">
<a href="#b1481189b90b11e26665d2a2f63b62ea8f7fdb81">
base/dict/src/test/java/org/openscience/cdk/dict/EntryTest.java
</a>
</li>
<li class="file-stats">
<a href="#46dca3752d3701c699b83a266158f48970cb4b9d">
base/dict/src/test/java/org/openscience/cdk/dict/OWLFileTest.java
</a>
</li>
<li class="file-stats">
<a href="#a6b724a24b897a20833a5a61351b2d113e77060c">
base/dict/src/test/java/org/openscience/cdk/dict/OWLReactTest.java
</a>
</li>
<li class="file-stats">
<a href="#c57144c0e620e8f6072861d287ccc93eb4cfc138">
base/interfaces/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ca0ddc0f8fb2a9401ebd843db7052ca661de9306">
base/interfaces/src/main/java/org/openscience/cdk/IImplementationSpecification.java
</a>
</li>
<li class="file-stats">
<a href="#e49fb821725f2490627e19bb9b96d8e149c45f18">
base/interfaces/src/main/java/org/openscience/cdk/event/ICDKChangeListener.java
</a>
</li>
<li class="file-stats">
<a href="#1b9f9f05c91734eb8c4e37a4a1e3f11783a7c96f">
base/interfaces/src/main/java/org/openscience/cdk/exception/CDKException.java
</a>
</li>
<li class="file-stats">
<a href="#a7d57bb6177abc388128178122d5e1ca0906a2fd">
base/interfaces/src/main/java/org/openscience/cdk/exception/Intractable.java
</a>
</li>
<li class="file-stats">
<a href="#d310d66e4182ad373d37b1a32bd36667a050ee25">
base/interfaces/src/main/java/org/openscience/cdk/exception/InvalidSmilesException.java
</a>
</li>
<li class="file-stats">
<a href="#40525da923db87aed0acb3a45d4ef8a816dfea65">
base/interfaces/src/main/java/org/openscience/cdk/exception/NoSuchAtomException.java
</a>
</li>
<li class="file-stats">
<a href="#50f3875c38881dc73bb2e3bf344e3a5cec9d5865">
base/interfaces/src/main/java/org/openscience/cdk/exception/NoSuchAtomTypeException.java
</a>
</li>
<li class="file-stats">
<a href="#f8ead56e09dabc7c8cf3154e36eeab74905ac325">
base/interfaces/src/main/java/org/openscience/cdk/exception/NoSuchBondException.java
</a>
</li>
<li class="file-stats">
<a href="#8d35f375f752c398360cfcc60ac2ee0112218cbe">
base/interfaces/src/main/java/org/openscience/cdk/exception/UnsupportedChemObjectException.java
</a>
</li>
<li class="file-stats">
<a href="#64776ed43e9e2270cce7cafbfdc76f50e3f59265">
base/interfaces/src/main/java/org/openscience/cdk/graph/matrix/IGraphMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#df675b52318bdf47bf99c6da037b400c0a17c5c5">
base/interfaces/src/main/java/org/openscience/cdk/hash/AtomEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#599757914819fc695d378ae6dfe803e8cf84c068">
base/interfaces/src/main/java/org/openscience/cdk/hash/AtomHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#4d9660e9ca67455d8bec97838ba6859ee01ab76d">
base/interfaces/src/main/java/org/openscience/cdk/hash/EnsembleHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#5e9dd506da3d3cb85634eb54dbd62b91321c3f1b">
base/interfaces/src/main/java/org/openscience/cdk/hash/MoleculeHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#2bf20bcb03621ea9a98e5ae1e25838284fd92903">
<span class="new-file">
+
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ChemObjectBuilderCache.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#51fd72ac2ef6f85ad1c9d283d2bc2417828d85ae">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAdductFormula.java
</a>
</li>
<li class="file-stats">
<a href="#a0415c4b89e32155dca85e4fd6c9e8d88dcf3916">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAminoAcid.java
</a>
</li>
<li class="file-stats">
<a href="#c96128e4d79f1dd2ead542b0c6b85400b5169359">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAtom.java
</a>
</li>
<li class="file-stats">
<a href="#c3abd398dad3f7ced9ddce8db09f72609080c3a6">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAtomContainer.java
</a>
</li>
<li class="file-stats">
<a href="#3176f737bb6aa341c5b8c7a23991ed88e969e2ef">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAtomContainerSet.java
</a>
</li>
<li class="file-stats">
<a href="#4d4fbca1ca01d8d233d5e37a114ea45ea79ea726">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IAtomType.java
</a>
</li>
<li class="file-stats">
<a href="#ef9f5fda76d3bcbec43f15ddf0f4aa8e12b37698">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IBioPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#b8ad5d74a11cfdd1bde67b5a94c50b6802feef6b">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IBond.java
</a>
</li>
<li class="file-stats">
<a href="#36c4dc2d6568043fd76076fa7f592b842c97e141">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ICDKObject.java
</a>
</li>
<li class="file-stats">
<a href="#5582df6a0ba79607c1ef276729ef871bf5231e59">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemFile.java
</a>
</li>
<li class="file-stats">
<a href="#bd5b2361358fb997722ac70f0350c84b814807af">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemModel.java
</a>
</li>
<li class="file-stats">
<a href="#370359d508d3246fa41aa7e1440066d30d794105">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemObject.java
</a>
</li>
<li class="file-stats">
<a href="#13953044399d27aeebef567750fd60368102155c">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemObjectBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#541670875fce9a8f1827e21cf6faeae6084e15f5">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemObjectChangeEvent.java
</a>
</li>
<li class="file-stats">
<a href="#5babb1ae2c17346eb49324ad44dd400e4dde6ea7">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemObjectListener.java
</a>
</li>
<li class="file-stats">
<a href="#620771dc6ecdac1ae9c20131eaa442d08da64960">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IChemSequence.java
</a>
</li>
<li class="file-stats">
<a href="#55f3b1d2b9552657a4f2a7d26be22dc7ee67f3da">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ICrystal.java
</a>
</li>
<li class="file-stats">
<a href="#f08b5d9706b1948b4d492c515b06d9fd7a5c6888">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IDoubleBondStereochemistry.java
</a>
</li>
<li class="file-stats">
<a href="#a1061c75384c686eecbf79f00fe0cc40166c5495">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IElectronContainer.java
</a>
</li>
<li class="file-stats">
<a href="#1dd3ce5995e54a9e7e910004ae1972998bf996a2">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IElement.java
</a>
</li>
<li class="file-stats">
<a href="#5e08cd498624ac048cf2c120d658b58b18206cac">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IFragmentAtom.java
</a>
</li>
<li class="file-stats">
<a href="#c3b29bf144b2eedaaaecc8a735f6c72da60dba5b">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IIsotope.java
</a>
</li>
<li class="file-stats">
<a href="#4194ce2478e61ace88ad568889d33dfc74af86e2">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ILonePair.java
</a>
</li>
<li class="file-stats">
<a href="#dd51559709c80e56eb5da94d3192ba6c3e8ef1c1">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IMapping.java
</a>
</li>
<li class="file-stats">
<a href="#6b7ae5eccc56b21ce155a387fcb68917c17b15b6">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IMolecularFormula.java
</a>
</li>
<li class="file-stats">
<a href="#2960dbd79bd9d657abdad706aa3a8f1f257fae42">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IMolecularFormulaSet.java
</a>
</li>
<li class="file-stats">
<a href="#f3f25445a930cdd51f71110c7f13b7b68e472fd5">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#04540496edb0c032f1c6747b4ec512de0b30083a">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPDBAtom.java
</a>
</li>
<li class="file-stats">
<a href="#b9b2908cedc50dc809f526e2cad62674db435bae">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPDBMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#7a4e6ec3ac46b290b7bb9b40429a4172d7878814">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPDBPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#c8d4a2dc5e0c5dbe09de1495b2ca062c0584936b">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPDBStructure.java
</a>
</li>
<li class="file-stats">
<a href="#a9394397b511162ff4973f781af96468325bf88b">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#8d7fa17e8d45227316788457a24a33371687fb76">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IPseudoAtom.java
</a>
</li>
<li class="file-stats">
<a href="#d5d5bb9286337723615ccfd20fcac07dc0ebcf17">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IReaction.java
</a>
</li>
<li class="file-stats">
<a href="#a121fb42c69e97c36aa4973f8c398aa8d2957b26">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IReactionScheme.java
</a>
</li>
<li class="file-stats">
<a href="#89c2e7879a389af409cfefa78d94442d5b3d6dab">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IReactionSet.java
</a>
</li>
<li class="file-stats">
<a href="#9879325bf3e94efbeaaa6304ce8d00be52de559c">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IRing.java
</a>
</li>
<li class="file-stats">
<a href="#285d84f2aa2ee1c34768484c1ec56e3e049b72de">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IRingSet.java
</a>
</li>
<li class="file-stats">
<a href="#b040e303a68e2d91611114f2b15746f34cf59f53">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ISetting.java
</a>
</li>
<li class="file-stats">
<a href="#0b3916f21e1045a4d8155a4321f823ef5b2df925">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ISingleElectron.java
</a>
</li>
<li class="file-stats">
<a href="#cecc3e68fcf4186c26509b1335deacce4556ef4e">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IStereoElement.java
</a>
</li>
<li class="file-stats">
<a href="#8666f6c6e790f7b428594a41d88e73183f7ce6d1">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/IStrand.java
</a>
</li>
<li class="file-stats">
<a href="#960cdd1d216e0e543474de0dfa3237a6c6351fd9">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ISubstance.java
</a>
</li>
<li class="file-stats">
<a href="#dfd54d4a984365d6465c208abac6daa0190fdebf">
base/interfaces/src/main/java/org/openscience/cdk/interfaces/ITetrahedralChirality.java
</a>
</li>
<li class="file-stats">
<a href="#55dae1485a13ac3930b92d6b29166a8752dfef66">
base/interfaces/src/main/java/org/openscience/cdk/io/DefaultChemObjectReaderErrorHandler.java
</a>
</li>
<li class="file-stats">
<a href="#97bd72d55dded89cc31613fe970edfc9e1cd5d9f">
base/interfaces/src/main/java/org/openscience/cdk/io/IChemObjectIO.java
</a>
</li>
<li class="file-stats">
<a href="#3ba71c4e8f574ef187318d1df08093a4f4d1f202">
base/interfaces/src/main/java/org/openscience/cdk/io/IChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#45657b907fc8597b1358ce326f264cf09e128b25">
base/interfaces/src/main/java/org/openscience/cdk/io/IChemObjectReaderErrorHandler.java
</a>
</li>
<li class="file-stats">
<a href="#9f94058f78bb2271b5e37efdadb7e854172823a8">
base/interfaces/src/main/java/org/openscience/cdk/io/IChemObjectWriter.java
</a>
</li>
<li class="file-stats">
<a href="#e873a18f0d9c1efdc5c3c355eeb1b7ad73003be7">
base/interfaces/src/main/java/org/openscience/cdk/io/ISimpleChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#28e1b3b93e1c3376765b05fdf5ebbe0a5da20ab0">
base/interfaces/src/main/java/org/openscience/cdk/io/ReaderEvent.java
</a>
</li>
<li class="file-stats">
<a href="#0bdec5dfa9e94ba6ac8227e961895deac30236d9">
base/interfaces/src/main/java/org/openscience/cdk/io/formats/IChemFormat.java
</a>
</li>
<li class="file-stats">
<a href="#cbac01de8771f1986d6f6bca5b910cef499ef901">
base/interfaces/src/main/java/org/openscience/cdk/io/formats/IChemFormatMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#db5fd9fac599d5251e17fb76ed0f3bb9740092ba">
base/interfaces/src/main/java/org/openscience/cdk/io/formats/IResourceFormat.java
</a>
</li>
<li class="file-stats">
<a href="#03c34895584eb95cd67fae796846cd303ed59689">
base/interfaces/src/main/java/org/openscience/cdk/io/iterator/IIteratingChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#dda4768156e1f0583c0dc3f32e0cd3f80f53691c">
base/interfaces/src/main/java/org/openscience/cdk/io/iterator/event/IEventChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#88e3665655f0f06e43b7e354e505ff74dbc03bd3">
base/interfaces/src/main/java/org/openscience/cdk/io/listener/IChemObjectIOListener.java
</a>
</li>
<li class="file-stats">
<a href="#ccb2c2e5f71e3307c15baab1165e49053d22f025">
base/interfaces/src/main/java/org/openscience/cdk/io/listener/IReaderListener.java
</a>
</li>
<li class="file-stats">
<a href="#f43de752ded4bf8a1a0dca90237c21f120606fbe">
base/interfaces/src/main/java/org/openscience/cdk/io/listener/IWriterListener.java
</a>
</li>
<li class="file-stats">
<a href="#d32b98009e422e100bc6ace30fabb3df5017dec4">
base/interfaces/src/main/java/org/openscience/cdk/io/listener/PropertiesListener.java
</a>
</li>
<li class="file-stats">
<a href="#cf5f89bbd9122785657a3387d8ccd071ba1fab98">
base/interfaces/src/main/java/org/openscience/cdk/io/random/IRandomAccessChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#dc9aa3dfda1f83d5ffc5c0bd824435fe9dffc39e">
base/interfaces/src/main/java/org/openscience/cdk/io/setting/IOSetting.java
</a>
</li>
<li class="file-stats">
<a href="#107cc217d18bc573f9b2fdddf0a1ae3409b34598">
base/interfaces/src/main/java/org/openscience/cdk/isomorphism/matchers/IQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#37ff1082d087977e49b679c57f3bdaef471eaa1f">
base/interfaces/src/main/java/org/openscience/cdk/isomorphism/matchers/IQueryAtomContainer.java
</a>
</li>
<li class="file-stats">
<a href="#dc89af367a15e188a99f7fa8b121be4eeee261f8">
base/interfaces/src/main/java/org/openscience/cdk/isomorphism/matchers/IQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#139dab174fc40cbc5f11c7ddf3ab6c342111e64c">
base/interfaces/src/main/java/org/openscience/cdk/isomorphism/matchers/IRGroupQuery.java
</a>
</li>
<li class="file-stats">
<a href="#4ebefb881c4044a2cdfcab355abf040443f2abf3">
base/interfaces/src/main/java/org/openscience/cdk/libio/cml/ICMLCustomizer.java
</a>
</li>
<li class="file-stats">
<a href="#0904d8c906791bedad8e0d92cac448ea4ec6caf1">
base/interfaces/src/main/java/org/openscience/cdk/qsar/IDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#bbf1fc501734120f1b305794f2fc27ed39b24f88">
base/interfaces/src/main/java/org/openscience/cdk/qsar/result/IDescriptorResult.java
</a>
</li>
<li class="file-stats">
<a href="#4b5d0b28acd911f6cd3894c0e2e8d97221c7d7da">
base/interfaces/src/main/java/org/openscience/cdk/tools/ILoggingTool.java
</a>
</li>
<li class="file-stats">
<a href="#9b6463d35c3f657fd2854bfd1562877e4c48f0c7">
base/interfaces/src/main/java/org/openscience/cdk/tools/LoggingToolFactory.java
</a>
</li>
<li class="file-stats">
<a href="#a5e1f3fb745d1b8266fd9d55e821a7013ed23d3e">
base/interfaces/src/main/java/org/openscience/cdk/tools/StdErrLogger.java
</a>
</li>
<li class="file-stats">
<a href="#388edce8df89f51c32038766e360aea0f1d4af3e">
base/test-core/src/test/java/org/openscience/cdk/exception/CDKExceptionTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/exception/CDKExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#4ef721a139fe19ed31fe8b1f2e190d6ec1466a38">
base/test-core/src/test/java/org/openscience/cdk/exception/IntractableTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/exception/IntractableTest.java
</a>
</li>
<li class="file-stats">
<a href="#be766122a0f8355cc03f706d4146509715dd554e">
base/test-core/src/test/java/org/openscience/cdk/exception/NoSuchAtomExceptionTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/exception/NoSuchAtomExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#45988fd25c32b179dc74f7d3a1bbf34c2a478360">
base/test-core/src/test/java/org/openscience/cdk/exception/NoSuchAtomTypeExceptionTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/exception/NoSuchAtomTypeExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#7366e105e9786e1b3bc231cdc8edf25cd94e37a5">
<span class="new-file">
+
base/interfaces/src/test/java/org/openscience/cdk/exception/NoSuchBondExceptionTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#d80b62ed232e89a019a589d5b2e4012fc750edda">
base/test-standard/src/test/java/org/openscience/cdk/exception/UnsupportedChemObjectExceptionTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/exception/UnsupportedChemObjectExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#41b7fb0a539218b1b95cf398256b41153009b641">
base/test-core/src/test/java/org/openscience/cdk/tools/LoggingToolFactoryTest.java
→
base/interfaces/src/test/java/org/openscience/cdk/tools/LoggingToolFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#4ecbcbb96e83775faa6e9825222824472bcf7a3d">
<span class="new-file">
+
base/interfaces/src/test/java/org/openscience/cdk/tools/StdErrLoggerTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#0e6f4d12ce3629b14838bb090c670f263ab1c1ca">
base/isomorphism/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#44b27f95de57c2d6ee5133c68c48cb4de1371b2f">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/AbstractVFState.java
</a>
</li>
<li class="file-stats">
<a href="#ab84fe8acfd766940bb53df172e893a8a62cd87a">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/AtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#33f6315dece365408197541f00d78477448e62af">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/BondMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#64ad891fe19038b65e191d911ad11db80d7893a3">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/CompatibilityMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#dfe28850723efac06ee261f948626675657539ba">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/ComponentFilter.java
</a>
</li>
<li class="file-stats">
<a href="#65267011e62bda5b2a76f092b25f3c4cd012b9a7">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/ExclusiveAtomMatches.java
</a>
</li>
<li class="file-stats">
<a href="#4b390e9f2b76b70af0ad4d5db626e7df46c712cf">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/Mappings.java
</a>
</li>
<li class="file-stats">
<a href="#bdee6f560784a46cec0ca19328c55ee86e7ad2a4">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/Pattern.java
</a>
</li>
<li class="file-stats">
<a href="#9ebad7ed3323603dc1b479ee9abbb5dd1bc2fafa">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/QueryStereoFilter.java
</a>
</li>
<li class="file-stats">
<a href="#9ecd5a1c5cf786297a8ef33409c6bc6461492d14">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/State.java
</a>
</li>
<li class="file-stats">
<a href="#851c96c181aa9c267aa37fa7494de532d0a7a2d9">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/StateStream.java
</a>
</li>
<li class="file-stats">
<a href="#b4daea526d46e6f15316b549946fa1331bfe170f">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/StereoMatch.java
</a>
</li>
<li class="file-stats">
<a href="#b498432396ca0bd07d69942769e49120bee749d4">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/TransformOp.java
</a>
</li>
<li class="file-stats">
<a href="#86ebf5492ec9dcc695c8a78f6365168dbcce96cf">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/Ullmann.java
</a>
</li>
<li class="file-stats">
<a href="#97fa7d864095e8f648ccf9c62895ad302497b696">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/UllmannState.java
</a>
</li>
<li class="file-stats">
<a href="#b67b6265ed40cafe52b32216f8fb3569f410d105">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/UniqueAtomMatches.java
</a>
</li>
<li class="file-stats">
<a href="#7d0011011abbe050052c65f866e6cfffb930523d">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/UniqueBondMatches.java
</a>
</li>
<li class="file-stats">
<a href="#c6e5a4b4d384226ccb82eb149d704d20c9c62709">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/VFState.java
</a>
</li>
<li class="file-stats">
<a href="#ced0730767fefbeffff77f57f0d2fcd8270e2532">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/VFSubState.java
</a>
</li>
<li class="file-stats">
<a href="#a79240be4453d94efedbc9471317421c2b61bab6">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/VentoFoggia.java
</a>
</li>
<li class="file-stats">
<a href="#b2c64dc0ce68f10343368d60459227ad711f2412">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/QueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#44c5d89e9e76427fd6120d06133bd55753fa0866">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/QueryAtomContainer.java
</a>
</li>
<li class="file-stats">
<a href="#dff19d8a3075356419b85f1aae652cf3d3fff9d8">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/QueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#69004f78e1a9aa907f80a8c38f19e4d63fbc415e">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/QueryChemObject.java
</a>
</li>
<li class="file-stats">
<a href="#2fbf7def124924a427e9bc68a659565ce978ad35">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/RGroup.java
</a>
</li>
<li class="file-stats">
<a href="#29a55347c92c59c0119c4b39eadea754597080ea">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/RGroupList.java
</a>
</li>
<li class="file-stats">
<a href="#c67b38656a3069901e52d7f6fd6f91e32196deb7">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/RGroupQuery.java
</a>
</li>
<li class="file-stats">
<a href="#801227c43e76b50f87fb66313dad8a2888ef0a1e">
base/isomorphism/src/main/java/org/openscience/cdk/isomorphism/matchers/SymbolChargeIDQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#2af0f45252fcf19f459fe581555d460de6305cb9">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/AbstractVFStateTest.java
</a>
</li>
<li class="file-stats">
<a href="#756f461f166cb5c1a3fda68addfc76476b120788">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/AtomMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#d9e851dc11e13d39ddeef662c24a14bc2fe5b342">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/BondMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#c1e78cd28753a61434981d80c32fb1ed35929c7d">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/CompatibilityMatrixTest.java
</a>
</li>
<li class="file-stats">
<a href="#6689581567eb621e1ac3d424bdc08c76a4c350e4">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/ComponentGroupingTest.java
</a>
</li>
<li class="file-stats">
<a href="#babc0d7514fb21ce032af9982dac7ab9b807871d">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/StateStreamTest.java
</a>
</li>
<li class="file-stats">
<a href="#e2d5b11f6ea03936788420c11143dc3edb56c752">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/StereoMatchTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca1da6a0768099956a7cbd3196d39cea24ee1d0e">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/UllmannStateTest.java
</a>
</li>
<li class="file-stats">
<a href="#65bc7a3a83d5a81625e26678ca4052a9b8e7a420">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/UllmannTest.java
</a>
</li>
<li class="file-stats">
<a href="#e56d7aafc14e2494adea99d39af410900a9a17ca">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/VFStateTest.java
</a>
</li>
<li class="file-stats">
<a href="#b3f5eb9b0105177ada7013772c97960ee02b6ce7">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/VFSubStateTest.java
</a>
</li>
<li class="file-stats">
<a href="#ff8fa7c13306a67b19213bb7d01a087f3eb75eb6">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/VentoFoggiaTest.java
</a>
</li>
<li class="file-stats">
<a href="#060a94e60f62e4024e37e870d0944ba218e2879f">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/matchers/QueryAtomContainerCreatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#25a9038bd416dc95fd3887deedc490327c0486c9">
base/isomorphism/src/test/java/org/openscience/cdk/isomorphism/matchers/RGroupListTest.java
</a>
</li>
<li class="file-stats">
<a href="#6938ebfea762ce0c7ba0c2da2004eb53baa6e9a4">
base/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#7d71bcee8fc1ebbee9d696848880cebc58fe715c">
base/reaction/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#07373b65b8be2894e04bc6780c16616de5f8142f">
base/reaction/src/main/java/org/openscience/cdk/graph/invariant/ConjugatedPiSystemsDetector.java
</a>
</li>
<li class="file-stats">
<a href="#f0e9b406d1b6040c67e0521560998b934c738382">
base/reaction/src/main/java/org/openscience/cdk/reaction/IReactionMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#7144366626aa2cdb4b4c1312cc7dda8178ca8edc">
base/reaction/src/main/java/org/openscience/cdk/reaction/IReactionProcess.java
</a>
</li>
<li class="file-stats">
<a href="#6ef0cef03caf1616b0018c33d511b49526879e6e">
base/reaction/src/main/java/org/openscience/cdk/reaction/ReactionEngine.java
</a>
</li>
<li class="file-stats">
<a href="#31247533974ace0a926730b7bff3961a12db02b6">
base/reaction/src/main/java/org/openscience/cdk/reaction/ReactionSpecification.java
</a>
</li>
<li class="file-stats">
<a href="#609a6964d0dcb7a1dc0db693a51bcaa20a91bd52">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/AdductionLPMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#6a4129caa1edd0a01b3899b99ab289ddef5aedde">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/AdductionPBMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#de4315683259a323b65b26b8817a53a26c96f68d">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/HeterolyticCleavageMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#713d620ed5211677423c168e478f9d98e1580e63">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/HomolyticCleavageMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#1a141231a0d8d61c6c79b670bebcfcf04770570d">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/RadicalSiteIonizationMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#5c3b6eb9769d06f68280bca6fb326cb0763ea716">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/RadicalSiteRearrangementMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#f66263e72ead87a23799854e5a497e206f3f7289">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/RearrangementChargeMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#a5081296e3dbe48cedfa682317c918ca51298b3d">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/RemovingSEofBMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#5cde3eb39d11db5f00043a26c1732739511e396d">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/RemovingSEofNBMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#24b0f4cf35c70dbabc35fa7e681da9eff2039b11">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/SharingElectronMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#ce27bdc7859865e4a57bd883ce8d5e453919e1f8">
base/reaction/src/main/java/org/openscience/cdk/reaction/mechanism/TautomerizationMechanism.java
</a>
</li>
<li class="file-stats">
<a href="#4baee8fb06fa295de252c5bc5e1df9895731912b">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/AdductionProtonLPReaction.java
</a>
</li>
<li class="file-stats">
<a href="#4b2e4ab5c72d6fd81fe425752a7e5c24ec43b49c">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/AdductionProtonPBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#79b4c9bb8e968bc7c680d2b046c76ede048f4d89">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/AdductionSodiumLPReaction.java
</a>
</li>
<li class="file-stats">
<a href="#ff03495b461030b65e3f3d7876c92b9787803491">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/CarbonylEliminationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#fbd4a224e715f6d9fed5a79316ecb37e45e6a601">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/ElectronImpactNBEReaction.java
</a>
</li>
<li class="file-stats">
<a href="#fa12cedd7e8bd023e3ea8eda9e8ca6504279b66c">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/ElectronImpactPDBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#78d23076bbfab9e0e6e4cbac06d700c325c8bce2">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/ElectronImpactSDBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#5bd13250e9a97d69828b407fcf4d6c68566f83b3">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/HeterolyticCleavagePBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#9ab61ced4d869d207ba62d73bfd88eb3525fff13">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/HeterolyticCleavageSBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#5003879d9cd634f7693a2d17dd0ac7fdbd6bc99a">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/HomolyticCleavageReaction.java
</a>
</li>
<li class="file-stats">
<a href="#5dfbf5d428af15ba512b07d3ef400d0e635f2917">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/HyperconjugationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#e97143f34e6dae02dfa6673dc3856775084989e5">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/PiBondingMovementReaction.java
</a>
</li>
<li class="file-stats">
<a href="#1df3b6a7e7090d23786b2ba5a45d3f107b591136">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalChargeSiteInitiationHReaction.java
</a>
</li>
<li class="file-stats">
<a href="#41710186cdb6538459e90265dee79bcc8d8e68b5">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalChargeSiteInitiationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#748da597d1ed35c95317c2f6b84334958732febc">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteHrAlphaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#9a0e1f774adc4ce8b647af1bb1e8b760038b8a9a">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteHrBetaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#664ef250f1ee7ee25fc8b036b30c62886812b0c2">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteHrDeltaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#332c499165124977ad0d245a83d87bea1a429eb3">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteHrGammaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#1ae4aae9e2706f311724e4ad8dec89a7c53679c0">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteInitiationHReaction.java
</a>
</li>
<li class="file-stats">
<a href="#1c9de35e5e39831c2b17cbd7e6a2c2d355b492b7">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteInitiationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#094b19cb9074e93756c5071a8a3c79ffbff4220f">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteRrAlphaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#34616bcf0790fd889e48bbb252eaa92373b8a963">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteRrBetaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#b1e5e0009380d807ea2dd626b26629fa67eb013a">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteRrDeltaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#4a63e1ea36d950d820a80910417828aa01e3fa1f">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RadicalSiteRrGammaReaction.java
</a>
</li>
<li class="file-stats">
<a href="#b525b61411d9f2d7792d7a3625f9951594b57e60">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RearrangementAnionReaction.java
</a>
</li>
<li class="file-stats">
<a href="#2c04629377e53244aee880af6c95ead57a104c5f">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RearrangementCationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#08bf367bd77afb270fd953da16bed28af9ef7c3e">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RearrangementLonePairReaction.java
</a>
</li>
<li class="file-stats">
<a href="#e6f1d9de6b640113f36481cc6d9f4f27f49ffffc">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/RearrangementRadicalReaction.java
</a>
</li>
<li class="file-stats">
<a href="#2388776eb83b485e25c52e1dcd1aafa23e9ffeb7">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/SharingAnionReaction.java
</a>
</li>
<li class="file-stats">
<a href="#1719ba28ab682446ebe1806a7e70a7cbd73b5d7b">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/SharingChargeDBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#42516b8b306bd9143092be084e21d365cf8cd910">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/SharingChargeSBReaction.java
</a>
</li>
<li class="file-stats">
<a href="#4f8a9455f5535f64d48ffa8ed85500efb8a2bc36">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/SharingLonePairReaction.java
</a>
</li>
<li class="file-stats">
<a href="#f69951c3596e00784b171fedfc19db28bbc4487a">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/TautomerizationReaction.java
</a>
</li>
<li class="file-stats">
<a href="#3ecc9011505c35b73dfd1863631646e717a209d1">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/parameters/IParameterReact.java
</a>
</li>
<li class="file-stats">
<a href="#c6fb1036912587f58fa8314105e6c061659a02e7">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/parameters/ParameterReact.java
</a>
</li>
<li class="file-stats">
<a href="#9b43cf35d6a0894f78f3f590d81c82f057ba59de">
base/reaction/src/main/java/org/openscience/cdk/reaction/type/parameters/SetReactionCenter.java
</a>
</li>
<li class="file-stats">
<a href="#61d9312239f9fb98a13284aafbd1f0a92880be35">
base/reaction/src/main/java/org/openscience/cdk/tools/StructureResonanceGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#779787c29aee5e75969eaa41b57f8fd42005d54d">
base/reaction/src/test/java/org/openscience/cdk/atomtype/ReactionStructuresTest.java
</a>
</li>
<li class="file-stats">
<a href="#aa35784fd116faa4ce674e0487d27e49e46ef3dd">
base/reaction/src/test/java/org/openscience/cdk/atomtype/ResonanceStructuresTest.java
</a>
</li>
<li class="file-stats">
<a href="#b42373934bb1182eb06c87a7b088cdf05762c755">
base/reaction/src/test/java/org/openscience/cdk/graph/invariant/ConjugatedPiSystemsDetectorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ab0518d249e69db641355fb50851f37de79ad93c">
base/reaction/src/test/java/org/openscience/cdk/reaction/ReactionEngineTest.java
</a>
</li>
<li class="file-stats">
<a href="#d9f57e94bc6ace0a8d232403a2f7443f5dadf9b4">
base/reaction/src/test/java/org/openscience/cdk/reaction/ReactionMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#67458aaaf62750ff714052d8306e217b4898a8e3">
base/reaction/src/test/java/org/openscience/cdk/reaction/ReactionProcessTest.java
</a>
</li>
<li class="file-stats">
<a href="#da9f0f359c0a5ca5122a8fb26b3d59a4995b408c">
base/reaction/src/test/java/org/openscience/cdk/reaction/ReactionSpecificationTest.java
</a>
</li>
<li class="file-stats">
<a href="#bb09cfb165981313b7d3652d14fab4882668ac9f">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/AdductionLPMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#11cbefa54cba4eb2cc18992c7d4b7e96f1e21e0e">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/AdductionPBMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#f2928eb3d413b592cb65cbfbc9aef4e2255c1749">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/HeterolyticCleavageMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#0cc4da0129a5ca8ae1412186e873a490301ce12e">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/HomolyticCleavageMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#a454970b81e902fb163762d30c7bd9c1c4b933fc">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/RadicalSiteIonizationMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#41f9092717b13a23ccf421d048288fe4ac26470f">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/RadicalSiteRearrangementMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#2ea9383ab70efc9d3d13759785c48a76a2fe1962">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/RearrangementChargeMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#4f4438a571d354d7d84aedf11e7704ed8b48e926">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/RemovingSEofBMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#455eca9f55f5136f179ed9a0522d5d38e501a421">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/RemovingSEofNBMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#b506ba252de6b20be3f1bff98ea419305a203493">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/SharingElectronMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#a5776019dfa55e6f96a3258351aec33f6885016e">
base/reaction/src/test/java/org/openscience/cdk/reaction/mechanism/TautomerizationMechanismTest.java
</a>
</li>
<li class="file-stats">
<a href="#856cc50c8c838eb7f84d6a70d593bb295fca6c42">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/AdductionProtonLPReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#a42a639eb6869dde774fba47a34e722ab92ac2af">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/AdductionProtonPBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#bb99085a311c2f1b23033cc73acf31f8f109e79c">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/AdductionSodiumLPReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc8125384852c6a250b38e0f22b0b996130ed120">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/CarbonylEliminationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#27f0607674fe34d89f28e72ad5145fe4782aede2">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/ElectronImpactNBEReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#6d5771849debd00b24b85be1fa48638a28e86498">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/ElectronImpactPDBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#4f5e8d12304f5ad3c3c15c3f6bd2e63ce024d06c">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/ElectronImpactSDBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#2899f8b5df7bdd1ba01313d9c9f8660cd290c348">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/HeterolyticCleavagePBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#33aa119a55dbd92646396cb533eea736643f7522">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/HeterolyticCleavageSBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#e03055477d87a908c76cee1fb21e286c1fa1ec1b">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/HomolyticCleavageReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#035c33c3da8d24846277e94bbc3dcc1f4c4234a8">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/HyperconjugationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#fba51d1a37b9a875438830f31d651c81b4ced2a7">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/PiBondingMovementReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#e4a1e560e42d230522654f5c038c00c0f39190a3">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalChargeSiteInitiationHReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#5d20389adf87187b80129c07e8272287395a0313">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalChargeSiteInitiationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#f7463d6ada9c7f34d7e06d813e84f584fba7984d">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteHrAlphaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#eb06b5011422ff0ddfbcfcc1c22c735a363c0060">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteHrBetaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#b00a1435152b24c5c06112da439947cdb4d99de3">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteHrDeltaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#8c6f378a7ab176281d49c7f1ef3fe10897be5e99">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteHrGammaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#d22c4ffc0ee14e7e6beece9f6e848fe505f9e1c8">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteInitiationHReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#f948671126d2f4f8b3006e89b242cf57a35d523a">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteInitiationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#591d9a721aa7c9d57ffdeb98d19281484023aaea">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteRrAlphaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#c41cf1681dfdd271a7a77cb10cf87ee0fd8cd35e">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteRrBetaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#c968cb46cf378dda5f7eab4df946f5d433a3b711">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteRrDeltaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#257f6cc500c3e72d120a02c1f585a9b686d5d8f8">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RadicalSiteRrGammaReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#a5ca8c4b0a3f6e9143f8b318e2fea157369da0e8">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RearrangementAnionReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#effcb520a980743b245abe80d1b72322c60b40de">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RearrangementCationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#05bfc0a8e3f626382bc1b8e00713d98814445692">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RearrangementLonePairReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#d8e08f34d879fc6a3aaf47dbce5f3f79207d7df1">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/RearrangementRadicalReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f56989ac31af92acffe68c0d8b1a369aabcf27a">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/SharingAnionReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#aa390698a9fbbf9dabc529679fc80faba53d4fe2">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/SharingChargeDBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#7a337ce15bfd02a5cb6480fb23766e650b6259c4">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/SharingChargeSBReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#bf5e8e992f73e7962f73244c45dafaebd0e441bd">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/SharingLonePairReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#f4c16268941c0bb7d559baa800bd3d8231d2a4b2">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/TautomerizationReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#4a6ca098d7d94cbcf15c042222627ab0337ae3f2">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/parameters/ParameterReactTest.java
</a>
</li>
<li class="file-stats">
<a href="#cc0d41d440545869059c26afc15ea336a09a960e">
base/reaction/src/test/java/org/openscience/cdk/reaction/type/parameters/SetReactionCenterTest.java
</a>
</li>
<li class="file-stats">
<a href="#50c15c464d04ce5dce1b5ddd6ad1ee56dd61ea4f">
base/reaction/src/test/java/org/openscience/cdk/tools/StructureResonanceGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d68129af454758d0db90f2d2a228efd18b0f1061">
base/silent/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#b0eddc90f9fabb54d11553c003a913a112760c76">
base/silent/src/main/java/org/openscience/cdk/silent/AdductFormula.java
</a>
</li>
<li class="file-stats">
<a href="#e5bcdb7c5a88a5ddedf55c1d5a5a3007855819e0">
base/silent/src/main/java/org/openscience/cdk/silent/AminoAcid.java
</a>
</li>
<li class="file-stats">
<a href="#ec558398990e22d6965f2533caae702077eeaa99">
base/silent/src/main/java/org/openscience/cdk/silent/Atom.java
</a>
</li>
<li class="file-stats">
<a href="#bb4675409d4ce3627dff9f6f0e679748c2c6e7d9">
base/silent/src/main/java/org/openscience/cdk/silent/AtomContainerLegacy.java
</a>
</li>
<li class="file-stats">
<a href="#3da48a3a2c894821d425eb4c9cff6be62036fc06">
base/silent/src/main/java/org/openscience/cdk/silent/AtomContainerSet.java
</a>
</li>
<li class="file-stats">
<a href="#2f46fd8eaedc43fbcbfbd0e08f3eac4c68aa0a7c">
base/silent/src/main/java/org/openscience/cdk/silent/AtomType.java
</a>
</li>
<li class="file-stats">
<a href="#3369b48bd916643a6f464d8f1da837f2e415a70a">
base/silent/src/main/java/org/openscience/cdk/silent/BioPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#5c4d43f247a92ef0f4a52bca2f0fd423ec5dc3bf">
base/silent/src/main/java/org/openscience/cdk/silent/Bond.java
</a>
</li>
<li class="file-stats">
<a href="#2b52f39dfc30a0e0471216481c7573773adf81d4">
base/silent/src/main/java/org/openscience/cdk/silent/ChemFile.java
</a>
</li>
<li class="file-stats">
<a href="#9155265d657fe5a47ed9a274600c39302c6084d6">
base/silent/src/main/java/org/openscience/cdk/silent/ChemModel.java
</a>
</li>
<li class="file-stats">
<a href="#005a067d4f3be9560905017e0795c8bf37dd4205">
base/silent/src/main/java/org/openscience/cdk/silent/ChemObject.java
</a>
</li>
<li class="file-stats">
<a href="#ae41397b7ae8eee491f9b893580a7571648d44cc">
base/silent/src/main/java/org/openscience/cdk/silent/ChemSequence.java
</a>
</li>
<li class="file-stats">
<a href="#6ffc3ae71acb938d5268d22081343ae5d6023943">
base/silent/src/main/java/org/openscience/cdk/silent/Crystal.java
</a>
</li>
<li class="file-stats">
<a href="#bd33d85d74c1c77607e5df5ecfc78a9e0b212e64">
base/silent/src/main/java/org/openscience/cdk/silent/ElectronContainer.java
</a>
</li>
<li class="file-stats">
<a href="#add096855804d67028feeb5ae204ad5e26fccf5c">
base/silent/src/main/java/org/openscience/cdk/silent/Element.java
</a>
</li>
<li class="file-stats">
<a href="#7f730e0704be4766b2f7cfb7d4452e5f28b2fd84">
base/silent/src/main/java/org/openscience/cdk/silent/FragmentAtom.java
</a>
</li>
<li class="file-stats">
<a href="#d527c722c857332257d6442fb791bcd5ef9988b3">
base/silent/src/main/java/org/openscience/cdk/silent/Isotope.java
</a>
</li>
<li class="file-stats">
<a href="#4146d6dab3da21270ab09f4bb8529bae48a6ba53">
base/silent/src/main/java/org/openscience/cdk/silent/LonePair.java
</a>
</li>
<li class="file-stats">
<a href="#0499c23997a5dd7fa0d220d8eecf065828011f0a">
base/silent/src/main/java/org/openscience/cdk/silent/Mapping.java
</a>
</li>
<li class="file-stats">
<a href="#ef935ea343b05b6db8c9e198a11877cc590116b9">
base/silent/src/main/java/org/openscience/cdk/silent/MolecularFormula.java
</a>
</li>
<li class="file-stats">
<a href="#9317db7d0bf0e82564f092c399a04b84735d0b16">
base/silent/src/main/java/org/openscience/cdk/silent/MolecularFormulaSet.java
</a>
</li>
<li class="file-stats">
<a href="#6f59105d517fb6e72194e48b2888dd653d2191fa">
base/silent/src/main/java/org/openscience/cdk/silent/Monomer.java
</a>
</li>
<li class="file-stats">
<a href="#9567a0a315847296638f2969f953b593164cc0e1">
base/silent/src/main/java/org/openscience/cdk/silent/PDBAtom.java
</a>
</li>
<li class="file-stats">
<a href="#b9d6254766b4edcb12afd29d7c5d76817251d45f">
base/silent/src/main/java/org/openscience/cdk/silent/PDBMonomer.java
</a>
</li>
<li class="file-stats">
<a href="#9ba12c0391623e362f60d17162de8ee4ed8f8ef3">
base/silent/src/main/java/org/openscience/cdk/silent/PDBPolymer.java
</a>
</li>
<li class="file-stats">
<a href="#c5743108dc4ed3c743d2a99db7e0550d33dfcc94">
base/silent/src/main/java/org/openscience/cdk/silent/PDBStructure.java
</a>
</li>
<li class="file-stats">
<a href="#32713f81825a764ec5c3f22a1c33a359134189fd">
base/silent/src/main/java/org/openscience/cdk/silent/Polymer.java
</a>
</li>
<li class="file-stats">
<a href="#a97622ffc98c852209390e6e2aad1950dbd0c29c">
base/silent/src/main/java/org/openscience/cdk/silent/PseudoAtom.java
</a>
</li>
<li class="file-stats">
<a href="#23485e73776b4c6fce9c11258d1d93ca1b88fb50">
base/silent/src/main/java/org/openscience/cdk/silent/Reaction.java
</a>
</li>
<li class="file-stats">
<a href="#b130562bb5cb4d77efd0b8c3236566b9b137f750">
base/silent/src/main/java/org/openscience/cdk/silent/ReactionScheme.java
</a>
</li>
<li class="file-stats">
<a href="#49c16dd3a45f56f5e4683cb75dfd850480419cd5">
base/silent/src/main/java/org/openscience/cdk/silent/ReactionSet.java
</a>
</li>
<li class="file-stats">
<a href="#f3b1ff6c04f45bba0121cc1b2afcca253caab140">
base/silent/src/main/java/org/openscience/cdk/silent/Ring.java
</a>
</li>
<li class="file-stats">
<a href="#9b2a90e5fe2e1878a150ba6130bff8fb93dcaeac">
base/silent/src/main/java/org/openscience/cdk/silent/RingSet.java
</a>
</li>
<li class="file-stats">
<a href="#3ae8c4be00e764b338823e81a359aaab8ee5f40e">
base/silent/src/main/java/org/openscience/cdk/silent/SilentChemObjectBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#2f31dff59d32fbcef841500174a724c6fcf0dfa9">
base/silent/src/main/java/org/openscience/cdk/silent/SingleElectron.java
</a>
</li>
<li class="file-stats">
<a href="#b51f35a49d553873ee19dcfd88e8fe9874e28bf4">
base/silent/src/main/java/org/openscience/cdk/silent/Strand.java
</a>
</li>
<li class="file-stats">
<a href="#3c23aff63e540bfd6ecbd4e3ac39389eee3fee98">
base/silent/src/main/java/org/openscience/cdk/silent/Substance.java
</a>
</li>
<li class="file-stats">
<a href="#42b380279e13d7db3582069bba743507060a21f3">
base/silent/src/test/java/org/openscience/cdk/silent/AdductFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#dc2d3afa741b21fe7e1696692582af11bbb450a9">
base/silent/src/test/java/org/openscience/cdk/silent/AminoAcidTest.java
</a>
</li>
<li class="file-stats">
<a href="#ba6fac0933406772e78c02f4888562e89f67938f">
base/silent/src/test/java/org/openscience/cdk/silent/AtomContainer2Test.java
</a>
</li>
<li class="file-stats">
<a href="#a52156b80bf421a2c361a754737c50ead2e7b096">
base/silent/src/test/java/org/openscience/cdk/silent/AtomContainerSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#b8d55db7c1e8713801cdeeb8a52c88affa8252ec">
base/silent/src/test/java/org/openscience/cdk/silent/AtomContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a4c7a931f48acb9d143fa19016c3c4552efa282e">
base/silent/src/test/java/org/openscience/cdk/silent/AtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#08aa6faf55f238dfebcc6a7a11c910e719e4542c">
base/silent/src/test/java/org/openscience/cdk/silent/AtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#3161777bc51caab6b485e9886f1c82aa1e9ebeff">
base/silent/src/test/java/org/openscience/cdk/silent/BioPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#b10b99263524d94a0615eb40c9d53bd97ffea294">
base/silent/src/test/java/org/openscience/cdk/silent/BondTest.java
</a>
</li>
<li class="file-stats">
<a href="#effccebfbf8c93dcab38f77d2c375591952dbc74">
base/silent/src/test/java/org/openscience/cdk/silent/ChemFileTest.java
</a>
</li>
<li class="file-stats">
<a href="#b5baac3b5ca809d8d73f2c67f49a44be3c9def1e">
base/silent/src/test/java/org/openscience/cdk/silent/ChemModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#29db7ff67c8e775f764e55e34240f56fca69e9d2">
base/silent/src/test/java/org/openscience/cdk/silent/ChemObjectListener.java
</a>
</li>
<li class="file-stats">
<a href="#e9798e544a5b0d65ad8ae9fe2afcdbcbf60e748b">
base/silent/src/test/java/org/openscience/cdk/silent/ChemObjectTest.java
</a>
</li>
<li class="file-stats">
<a href="#f0c7768b141f8ae166e187fcd8644a5cb5540c73">
base/silent/src/test/java/org/openscience/cdk/silent/ChemObjectTestHelper.java
</a>
</li>
<li class="file-stats">
<a href="#6391d2d8170d0ba1972eef5b496bbc523c836394">
base/silent/src/test/java/org/openscience/cdk/silent/ChemSequenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#a8d9913b3432d19e4c4dd560d7c0704f38a65b0b">
base/silent/src/test/java/org/openscience/cdk/silent/CrystalTest.java
</a>
</li>
<li class="file-stats">
<a href="#42d19b242973061166afbc1d4e9208f9a3e96733">
base/silent/src/test/java/org/openscience/cdk/silent/ElectronContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#5be33043e77fecc342c5b376704950abc1c75abe">
base/silent/src/test/java/org/openscience/cdk/silent/ElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#37c8d3ea5b8f267ccd0786d9be0a1e472ca95266">
base/silent/src/test/java/org/openscience/cdk/silent/FragmentAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#d8b59b839dc0e9cd36c3937a52b20a767ea290d2">
base/silent/src/test/java/org/openscience/cdk/silent/IsotopeTest.java
</a>
</li>
<li class="file-stats">
<a href="#62439644c96eb76f40a1fc1a5d8e23e951c54338">
base/silent/src/test/java/org/openscience/cdk/silent/LonePairTest.java
</a>
</li>
<li class="file-stats">
<a href="#12e7cab0b83045fd331ec9b3eebf71d5f5bb15f0">
base/silent/src/test/java/org/openscience/cdk/silent/MappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#76f37ff0f83a16597b209ef3d230bee6331a2e51">
base/silent/src/test/java/org/openscience/cdk/silent/MolecularFormulaSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#52a4459070ddb6dad39e4e177250b0855e887f48">
base/silent/src/test/java/org/openscience/cdk/silent/MolecularFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#41c651cf6a534c10e6d185ee6a77a4271128ece9">
base/silent/src/test/java/org/openscience/cdk/silent/MonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#579c3bcb7b6410eceb85c39e90487e7686554428">
base/silent/src/test/java/org/openscience/cdk/silent/PDBAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#1f81150f06ddd1ff51bda41574303c141e1a8180">
base/silent/src/test/java/org/openscience/cdk/silent/PDBMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#4b82c6ba6bcb29e53ace06029c46fdccca972343">
base/silent/src/test/java/org/openscience/cdk/silent/PDBPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#c1001f961d1c032afec3b454bc0763f3cd944d44">
base/silent/src/test/java/org/openscience/cdk/silent/PDBStructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#3925d122a28de5ea187ee97da579d8f2f7028948">
base/silent/src/test/java/org/openscience/cdk/silent/PolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#2f260f1be56c11cc8656ac1f620152617a127fd4">
base/silent/src/test/java/org/openscience/cdk/silent/PseudoAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#5cb0cc0cae7b91c41afd40c49c9035c0819ed88e">
base/silent/src/test/java/org/openscience/cdk/silent/ReactionSchemeTest.java
</a>
</li>
<li class="file-stats">
<a href="#c4008f4c30d0d9326462452d8814532b54aa19d6">
base/silent/src/test/java/org/openscience/cdk/silent/ReactionSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#dd301ccca3e0e62558c6411aca4c464f24cb67d9">
base/silent/src/test/java/org/openscience/cdk/silent/ReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#0d6294c28539dca1358f2e792d377f3af958f398">
base/silent/src/test/java/org/openscience/cdk/silent/RingSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#16891f499642be2c335c808975f4dd0a53651b48">
base/silent/src/test/java/org/openscience/cdk/silent/RingTest.java
</a>
</li>
<li class="file-stats">
<a href="#e27750c4c81aa764562082a03e00fc5f3596b605">
base/silent/src/test/java/org/openscience/cdk/silent/SilentChemObjectBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#ed0c7db7fecd56bdc950d0fbc73901d36e79f1b9">
base/silent/src/test/java/org/openscience/cdk/silent/SingleElectronTest.java
</a>
</li>
<li class="file-stats">
<a href="#e22e613d6cc45b6146d0208429d0cadf31b0c96b">
base/silent/src/test/java/org/openscience/cdk/silent/StrandTest.java
</a>
</li>
<li class="file-stats">
<a href="#bebd1aebda9b20a175b1a4a76b21516f0c8b930c">
base/silent/src/test/java/org/openscience/cdk/silent/SubstanceTest.java
</a>
</li>
<li class="file-stats">
<a href="#a09a045c1956e0b9cb3c4cceff8826463755cc47">
base/standard/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ae215104dc3453477130464860e7093e9ca39eb4">
base/standard/src/main/java/org/openscience/cdk/aromaticity/AromaticTypeModel.java
</a>
</li>
<li class="file-stats">
<a href="#737697edae986cabc3da943cab5a06bdfb8496bf">
base/standard/src/main/java/org/openscience/cdk/aromaticity/Aromaticity.java
</a>
</li>
<li class="file-stats">
<a href="#96559205706998ea1435e98d0e1706d1b6a34d6a">
base/standard/src/main/java/org/openscience/cdk/aromaticity/AtomTypeModel.java
</a>
</li>
<li class="file-stats">
<a href="#e82a8b19e8fa5ff49d471e6ff19a3f31ec2478f4">
base/standard/src/main/java/org/openscience/cdk/aromaticity/DaylightModel.java
</a>
</li>
<li class="file-stats">
<a href="#c0f9bf7bd59eb6c04e5b7687064cc2fc9aeac702">
base/standard/src/main/java/org/openscience/cdk/aromaticity/ElectronDonation.java
</a>
</li>
<li class="file-stats">
<a href="#96e2eb393b92ef3c5123b99c9167291132ec507f">
base/standard/src/main/java/org/openscience/cdk/aromaticity/PiBondModel.java
</a>
</li>
<li class="file-stats">
<a href="#b92115b1175a00aded65aa6f7f994ff455da7d52">
base/standard/src/main/java/org/openscience/cdk/event/ICDKSelectionChangeListener.java
</a>
</li>
<li class="file-stats">
<a href="#3f88089c7fd5b6a146709ce27f97da0ea85315a5">
base/standard/src/main/java/org/openscience/cdk/fingerprint/BitSetFingerprint.java
</a>
</li>
<li class="file-stats">
<a href="#e31df2ada71e60f79b065f02d68d80d99b826868">
base/standard/src/main/java/org/openscience/cdk/fingerprint/Fingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#2105a3a84df78a437d91be8fba92335d737c7639">
base/standard/src/main/java/org/openscience/cdk/fingerprint/FingerprinterTool.java
</a>
</li>
<li class="file-stats">
<a href="#93583e1e68cfd7999add82a3ee34fe1409bb3a54">
base/standard/src/main/java/org/openscience/cdk/fingerprint/GraphOnlyFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#3be21b655d77c41efbf7530cd091ddaee3c61b52">
base/standard/src/main/java/org/openscience/cdk/fingerprint/HybridizationFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#0dfe3f9adec0f69017077497158fc86ee4d9803e">
base/standard/src/main/java/org/openscience/cdk/fingerprint/IntArrayCountFingerprint.java
</a>
</li>
<li class="file-stats">
<a href="#88ee4438e57e164c5c93c9deb13e0e189db04d51">
base/standard/src/main/java/org/openscience/cdk/fingerprint/IntArrayFingerprint.java
</a>
</li>
<li class="file-stats">
<a href="#f6917abc98d245144c9df4e8a4817009acda4dc7">
base/standard/src/main/java/org/openscience/cdk/geometry/BondTools.java
</a>
</li>
<li class="file-stats">
<a href="#9c5b2e2f5f3c7eb2cba8d77e9bb1e122637e6183">
base/standard/src/main/java/org/openscience/cdk/geometry/CrystalGeometryTools.java
</a>
</li>
<li class="file-stats">
<a href="#cbcf057a50b61c025f91c38de357e14c81c33edf">
base/standard/src/main/java/org/openscience/cdk/geometry/GeometryUtil.java
</a>
</li>
<li class="file-stats">
<a href="#80761d9f539d676472f5b86aaaebad6c5b21d7df">
base/standard/src/main/java/org/openscience/cdk/geometry/volume/VABCVolume.java
</a>
</li>
<li class="file-stats">
<a href="#a5b9982f513d3f3ac87812c3fd2cd0cde0a181bf">
base/standard/src/main/java/org/openscience/cdk/graph/AtomContainerAtomPermutor.java
</a>
</li>
<li class="file-stats">
<a href="#79e45c9d89bc790c49510173eeda3dd39a98d24f">
base/standard/src/main/java/org/openscience/cdk/graph/AtomContainerBondPermutor.java
</a>
</li>
<li class="file-stats">
<a href="#18183749130469833fa8fc0adb57dfa95eb8a56e">
base/standard/src/main/java/org/openscience/cdk/graph/AtomContainerPermutor.java
</a>
</li>
<li class="file-stats">
<a href="#60b1017cba89b9cb5ebd0e45dee6cda5d119696d">
base/standard/src/main/java/org/openscience/cdk/graph/ConnectivityChecker.java
</a>
</li>
<li class="file-stats">
<a href="#1e994f39188f0019415b8a8fc9d495ffa3ea3c1c">
base/standard/src/main/java/org/openscience/cdk/graph/EdmondsMaximumMatching.java
</a>
</li>
<li class="file-stats">
<a href="#ec8e59c6d1bf625deb5760915c11edae8bb2a686">
base/standard/src/main/java/org/openscience/cdk/graph/Matching.java
</a>
</li>
<li class="file-stats">
<a href="#2858508b7c266626a0b7cb275ffde22e8183d53c">
base/standard/src/main/java/org/openscience/cdk/graph/Permutor.java
</a>
</li>
<li class="file-stats">
<a href="#7c4a86787d0d86d4d437a76dd6c5ce5d72afeaeb">
base/standard/src/main/java/org/openscience/cdk/graph/invariant/Canon.java
</a>
</li>
<li class="file-stats">
<a href="#59372b2eb1892ed9a0c6bc4d54a56eead218e6f4">
base/standard/src/main/java/org/openscience/cdk/graph/invariant/CanonicalLabeler.java
</a>
</li>
<li class="file-stats">
<a href="#174b62294053a0452cb107a0e9e5c122e9a0dd8f">
base/standard/src/main/java/org/openscience/cdk/graph/invariant/InvariantRanker.java
</a>
</li>
<li class="file-stats">
<a href="#9d8aece3f877edd8fccfe8baa2c5f3431cd762cb">
base/standard/src/main/java/org/openscience/cdk/graph/invariant/MorganNumbersTools.java
</a>
</li>
<li class="file-stats">
<a href="#d856b18ae8f3395364f5ae97a1c96da7087647e5">
base/standard/src/main/java/org/openscience/cdk/graph/matrix/ConnectionMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#e4311257508c4439a6e7d10e8c6c69ec24b5e759">
base/standard/src/main/java/org/openscience/cdk/graph/rebond/Bspt.java
</a>
</li>
<li class="file-stats">
<a href="#ce402cec1276e2f25e6ef2aca57410ac91884e0d">
base/standard/src/main/java/org/openscience/cdk/graph/rebond/Point.java
</a>
</li>
<li class="file-stats">
<a href="#bdb93fb3f2292d3d6b86fc90508c8b2f3f8c0428">
base/standard/src/main/java/org/openscience/cdk/graph/rebond/RebondTool.java
</a>
</li>
<li class="file-stats">
<a href="#91d768ab98d17a7c9780cb5297bf66f4be0ec421">
base/standard/src/main/java/org/openscience/cdk/group/DisjointSetForest.java
</a>
</li>
<li class="file-stats">
<a href="#e0a3f41687503b210d4e1429a3fbbbba3ea1035d">
base/standard/src/main/java/org/openscience/cdk/isomorphism/AtomMappingTools.java
</a>
</li>
<li class="file-stats">
<a href="#d4f03329211b849eb8a4a949aabcaf7992e1ac45">
base/standard/src/main/java/org/openscience/cdk/isomorphism/IsomorphismTester.java
</a>
</li>
<li class="file-stats">
<a href="#6740b08ad738c5e751e9bd8b7c61385ebf65105c">
base/standard/src/main/java/org/openscience/cdk/isomorphism/UniversalIsomorphismTester.java
</a>
</li>
<li class="file-stats">
<a href="#d0c75c298882dbe5df48bf3b1c2df2f289c32da7">
base/standard/src/main/java/org/openscience/cdk/isomorphism/mcss/RGraph.java
</a>
</li>
<li class="file-stats">
<a href="#6e73bbf2dd5dd14c9e4e80dd093f4af116031b84">
base/standard/src/main/java/org/openscience/cdk/isomorphism/mcss/RMap.java
</a>
</li>
<li class="file-stats">
<a href="#e82d3db4a1ce7c5867b03b1e90f0317e391e67b9">
base/standard/src/main/java/org/openscience/cdk/isomorphism/mcss/RNode.java
</a>
</li>
<li class="file-stats">
<a href="#7ea77c541646e56ce412349f4fccb26f14a69636">
base/standard/src/main/java/org/openscience/cdk/math/FortranFormat.java
</a>
</li>
<li class="file-stats">
<a href="#dbf457d730d7f95078814079bb613b06c3b3803a">
base/standard/src/main/java/org/openscience/cdk/math/Primes.java
</a>
</li>
<li class="file-stats">
<a href="#e3e3c980c82849b2a9fb38496b57b4205d24b321">
base/standard/src/main/java/org/openscience/cdk/math/RandomNumbersTool.java
</a>
</li>
<li class="file-stats">
<a href="#79a6f4ddb448f18e294659c89b50ee26824a6285">
base/standard/src/main/java/org/openscience/cdk/qsar/AtomValenceTool.java
</a>
</li>
<li class="file-stats">
<a href="#8066cf1b6ffa46d0f0636a535ff943b6155610b7">
base/standard/src/main/java/org/openscience/cdk/qsar/DescriptorSpecification.java
</a>
</li>
<li class="file-stats">
<a href="#2f18c48c8744871f9384886a23b5dc34aa1668d9">
base/standard/src/main/java/org/openscience/cdk/qsar/DescriptorValue.java
</a>
</li>
<li class="file-stats">
<a href="#696d8823f8086f7ad352bf179f955625604a78d7">
base/standard/src/main/java/org/openscience/cdk/qsar/result/BooleanResult.java
</a>
</li>
<li class="file-stats">
<a href="#f55c503fb3bc8798278bd6236c4a5e05436fd43b">
base/standard/src/main/java/org/openscience/cdk/qsar/result/BooleanResultType.java
</a>
</li>
<li class="file-stats">
<a href="#faa048631698c7fe79a744a442bfac9b7dfac88f">
base/standard/src/main/java/org/openscience/cdk/qsar/result/DoubleArrayResult.java
</a>
</li>
<li class="file-stats">
<a href="#12fb3c341ada6a0c165e1d7cab26cfef4d2f87f7">
base/standard/src/main/java/org/openscience/cdk/qsar/result/DoubleArrayResultType.java
</a>
</li>
<li class="file-stats">
<a href="#446b1a71c9d9435368a955f1e7f0ee850eeea7cf">
base/standard/src/main/java/org/openscience/cdk/qsar/result/DoubleResult.java
</a>
</li>
<li class="file-stats">
<a href="#f92a11d51d973a1e896bfd756fbd3e825cfc40be">
base/standard/src/main/java/org/openscience/cdk/qsar/result/DoubleResultType.java
</a>
</li>
<li class="file-stats">
<a href="#f4bf5ef179f1bca4adcf9da6ab432c39705d4b26">
base/standard/src/main/java/org/openscience/cdk/qsar/result/IntegerArrayResult.java
</a>
</li>
<li class="file-stats">
<a href="#8704e564fe92a66c9997ba178f7a2f84c2b85966">
base/standard/src/main/java/org/openscience/cdk/qsar/result/IntegerArrayResultType.java
</a>
</li>
<li class="file-stats">
<a href="#8dc06f379b3fa0a13408a4eddb4012d022f086c7">
base/standard/src/main/java/org/openscience/cdk/qsar/result/IntegerResult.java
</a>
</li>
<li class="file-stats">
<a href="#fdefebfd8b05dfac6cb40345091d33ddc24535c3">
base/standard/src/main/java/org/openscience/cdk/qsar/result/IntegerResultType.java
</a>
</li>
<li class="file-stats">
<a href="#76b3c32704a7f599ca51939d72c93c39ece40d0a">
base/standard/src/main/java/org/openscience/cdk/ringsearch/AllRingsFinder.java
</a>
</li>
<li class="file-stats">
<a href="#63aeee90b76ad4e817f56d5784eaff13eba30f31">
base/standard/src/main/java/org/openscience/cdk/ringsearch/RingPartitioner.java
</a>
</li>
<li class="file-stats">
<a href="#39ac870cd2bc19e558eeeb826f29d1bb3be83995">
base/standard/src/main/java/org/openscience/cdk/smiles/InvPair.java
</a>
</li>
<li class="file-stats">
<a href="#6c5de5494a54c56e42a4f5402454dee73e3f0182">
base/standard/src/main/java/org/openscience/cdk/stereo/CyclicCarbohydrateRecognition.java
</a>
</li>
<li class="file-stats">
<a href="#facb88832db961ac5493370c61dcba68453e1dce">
base/standard/src/main/java/org/openscience/cdk/stereo/FischerRecognition.java
</a>
</li>
<li class="file-stats">
<a href="#596a5f6adc2cb3a7afe9cc4cc8bf0f56ff647c46">
base/standard/src/main/java/org/openscience/cdk/stereo/StereoElementFactory.java
</a>
</li>
<li class="file-stats">
<a href="#9e9b38561fe17029d2ea9c153c6ef160d1fef497">
base/standard/src/main/java/org/openscience/cdk/stereo/StereoTool.java
</a>
</li>
<li class="file-stats">
<a href="#cf79175874401db5acf738a96ca9330e5fa4fbd0">
base/standard/src/main/java/org/openscience/cdk/stereo/Stereocenters.java
</a>
</li>
<li class="file-stats">
<a href="#9b954151ce579f50481a4bfd08d96f962ca06ec7">
base/standard/src/main/java/org/openscience/cdk/tools/ElementComparator.java
</a>
</li>
<li class="file-stats">
<a href="#7750442e5c87e3d06b0fbf62327b9f0245de0545">
base/standard/src/main/java/org/openscience/cdk/tools/HOSECodeGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#db2d27ee2e88b8a5597bc31fe7f6c562f7861a1e">
base/standard/src/main/java/org/openscience/cdk/tools/IDCreator.java
</a>
</li>
<li class="file-stats">
<a href="#2ae8785cb3e1de99861f86fbde04acddd9cb5df5">
base/standard/src/main/java/org/openscience/cdk/tools/LonePairElectronChecker.java
</a>
</li>
<li class="file-stats">
<a href="#b83a5bff2391e04b2449207f2b95009097753d3f">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AminoAcidManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#cb0004796821944a98ebcf00235b9dcfde638a8a">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AtomContainerComparator.java
</a>
</li>
<li class="file-stats">
<a href="#2746da363d0c10b950cddfbf55cc13904875b5c5">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AtomContainerComparatorBy2DCenter.java
</a>
</li>
<li class="file-stats">
<a href="#3c534a87bd268ec1eb6b2d1e07199f6a8205c30d">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AtomContainerManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#a5fa5a411482bd1e75a737a4b243ad08346e0d1c">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AtomContainerSetManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#4b35e462982218267d93ac50d0d1b1c25c8053d7">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/AtomTypeManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#7a7b17fdf5bf337b2ac2e0f36bc9341093f9ec6f">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ChemFileManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#3927155ddd92ad807993d28fccfd3619c87d2284">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ChemModelManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#d6e6858f3102faba3d639d1e8364366b067fb368">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ChemSequenceManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#6a5bbd9fdce57acc35f21e749c3a474c6925d92a">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/MoleculeSetManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#2ea78a6d0bbbe693e6e95eedb7ba8d5225b1db57">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ReactionManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#0956d5b5e49d896b98dd86e983707e381a46c167">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ReactionSchemeManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#de1511b538c11a06baa400284c1e0421d459abed">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/ReactionSetManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#3bba18fc9b9525363df1e2eedaa9fba8b80656a4">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/RingManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#f9babf15ec8c30b42202839bd2b9ce1ee0efa736">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/RingSetManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#231ab8bdb55885d7f9ac434c2d2886abf6774595">
base/standard/src/main/java/org/openscience/cdk/tools/manipulator/RingSizeComparator.java
</a>
</li>
<li class="file-stats">
<a href="#1b0c80a6710d023927e568c2d7569913e3e0c2e3">
base/standard/src/main/java/org/openscience/cdk/validate/ProblemMarker.java
</a>
</li>
<li class="file-stats">
<a href="#af541b1ca5c2a76cbecc1c35d479e619bf808858">
base/test-standard/src/test/java/org/openscience/cdk/exception/InvalidSmilesExceptionTest.java
→
base/standard/src/test/java/org/openscience/cdk/exception/InvalidSmilesExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#cee6ad78f8ef5880e2feb907ba66d93b2a686a12">
base/test-standard/src/test/java/org/openscience/cdk/graph/PermutorTest.java
→
base/standard/src/test/java/org/openscience/cdk/graph/PermutorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f288b737c6249fdb0ccf988c9f34c0e7fd453fc6">
base/test-standard/src/test/java/org/openscience/cdk/math/FortranFormatTest.java
→
base/standard/src/test/java/org/openscience/cdk/math/FortranFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#e286ca569eb49a65097a7ac0090f3a0ed98bb81e">
base/test-standard/src/test/java/org/openscience/cdk/math/PrimesTest.java
→
base/standard/src/test/java/org/openscience/cdk/math/PrimesTest.java
</a>
</li>
<li class="file-stats">
<a href="#08b8710dd2274e946458b3a742f4d9f4833a14a4">
base/test-standard/src/test/java/org/openscience/cdk/math/RandomNumbersToolTest.java
→
base/standard/src/test/java/org/openscience/cdk/math/RandomNumbersToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#af928eed67bc4c77f05ed11c161fa5862238f26a">
base/test-standard/src/test/java/org/openscience/cdk/qsar/DescriptorSpecificationTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/DescriptorSpecificationTest.java
</a>
</li>
<li class="file-stats">
<a href="#220cd6f065645a633fab68edeabda6f2423d46dc">
base/test-standard/src/test/java/org/openscience/cdk/qsar/DescriptorValueTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/DescriptorValueTest.java
</a>
</li>
<li class="file-stats">
<a href="#c5a97069c05bd81c26d22b72a18cb5e0ca242c2d">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/BooleanResultTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/BooleanResultTest.java
</a>
</li>
<li class="file-stats">
<a href="#99a395ed9a6b6d457234178d5f502ed7ba8af3b5">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/BooleanResultTypeTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/BooleanResultTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#726383719b990e698f3df8f9a3960fd023572a43">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/DoubleArrayResultTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/DoubleArrayResultTest.java
</a>
</li>
<li class="file-stats">
<a href="#cb8e6f7c284d964f3da4763ccc3cc3f867f655ef">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/DoubleArrayResultTypeTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/DoubleArrayResultTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#8d1d9fb1bea46bf1eb082e10ffab181dcb97539a">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/DoubleResultTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/DoubleResultTest.java
</a>
</li>
<li class="file-stats">
<a href="#df33dd1113d15d62865b1110df8b7501ed531b0b">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/DoubleResultTypeTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/DoubleResultTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#ea4474f54d337e0e8801db2098a977d94904a6e5">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/IntegerArrayResultTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/IntegerArrayResultTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce41a70b0ecd8c41fb9026e055ec9785801087d9">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/IntegerArrayResultTypeTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/IntegerArrayResultTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#263613de9e70671163dc942045c5a267fd45e690">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/IntegerResultTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/IntegerResultTest.java
</a>
</li>
<li class="file-stats">
<a href="#cab13a04519ebd9ed2be0f2672df998d0aa1e83b">
base/test-standard/src/test/java/org/openscience/cdk/qsar/result/IntegerResultTypeTest.java
→
base/standard/src/test/java/org/openscience/cdk/qsar/result/IntegerResultTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a9edd26c3c4cdf2b8605f75197a4604d4295cc5">
base/test-standard/src/test/java/org/openscience/cdk/tools/ElementComparatorTest.java
→
base/standard/src/test/java/org/openscience/cdk/tools/ElementComparatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#50fe26b1f69c0fc279f6c240f6da9a82093752fa">
base/test-atomtype/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#3134980bc2ec0f6689d298525ef75978f033ef32">
base/test-atomtype/src/test/java/org/openscience/cdk/atomtype/AbstractSybylAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#95ef4cfff5c674ad076c34981142a46c20b5cb60">
base/test-atomtype/src/test/java/org/openscience/cdk/atomtype/SybylAtomTypeMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#9f84a5769f03c2e1ddb4cd2dc648cbb74f83be83">
base/test-atomtype/src/test/java/org/openscience/cdk/atomtype/mapper/AtomTypeMapperTest.java
</a>
</li>
<li class="file-stats">
<a href="#75aa5b123e1908adac8ced3216b65a3937517d72">
base/test-atomtype/src/test/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeMappingHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d12b582b72383cd52a7a4f4fda21a24388beed2b">
base/test-atomtype/src/test/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeMappingReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#a3f3c9cc6ab7cd8b48aea7e5f9662b31cceebe05">
base/test-core/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#aebeb426e31a6d1a38668da2c43398f67551c563">
base/test-core/src/test/java/org/openscience/cdk/CDKConstantsTest.java
</a>
</li>
<li class="file-stats">
<a href="#fdd86a75cfda278dc70d76a2e3077b0cc52d0490">
base/test-core/src/test/java/org/openscience/cdk/CDKTest.java
</a>
</li>
<li class="file-stats">
<a href="#8ba41554a72169a966da38ac3cc3e395243108a3">
base/test-core/src/test/java/org/openscience/cdk/DynamicFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#b7159ec798423ff20960b635da89a76c830352b4">
base/test-core/src/test/java/org/openscience/cdk/DynamicFactoryTestMock.java
</a>
</li>
<li class="file-stats">
<a href="#20c3f31f31b2017626662e353ec9a147a126b43c">
base/test-core/src/test/java/org/openscience/cdk/atomtype/AbstractCDKAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#f0b0da448a48b3387b4d5f0ce64f29b6636070e5">
base/test-core/src/test/java/org/openscience/cdk/atomtype/CDKAtomTypeMatcherFilesTest.java
</a>
</li>
<li class="file-stats">
<a href="#f82736b8f4cdfb2b9d710e07c73148c9656c5012">
base/test-core/src/test/java/org/openscience/cdk/atomtype/CDKAtomTypeMatcherSMILESTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a478a935563f641b6ce81a50df4e1fe87bad912">
base/test-core/src/test/java/org/openscience/cdk/atomtype/CDKAtomTypeMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#04613274495f9fbe4827643a84b30e8c683b780b">
base/test-core/src/test/java/org/openscience/cdk/atomtype/CDKAtomTypeMatcherTestFileReposTest.java
</a>
</li>
<li class="file-stats">
<a href="#ec82e0406bf5d585ed06e27029edb62147983ff1">
base/test-core/src/test/java/org/openscience/cdk/atomtype/RepeatedCDKAtomTypeMatcherSMILESTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2cf3b92ef26d20b323be0c5b13c3920c042f807">
base/test-core/src/test/java/org/openscience/cdk/config/AtomTypeFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#0debd79d9ad7e882d24b4cdc27fdd4e3cea21098">
base/test-core/src/test/java/org/openscience/cdk/config/BODRIsotopeTest.java
</a>
</li>
<li class="file-stats">
<a href="#f337e911b6b6205208124d33449250ef3e0cc088">
base/test-core/src/test/java/org/openscience/cdk/config/CDKBasedAtomTypeConfiguratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ebb72855912fd3a84e5e450ebd6319bcb8783bec">
base/test-core/src/test/java/org/openscience/cdk/config/ElementsTest.java
</a>
</li>
<li class="file-stats">
<a href="#31ba194e9c1b133f2da2962ec561f0e70a50d4b3">
base/test-core/src/test/java/org/openscience/cdk/config/ImmutableAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#7c2755a2118938c346ce90a2092b7221b53365c4">
base/test-core/src/test/java/org/openscience/cdk/config/IsotopesTest.java
</a>
</li>
<li class="file-stats">
<a href="#4157a34b08adfa254ecbb530e0de2328daf9d036">
base/test-core/src/test/java/org/openscience/cdk/config/NaturalElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#8942fb141bc851acfc4089f4f15542247c2128de">
base/test-core/src/test/java/org/openscience/cdk/config/OWLBasedAtomTypeConfiguratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#23a1f59bed7b3d124a408593471c0cccdedebee0">
base/test-core/src/test/java/org/openscience/cdk/config/TXTBasedAtomTypeConfiguratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#7a9bc02b6af97a292237ea04285c6f150941cef7">
base/test-core/src/test/java/org/openscience/cdk/config/atomtypes/AtomTypeHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#3bbe5a2dc053fc98a48ad6635fc4931a53b9fce3">
base/test-core/src/test/java/org/openscience/cdk/config/atomtypes/AtomTypeReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#860006430d147a2e0fb0321d46090806ab207901">
base/test-core/src/test/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc60a6dde6b26354c93e1a25cd5aac316497234d">
base/test-core/src/test/java/org/openscience/cdk/config/atomtypes/OWLAtomTypeReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#20b01c8313656804b82eebde7f08d13c685b078d">
base/test-core/src/test/java/org/openscience/cdk/graph/AllCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#38a7de24119fb826b598dc055ab485ba1962cf78">
base/test-core/src/test/java/org/openscience/cdk/graph/AllPairsShortestPathsTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0b28bc8edfed70c16c320ac602db6925f45efd1">
base/test-core/src/test/java/org/openscience/cdk/graph/BitMatrixTest.java
</a>
</li>
<li class="file-stats">
<a href="#949db89792bfc683334e048425410a90f51e1ad1">
base/test-core/src/test/java/org/openscience/cdk/graph/ConnectedComponentsTest.java
</a>
</li>
<li class="file-stats">
<a href="#18c784d8bbb3910dc36f5a5f0a026ed672489d3c">
base/test-core/src/test/java/org/openscience/cdk/graph/CyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#8e8f0b311b9718f9546e76f312c15246bac7cb1f">
base/test-core/src/test/java/org/openscience/cdk/graph/EdgeShortCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#e119930c9f835976c4727c0d7c581892fca9440e">
base/test-core/src/test/java/org/openscience/cdk/graph/EssentialCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#c2dd6e49b56920ada67ec77cd7551df9944d7f32">
base/test-core/src/test/java/org/openscience/cdk/graph/GraphUtilTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0c371b19edb75ea16d1c200cfb292d131022c33">
base/test-core/src/test/java/org/openscience/cdk/graph/GreedyBasisTest.java
</a>
</li>
<li class="file-stats">
<a href="#bedc297bf5033965b9110322f4e2f05e4e796fbf">
base/test-core/src/test/java/org/openscience/cdk/graph/InitialCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#d10edade89ddb5acdeb2bbec72bd908de2ee6f5c">
base/test-core/src/test/java/org/openscience/cdk/graph/JumboPathGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#20a1426f4760b85ff0b728ce6b0bf066efee191f">
base/test-core/src/test/java/org/openscience/cdk/graph/MinimumCycleBasisTest.java
</a>
</li>
<li class="file-stats">
<a href="#91f1a4f095d01bba9d6d62396524669bfc9c46f6">
base/test-core/src/test/java/org/openscience/cdk/graph/PathToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#e8763005d57cd24fdeadc2c3af5d3b0e6c042069">
base/test-core/src/test/java/org/openscience/cdk/graph/RegularPathGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#a52b0c9ab1802edd50340bc50f91d453e23c2d62">
base/test-core/src/test/java/org/openscience/cdk/graph/RelevantCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#cedc5c02e4b4f277702a29af80506d718c5b0d01">
base/test-core/src/test/java/org/openscience/cdk/graph/ShortestPathsTest.java
</a>
</li>
<li class="file-stats">
<a href="#3e80af5adbcd2453946cb47b7f832595d07b9990">
base/test-core/src/test/java/org/openscience/cdk/graph/SpanningTreeTest.java
</a>
</li>
<li class="file-stats">
<a href="#782584e19150bd65f90687d43f944421b0d07ab4">
base/test-core/src/test/java/org/openscience/cdk/graph/TripletShortCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#978f51797324511109720284f9faff44e3cc44d0">
base/test-core/src/test/java/org/openscience/cdk/graph/VertexShortCyclesTest.java
</a>
</li>
<li class="file-stats">
<a href="#9b5e46695c6030c4d9bb7d251b4da224a29be454">
base/test-core/src/test/java/org/openscience/cdk/graph/matrix/AdjacencyMatrixTest.java
</a>
</li>
<li class="file-stats">
<a href="#15bbb66d9af3091ad59c57f1479d12b416dca450">
base/test-core/src/test/java/org/openscience/cdk/ringsearch/JumboCyclicVertexSearchTest.java
</a>
</li>
<li class="file-stats">
<a href="#153b48f41ea4ee36df4f9be99fa043f12931fc26">
base/test-core/src/test/java/org/openscience/cdk/ringsearch/RegularCyclicVertexSearchTest.java
</a>
</li>
<li class="file-stats">
<a href="#3317a34db9b73800304e1199917b92e97ac60333">
base/test-core/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest.java
</a>
</li>
<li class="file-stats">
<a href="#6ca4c5d293f16d56465e2680db1d87fb851d5cf6">
base/test-core/src/test/java/org/openscience/cdk/stereo/DoubleBondStereochemistryTest.java
</a>
</li>
<li class="file-stats">
<a href="#1fe1e6fc78e50f169365af6bb8e1fa6b82b2ec1b">
base/test-core/src/test/java/org/openscience/cdk/stereo/TetrahedralChiralityTest.java
</a>
</li>
<li class="file-stats">
<a href="#a94063d5d44981eec5579eec6522906b4db349c2">
base/test-core/src/test/java/org/openscience/cdk/tools/manipulator/BondManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3620030478c6a178b31aba74b1b6f41f38003279">
base/test-core/src/test/java/org/openscience/cdk/tools/periodictable/PeriodicTableTest.java
</a>
</li>
<li class="file-stats">
<a href="#2388a9baa34d5ed6409bc01877d28a2df4a87713">
base/test-standard/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#e6a4a23b6c6d2497c61fbfd7ac8042fc9e551d2c">
base/test-standard/src/test/java/org/openscience/cdk/aromaticity/AromaticityTest.java
</a>
</li>
<li class="file-stats">
<a href="#624f83386b27a53b564670000207c123633e9241">
base/test-standard/src/test/java/org/openscience/cdk/aromaticity/AtomTypeModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#cab4b802e0040d896986ff8f0fc2aa3b9e902b67">
base/test-standard/src/test/java/org/openscience/cdk/aromaticity/DaylightModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#2b934658b676ddcd9d7cb6839771de63e34d211a">
base/test-standard/src/test/java/org/openscience/cdk/aromaticity/ExocyclicAtomTypeModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#db5010ea36c9a7b5069ee94fc07e04fcca60572d">
base/test-standard/src/test/java/org/openscience/cdk/aromaticity/PiBondModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#bf2af425906320facc5098b730d26a505ca45c93">
base/test-standard/src/test/java/org/openscience/cdk/atomtype/EStateAtomTypeMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#fa8140fb7361c67db860a6195cd31bd623236347">
base/test-standard/src/test/java/org/openscience/cdk/geometry/BondToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2eae458ae42c1407d617ac91d298b86c21c41bb">
base/test-standard/src/test/java/org/openscience/cdk/geometry/CrystalGeometryToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#b64e517c739ea06176986c729b77543d5b1b1a76">
base/test-standard/src/test/java/org/openscience/cdk/geometry/GeometryUtilTest.java
</a>
</li>
<li class="file-stats">
<a href="#b57a5801260c0bca7324a3ef762124c8fb3794aa">
base/test-standard/src/test/java/org/openscience/cdk/geometry/volume/VABCVolumeTest.java
</a>
</li>
<li class="file-stats">
<a href="#a153f5a9d4e7c99c02c358f036832573186113e8">
base/test-standard/src/test/java/org/openscience/cdk/graph/AtomContainerAtomPermutorTest.java
</a>
</li>
<li class="file-stats">
<a href="#60236e786aacb06e525dce5eda77452ee51ca3d9">
base/test-standard/src/test/java/org/openscience/cdk/graph/AtomContainerBondPermutorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f9194f326f733a6e3925def0c997080e6c6b6b7a">
base/test-standard/src/test/java/org/openscience/cdk/graph/AtomContainerPermutorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bd2e2f9f87e20f5d43bd28436d7c12ebaec53e24">
base/test-standard/src/test/java/org/openscience/cdk/graph/ConnectivityCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#b9f6e1ce8ba029e245eac82d6ee1cb05d4f2ed4d">
base/test-standard/src/test/java/org/openscience/cdk/graph/EdmondsMaximumMatchingTest.java
</a>
</li>
<li class="file-stats">
<a href="#2b380a92a447b1261fad26f14d3040553cb1679f">
base/test-standard/src/test/java/org/openscience/cdk/graph/MatchingTest.java
</a>
</li>
<li class="file-stats">
<a href="#3bac73c6688f4d2e40169715c20f56272a865c18">
base/test-standard/src/test/java/org/openscience/cdk/graph/invariant/CanonTest.java
</a>
</li>
<li class="file-stats">
<a href="#1769b33700f924c8927fe1824acee116869b1f5b">
base/test-standard/src/test/java/org/openscience/cdk/graph/invariant/CanonicalLabelerTest.java
</a>
</li>
<li class="file-stats">
<a href="#5a0b071cb420e0594b159134637ebf961a4f5910">
base/test-standard/src/test/java/org/openscience/cdk/graph/invariant/InvariantRankerTest.java
</a>
</li>
<li class="file-stats">
<a href="#9a8ca41a1244128f0913a8706dfec0a8344dcc63">
base/test-standard/src/test/java/org/openscience/cdk/graph/invariant/MorganNumbersToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#6bb933cac2c1720edd64a44fe1287ef51e412671">
base/test-standard/src/test/java/org/openscience/cdk/graph/matrix/ConnectionMatrixTest.java
</a>
</li>
<li class="file-stats">
<a href="#2eb5078b7103fd38636be03c377a240c3e7dfade">
base/test-standard/src/test/java/org/openscience/cdk/graph/rebond/BsptTest.java
</a>
</li>
<li class="file-stats">
<a href="#c60fa06cd84d9160e8ccb70a77aea38a01396c62">
base/test-standard/src/test/java/org/openscience/cdk/graph/rebond/PointTest.java
</a>
</li>
<li class="file-stats">
<a href="#3c81a883ee434d117941b7618b6fe8967cfd1681">
base/test-standard/src/test/java/org/openscience/cdk/graph/rebond/RebondToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#2ee49918ec2fa4281ab36962b5a06f8a385b2311">
base/test-standard/src/test/java/org/openscience/cdk/group/DisjointSetForestTest.java
</a>
</li>
<li class="file-stats">
<a href="#b576f2dacfc55334ad255d3ec479ee47ba4d8589">
base/test-standard/src/test/java/org/openscience/cdk/isomorphism/IsomorphismTesterTest.java
</a>
</li>
<li class="file-stats">
<a href="#8284509d69db6ff619727564e50e649fa24dc304">
base/test-standard/src/test/java/org/openscience/cdk/isomorphism/UniversalIsomorphismTesterTest.java
</a>
</li>
<li class="file-stats">
<a href="#308ae8d6ddbf26c67d52938dac6b2e0c58a8ba8d">
base/test-standard/src/test/java/org/openscience/cdk/isomorphism/mcss/RGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#e94432a57876ace8b18227c398582b432ff100b6">
base/test-standard/src/test/java/org/openscience/cdk/isomorphism/mcss/RMapTest.java
</a>
</li>
<li class="file-stats">
<a href="#a490062ad109e01093a2a53ba6b67835dc0b5c4f">
base/test-standard/src/test/java/org/openscience/cdk/isomorphism/mcss/RNodeTest.java
</a>
</li>
<li class="file-stats">
<a href="#196e7c92acbffb9cc20544bcdd18006d0075ef91">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/AllRingsFinderTest.java
</a>
</li>
<li class="file-stats">
<a href="#6c706a18dffb7b5f8ff1a04ae6a86951b84bab29">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingPartitionerTest.java
</a>
</li>
<li class="file-stats">
<a href="#7f9ea160550e3cdbef473dc0e59f1df6ac5ce38f">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Benzene.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_BenzeneTest.java
</a>
</li>
<li class="file-stats">
<a href="#74448332180e60dba2cc1194a3628efc4129c26b">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_BenzylBenzene.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_BenzylBenzeneTest.java
</a>
</li>
<li class="file-stats">
<a href="#7ffe38124fea28d5e82167602e47f83594940b7b">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Bicyclo.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_BicycloTest.java
</a>
</li>
<li class="file-stats">
<a href="#f8a3dae81a865a407e84da3f13afe541083c2a59">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Biphenyl.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_BiphenylTest.java
</a>
</li>
<li class="file-stats">
<a href="#17e060212edd384ea5320c810c8173e1b82789c9">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Empty.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_EmptyTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f79dff6f7277471c3dc038039b7c6079f5009c9">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Fused.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_FusedTest.java
</a>
</li>
<li class="file-stats">
<a href="#a2f51ff371ec47e8ad61cd2c496a007366de2b00">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_Hexaphenylene.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_HexaphenyleneTest.java
</a>
</li>
<li class="file-stats">
<a href="#e60ccbe0c4a9dc3a4de7ca458165eb3e311d2a0d">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_NonCyclic.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_NonCyclicTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f56882763030100fdfd353633326c5a1866ee1c">
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearchTest_SpiroRings.java
→
base/test-standard/src/test/java/org/openscience/cdk/ringsearch/RingSearch_SpiroRingsTest.java
</a>
</li>
<li class="file-stats">
<a href="#6473edfe65ea6ca8458e87befe2e3f8605d3a7a7">
base/test-standard/src/test/java/org/openscience/cdk/smiles/InvPairTest.java
</a>
</li>
<li class="file-stats">
<a href="#58a71eca0585dbd5c917775ac08c1effaf841884">
base/test-standard/src/test/java/org/openscience/cdk/stereo/StereoElementFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#17ffd1902d796d5605d4e59e74a1d376121a4d05">
base/test-standard/src/test/java/org/openscience/cdk/stereo/StereoToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#2afd3048b18478cfd5d22f0e51e72ff5ca8eb68c">
base/test-standard/src/test/java/org/openscience/cdk/stereo/StereocentersTest.java
</a>
</li>
<li class="file-stats">
<a href="#91e7fe4721f5262c72614b4a4f94fed6734eb852">
base/test-standard/src/test/java/org/openscience/cdk/tools/HOSECodeGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#2715c5bf4687a1979e773fd957d24e9f561e8da8">
base/test-standard/src/test/java/org/openscience/cdk/tools/IDCreatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2ad95b0b0ec44cee12ad426efbc6981867dc48f">
base/test-standard/src/test/java/org/openscience/cdk/tools/LonePairElectronCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#ecd2f96861957b7fa496e9992e04fbd4db273940">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AminoAcidManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#67b3b44d5a258768c79e6c087ca4859a6664fe8d">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AtomContainerComparatorBy2DCenterTest.java
</a>
</li>
<li class="file-stats">
<a href="#1cc7e96b5b38cf9be9d1da1aefc4eb1ca7f32061">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AtomContainerComparatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d5e2dc4493a0a0e20dd2cb0b826cb803e41ff464">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AtomContainerManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#18b04e540dc53290d795ed5c32a8969d05b7cbfd">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AtomContainerSetManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#7e24b287081a81e559d9ee202b167b5634cd2d2e">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/AtomTypeManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#67ccf92cb2d9a2cc07e837287584d93b6fb7cd74">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ChemFileManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#44cdc4041d68d6bd7e5691f46bb674eea16a23db">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ChemModelManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6724e21089d9e81ed2e96bd45944dd19351f7d6c">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ChemSequenceManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce28b66e4c03b761783534621d5cffe1e6653281">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/MoleculeSetManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#5942323c46f9e381d9c8b24f082e4ae81a869b6b">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ReactionManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#9bc0bfe8eb2d600a09bbd1785ac5f450920f547d">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ReactionSchemeManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4738a902d255b8ca08558b6ab44e2f2b97f7f362">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/ReactionSetManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a90c40419418e6fa04dd06ba8479bd463f0f0bc2">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/RingManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6caafa329703f23fd058bb7878968b633885547d">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/RingSetManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#34da976fb5c0aee58a764c8264d686136e741acd">
base/test-standard/src/test/java/org/openscience/cdk/tools/manipulator/RingSizeComparatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#10f02061f6a215f897adf848fb0b45e53cbd5927">
base/test-standard/src/test/java/org/openscience/cdk/validate/ProblemMarkerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d7a6a39d6003fae769bd025550365b1875f90ec0">
base/test-valencycheck/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#a8d56a9da181318e6814ae369c2431d249a0b2ba">
base/test-valencycheck/src/test/java/org/openscience/cdk/tools/ATASaturationCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#cf92a235e8108f368bed9efed9f1586832d2de5e">
base/test-valencycheck/src/test/java/org/openscience/cdk/tools/CDKHydrogenAdderTest.java
</a>
</li>
<li class="file-stats">
<a href="#f4c56d86ec27b34091bcb87239515d3bcd73bccd">
base/test-valencycheck/src/test/java/org/openscience/cdk/tools/CDKValencyCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#6bbd5417a7a867765fd1d32ca4de3c937d13d130">
base/test-valencycheck/src/test/java/org/openscience/cdk/tools/DeduceBondOrderTestFromExplicitHydrogensTest.java
</a>
</li>
<li class="file-stats">
<a href="#4000fc0ec8c6699c3e6921101b777f1b66967ce5">
base/test-valencycheck/src/test/java/org/openscience/cdk/tools/SaturationCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#6372fc297191ae32ac53d6722e906ef9ea1a6668">
base/test/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#2590b0ee8630fa73ec25995618eef9a4cb59064b">
base/test/src/test/java/org/openscience/cdk/test/AbstractChemObjectBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#f3022db78eef5297027a50db4f686e4eb140119f">
base/test/src/test/java/org/openscience/cdk/test/CDKTestCase.java
</a>
</li>
<li class="file-stats">
<a href="#963371aac75ad4b849932d626ee00dd4b7ea9493">
base/test/src/test/java/org/openscience/cdk/test/atomtype/AbstractAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#edd9dc63cca4ba30ca50ed4afa63968091f74df7">
base/test/src/test/java/org/openscience/cdk/test/atomtype/IAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#c34644f5d74e30a81d226d97d765910acce98967">
base/test/src/test/java/org/openscience/cdk/test/fingerprint/AbstractFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#92a746360ebe71a1a2ea182d5d9ef60fb6ba4f24">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAdductFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#bd2590c73deae159ea7d759512d5b1a8e2af8177">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAminoAcidTest.java
</a>
</li>
<li class="file-stats">
<a href="#8172e9755c92f60ee66a7a0f00628c218457335b">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAtomContainerSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#d34146fec5e586e819d87df70e56f5e7f4835697">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAtomContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#1172839ec3cad24e221400f8afaef4a4c8530d17">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a21937a4961ad06c72a40d6b50ab40013124bc1">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractAtomTypeTest.java
</a>
</li>
<li class="file-stats">
<a href="#7e53ba62cd3e59cfdb057f56b2752775f6a1da8d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractBioPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d3fe0d36ece6a68a252423a1a898e5d8dded874d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#abe675d6b68b7354de1adb3816205543fa5c078c">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractCDKObjectTest.java
</a>
</li>
<li class="file-stats">
<a href="#7b89de256a547f04f69fa072df66f05690752010">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractChemFileTest.java
</a>
</li>
<li class="file-stats">
<a href="#9699e02bc67b9c32accd49b15e5792d505ce410c">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractChemModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#faadd6609437fb335678dbac8c147495fb09bb10">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractChemObjectTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f5d36e1da147504f09bec53839f89ecd877c301">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractChemSequenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#a7b8371cd33835a884338cf3a046e50ae3e0e0cd">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractCrystalTest.java
</a>
</li>
<li class="file-stats">
<a href="#55e0eb24a807a960ae961ecb9b75c03ae986f9f8">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractElectronContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#39bd7a5cd8872811883145b4ac2cbbd8174f680d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a8b18ab046ab7732956c9e95fecce6c3a428bbf">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractFragmentAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#19104b2f64484704bb46db9c36e5c51f870e57db">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractIsotopeTest.java
</a>
</li>
<li class="file-stats">
<a href="#494b18df4f354be322497cf7a4e224725e29a3d8">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractLonePairTest.java
</a>
</li>
<li class="file-stats">
<a href="#3cf14ae682ad9b8257058bdf62734cad008505f0">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractMappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#6b2c334ae4e45d91fc4ca52fe96c95e04b28809c">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractMolecularFormulaSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#83cc553dc1fbca50cda30c28c9570bb3666a985d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractMolecularFormulaTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca55f57afd538fecbbadb8e354cd241a281aa1ea">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractMoleculeTest.java
</a>
</li>
<li class="file-stats">
<a href="#ee219c6df148bb94457d7eae897b4803d663414d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#8ed7bf92c320e6da1986b85f6aed76d4ac3c9acb">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPDBAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#b916aea11fdf946b4c2a17eae62dbdc496ce147c">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPDBMonomerTest.java
</a>
</li>
<li class="file-stats">
<a href="#ebbd92c01e42a90c2465aab16eac47302c375b4b">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPDBPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#deac22434ea7c68b6d0d5ccf433b2cf06c900a87">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPDBStructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#91ae68ef227a6c7d1fe812d4815208cfe86e77ea">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPolymerTest.java
</a>
</li>
<li class="file-stats">
<a href="#94267c6ae4ce579990985a7ca96465ca7caf9ea2">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractPseudoAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#a3ce0c7012a1411c9addd0b1141c197651f89d3f">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractReactionSchemeTest.java
</a>
</li>
<li class="file-stats">
<a href="#104908b75e59911152a9be13f1a6e71f1109b4e2">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractReactionSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#5f5a618ddcf91baae00f56020f067c603d31e66f">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#77e5423b294530d58ca3081d1cfdca93fc5dbb0f">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractRingSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce5d4360e2978baa6e8578ed22a74394c97ee83d">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractRingTest.java
</a>
</li>
<li class="file-stats">
<a href="#afed1d6c99f7c678bddb6dde8ff2586aafec8fab">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractSingleElectronTest.java
</a>
</li>
<li class="file-stats">
<a href="#cab37db39cf1acb325b88aae8df2d405b107af7f">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractStrandTest.java
</a>
</li>
<li class="file-stats">
<a href="#fd50fac8c6589be188f8cad410427859749c5a9b">
base/test/src/test/java/org/openscience/cdk/test/interfaces/AbstractSubstanceTest.java
</a>
</li>
<li class="file-stats">
<a href="#8ead598e82fa24e475cd58e63d4199605f83a50b">
base/test/src/test/java/org/openscience/cdk/test/interfaces/ITestObjectBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#7ebca17ea365ba0e65ff13418cca5223f83bdc7f">
base/test/src/test/java/org/openscience/cdk/test/io/ChemObjectIOTest.java
</a>
</li>
<li class="file-stats">
<a href="#0c553a0626be3d9022b18eb29bfae42f2c952997">
base/test/src/test/java/org/openscience/cdk/test/io/ChemObjectReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#9633f3cccbfd172142c57f01dcce2f75173034dc">
base/test/src/test/java/org/openscience/cdk/test/io/ChemObjectWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#2b93a31072c18154266a8a3370ac63698f78d96e">
base/test/src/test/java/org/openscience/cdk/test/io/SimpleChemObjectReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#cbb4519f1dff90f7fc39180bc332410c81695222">
base/test/src/test/java/org/openscience/cdk/test/qsar/DescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#98d4a5fd658f47e8da18cecf43b154ecc423e15e">
base/test/src/test/java/org/openscience/cdk/test/tools/AbstractLoggingToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#32a4db8a804f31aac7575f5b54ce0c3cb95cb814">
base/valencycheck/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#a29c1b62948b2ebeaae707dd98d2984a93c32966">
base/valencycheck/src/main/java/org/openscience/cdk/tools/AtomTypeAwareSaturationChecker.java
</a>
</li>
<li class="file-stats">
<a href="#24029379dee1b998a283fb57fd9837a4c62594da">
base/valencycheck/src/main/java/org/openscience/cdk/tools/CDKHydrogenAdder.java
</a>
</li>
<li class="file-stats">
<a href="#2c3c21a2efc84933aeb142a958d63f0ace95ef03">
base/valencycheck/src/main/java/org/openscience/cdk/tools/CDKValencyChecker.java
</a>
</li>
<li class="file-stats">
<a href="#e6124154534fb2763a3c2372d78fc97b9dcfca9e">
base/valencycheck/src/main/java/org/openscience/cdk/tools/IDeduceBondOrderTool.java
</a>
</li>
<li class="file-stats">
<a href="#d03a0a878c90d1c58374c4bc9a5958333c6efcda">
base/valencycheck/src/main/java/org/openscience/cdk/tools/IValencyChecker.java
</a>
</li>
<li class="file-stats">
<a href="#fc8099fa439543b1625632b6513fb6ea7b209ae0">
base/valencycheck/src/main/java/org/openscience/cdk/tools/SaturationChecker.java
</a>
</li>
<li class="file-stats">
<a href="#8571f2172edded98a229dd6839b70cbafc42f663">
base/valencycheck/src/main/java/org/openscience/cdk/tools/SmilesValencyChecker.java
</a>
</li>
<li class="file-stats">
<a href="#e0ea9239e00b8d281766288c5f1bab3285a117c1">
<span class="deleted-file">
−
bundle/dependency-reduced-pom.xml
</span>
</a>
</li>
<li class="file-stats">
<a href="#8930bf740032249223dc162625be917f46f32c8e">
bundle/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#5b39746d94c82dbd6ca7bcaa53e8463d4024df61">
descriptor/cip/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#d4b8b1fb1e42c419070e0081e9c2b9e7db902026">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/CIPTool.java
</a>
</li>
<li class="file-stats">
<a href="#42d06da9f98a8855386f8b01f27fde1a429885ce">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/ILigand.java
</a>
</li>
<li class="file-stats">
<a href="#98bd8618682ef4ebaf94aa08c8d7560290419754">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/ImmutableHydrogen.java
</a>
</li>
<li class="file-stats">
<a href="#0c3bdb5111939b67673fb8737a814bed1fb82241">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/ImplicitHydrogenLigand.java
</a>
</li>
<li class="file-stats">
<a href="#e27dcd98e768dc1e60be38a330cbe42011322cef">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/LigancyFourChirality.java
</a>
</li>
<li class="file-stats">
<a href="#3ad385ad0865280a2d248d3fc28bba8c9b06b7e5">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/Ligand.java
</a>
</li>
<li class="file-stats">
<a href="#3d91535190578b42c2999ce70f9e699f81a63878">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/TerminalLigand.java
</a>
</li>
<li class="file-stats">
<a href="#8073e88268a91f2e149319201186a5cef3e97f21">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/VisitedAtoms.java
</a>
</li>
<li class="file-stats">
<a href="#8468bf5643db0a7498bcd93bbbe4669cb17fb14d">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/rules/AtomicNumberRule.java
</a>
</li>
<li class="file-stats">
<a href="#440157657f764862cb48554c5e0ee1a496e2029e">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/rules/CIPLigandRule.java
</a>
</li>
<li class="file-stats">
<a href="#d096fa232bebdff68ad0d5f9f85ea41c2adad4ba">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/rules/CombinedAtomicMassNumberRule.java
</a>
</li>
<li class="file-stats">
<a href="#0eae8c6c86c4df42843163906e2b7df0af78efdb">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/rules/ISequenceSubRule.java
</a>
</li>
<li class="file-stats">
<a href="#5f06eebc4c4e010027e6269afc3e54697be602b5">
descriptor/cip/src/main/java/org/openscience/cdk/geometry/cip/rules/MassNumberRule.java
</a>
</li>
<li class="file-stats">
<a href="#715aff99ef947f396c54d381e98d630e398f57aa">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/CIPSMILESTest.java
</a>
</li>
<li class="file-stats">
<a href="#dca474bca625bbe2856995b17fb6a7669b68e7ef">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/CIPToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#f42761c7a3ead64dbf478feb24a4f7db0fa8103e">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/ImmutableHydrogenTest.java
</a>
</li>
<li class="file-stats">
<a href="#63426a40f91ade30c0394162ee3d26804d094a3d">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/ImplicitHydrogenLigandTest.java
</a>
</li>
<li class="file-stats">
<a href="#d65766768f82259f8981a5b0a9b67a2c266f00e5">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/LigancyFourChiralityTest.java
</a>
</li>
<li class="file-stats">
<a href="#be2b086d02b446b8aaf5e90e8a7f7746b6519140">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/LigandTest.java
</a>
</li>
<li class="file-stats">
<a href="#432f16f4ce50c6474116b4d730eee970dc8b066a">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/TerminalLigandTest.java
</a>
</li>
<li class="file-stats">
<a href="#08c224bc5f75cea7c82010d91a7effa3f0909c13">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/VisitedAtomsTest.java
</a>
</li>
<li class="file-stats">
<a href="#8dad8e640ed59a47bae3cbe14e52f2e62aeb0cd1">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/rules/AtomicNumberRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#a5468b847720116ef3caab0649460ea20e467150">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/rules/CIPLigandRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#e257f04e19ea8720f3e180925c69a246df3223c7">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/rules/CombinedAtomicMassNumberRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#5ebf5001584ce8846234ca39a5099f9b16bad784">
descriptor/cip/src/test/java/org/openscience/cdk/geometry/cip/rules/MassNumberRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#084a9ec1a06b33f0fe92ef6d9ad87cf573978456">
descriptor/fingerprint/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#1da520b436cb203eabc51626d60f577a3819aa46">
descriptor/fingerprint/src/main/java/org/openscience/cdk/config/fragments/EStateFragments.java
</a>
</li>
<li class="file-stats">
<a href="#407ec429862ebc8276b2b427e883d5fbc16f9a8e">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/AtomPairs2DFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#4dd9b9e335162c426392c6c087978ac806708c3b">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/CircularFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#51eab9128bf71f6714aca82f5a029401fd6db4fc">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/EStateFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#64a0e818a8da6d9b326d5f21dac88fa6777442be">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/ExtendedFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#99ab3b717db69b8f0272f23fcd8ae1cce106b244">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/KlekotaRothFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#6f4ed73bb15efe9f836bdb46fdeba69cd75af705">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/MACCSFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#a3b6ebec1b5c0aa36989d09574f8b8c799e19058">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/PubchemFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#298bf593408fd950b9ea770ee2df1bd772ff2701">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/ShortestPathFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#5c5c2ac6c27b163123aa7ebba0b2eef595c318dd">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/ShortestPathWalker.java
</a>
</li>
<li class="file-stats">
<a href="#2e446043ef6f89a4126c4fb1a28f2357324b4a65">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/SimpleAtomCanonicalizer.java
</a>
</li>
<li class="file-stats">
<a href="#376d06dc2e11f7c3e81b99de13aeef98f3206508">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/SimpleAtomComparator.java
</a>
</li>
<li class="file-stats">
<a href="#765c226430c83ff28757a4ca84473ff45ab5279f">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/StandardSubstructureSets.java
</a>
</li>
<li class="file-stats">
<a href="#71b1f4ae802e95bd634eefc1526876ccfb48dffb">
descriptor/fingerprint/src/main/java/org/openscience/cdk/fingerprint/SubstructureFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#6695db612b64780231a08dbb0809234b3c91ded2">
descriptor/fingerprint/src/main/java/org/openscience/cdk/similarity/DistanceMoment.java
</a>
</li>
<li class="file-stats">
<a href="#4bfb389242d78f568aaf799187b6becda942a867">
descriptor/fingerprint/src/main/java/org/openscience/cdk/similarity/LingoSimilarity.java
</a>
</li>
<li class="file-stats">
<a href="#4da879946c9c9998d5ec99751229045c7067d30c">
descriptor/fingerprint/src/main/java/org/openscience/cdk/similarity/Tanimoto.java
</a>
</li>
<li class="file-stats">
<a href="#ff981c7a93229478031d46f5192f70612fefb08f">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/AbstractFixedLengthFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#5527fa8be054b75dccfb626aaa4619ea3e55a2e7">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/AtomPairs2DFingerprintTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce3a78c354fb4d5cf66b8b3218ad656d7eb535d9">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/CircularFingerprintSmartsTest.java
</a>
</li>
<li class="file-stats">
<a href="#a27e37ea7e66cdf01a0f4a9ed614a34d61b61fd6">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/CircularFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#c2b7ca4d7e00b10e07eced0a27bfc6ab986f339d">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/EStateFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#18d8428172fe3ba33ccc28d93ceb159e798c9796">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/ExtendedFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#db6b83e7e9b0ab9486af7d15f162559de6c79e96">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/FingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#b7778fd03f7b3433fb02ec416355135bc3a6235c">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/FingerprinterToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#b5119c6f3e8bbac3d7ef443296049a692d5d0577">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/GraphOnlyFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#c99d1466675efa71cfe61f40a1609bde79ac2caa">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/HybridizationFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#aa9537febd0b778d64717512ae04af86ab5da457">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/KlekotaRothFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#7161551203e506d709a501ae0c75fbd74d27a810">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/MACCSFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#df014881d04526a162891b4db060167243985b66">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/PubchemFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#caa88cc27f1a300a3bdb4f4965aa394d2a65a504">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/ShortestPathFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#8348ae8390b5bdb1fc84fb5914ec0d88324250bc">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/ShortestPathWalkerTest.java
</a>
</li>
<li class="file-stats">
<a href="#88596895d0a5a2b68255a5b452cb04899387b5d0">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/SimpleAtomCanonicalizerTest.java
</a>
</li>
<li class="file-stats">
<a href="#f97758415fb48891879679fb525f706a34447aa2">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/SimpleAtomComparatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#57a95c1ac387ccdd1e01e23629a5da4999d624e1">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/StandardSubstructureSetsTest.java
</a>
</li>
<li class="file-stats">
<a href="#be94a583c9224c715bfe41e08194d4f2dfe51b1f">
descriptor/fingerprint/src/test/java/org/openscience/cdk/fingerprint/SubstructureFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#baca9e62102f7e2bd1a1aac02ea28b976c7a2a4f">
descriptor/fingerprint/src/test/java/org/openscience/cdk/similarity/DistanceMomentTest.java
</a>
</li>
<li class="file-stats">
<a href="#32444d3205407de3c606684ad3f7dbb846121fbb">
descriptor/fingerprint/src/test/java/org/openscience/cdk/similarity/LingoSimilarityTest.java
</a>
</li>
<li class="file-stats">
<a href="#6c0b85e4914b389ff0a31a8511ea9674983fda27">
descriptor/fingerprint/src/test/java/org/openscience/cdk/similarity/TanimotoTest.java
</a>
</li>
<li class="file-stats">
<a href="#0d6ba108da4d55c9b3e7f499b1c4cce0b6e23cbc">
descriptor/ionpot/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#f40648dcd1140f38040b0ab59f6fc21a66624c22">
descriptor/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#04df018cd7de977cb193b5825a9de9261f1c7d3c">
descriptor/qsar/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#e12e545e106935a875b9f91cf8192d9958160356">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/AbstractAtomPairDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#25efd38a37d2156ab061154b44d9a8f14970e424">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/AbstractAtomicDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#7bc8072057296c84791818cfa2f9616837c68316">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/AbstractBondDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#73b7dcaa9ce5e82e23c542e89d6cc114d7259f09">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/AbstractDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#a5f2d839a9ffe48f6556cab2bd7d4db027565a48">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/AbstractMolecularDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#00c8e396288b4daf2113acc4294217bfbe495f23">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/DescriptorException.java
</a>
</li>
<li class="file-stats">
<a href="#21bd5b4dca439cc104b1f0768c98c7fb26475fa9">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/IAtomPairDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#ac7b3bb3bf9fb880bf9ea3e2fe6903226d75b8c3">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/IAtomicDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#6746cb0f99c3e0a8d73513174f00b1d6f1507f68">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/IBondDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#9e3570d982a29f49438e5ee4998d34e7daf305b4">
descriptor/qsar/src/main/java/org/openscience/cdk/qsar/IMolecularDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#13222a96fd6372cad078dbafcd03f49cf6d8ad01">
descriptor/qsar/src/main/java/org/openscience/cdk/tools/AtomicProperties.java
</a>
</li>
<li class="file-stats">
<a href="#705cf0f11d85e3bd9569df6a59a854957170fc54">
descriptor/qsar/src/test/java/org/openscience/cdk/qsar/DescriptorExceptionTest.java
</a>
</li>
<li class="file-stats">
<a href="#2c29f6a78e33bd9990804ab45713b9ca1959dce3">
descriptor/qsar/src/test/java/org/openscience/cdk/tools/AtomicPropertiesTest.java
</a>
</li>
<li class="file-stats">
<a href="#660a062562b3083cfd4baba7c97f21bc96a5c864">
descriptor/qsaratomic/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#522c3cecf6cad9774db8fe962495d17ded3fe9fe">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/AtomDegreeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#1e150b3d2b72c2bc2f44a807009924a2942b446a">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/AtomHybridizationDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#0a1ff1c58282ed09e37b0b0d49c3f3b444503244">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/AtomHybridizationVSEPRDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#29a90313de12813a368c466f6b259b2d63dc311a">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/AtomValenceDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#c818911602a2499c4f91f748f5d247e69dd7e062">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/BondsToAtomDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#4d05c49395c3a7ee2f8532bcdcc2d3b832b250eb">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/CovalentRadiusDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#26aeac6d92b4900c3a4aa16447c02b47d03e14c2">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/DistanceToAtomDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#61261567f7b46de72deb5802b2e92dc4196c7277">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/EffectiveAtomPolarizabilityDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#ac58ecd900e8867d2a5d6256ad2ad50b466d4aaf">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/IPAtomicHOSEDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#eb8cbd0549ed5f550c7087e227859d7276e88d7d">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/InductiveAtomicHardnessDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#aa1570df3d5fc4d4d68af42e7dd4ca13aed26e4c">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/InductiveAtomicSoftnessDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#6d0ca3c5fe9515e917f510c09787e7a1657f449c">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/IsProtonInAromaticSystemDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#fdbf4018a324a57bea0c5d6b55da738b2b8a3838">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/IsProtonInConjugatedPiSystemDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#1d1664b5c0f73dbeebb52146870ae2e229355ad7">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PartialPiChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#3e73b8d98b6b98133b3e789069198a236534d96e">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PartialSigmaChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#6149502824c1bbc94ec28957348f91a3639b2578">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PartialTChargeMMFF94Descriptor.java
</a>
</li>
<li class="file-stats">
<a href="#939f24b6ee6a45abbcd4241156abb54b76dc2ea3">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PartialTChargePEOEDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#95ed7e4cc2b6d9607216452a0e3b5da7fafd91ff">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PeriodicTablePositionDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#328d82c3ca071cd8d34fe41ba7aee5067176495a">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/PiElectronegativityDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#07e0845ef757ffd8364417b1f96b344ed0c8018c">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/ProtonAffinityHOSEDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#e39bc146ffe0a76f2a17112069522aefbfae6e86">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/ProtonTotalPartialChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#58d3739c5142081d3ad6b9e53d67b69b43943b49">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_G3R.java
</a>
</li>
<li class="file-stats">
<a href="#e04bb0c3fd968d4a747b80e1ddb0d3a46e9af0d1">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GDR.java
</a>
</li>
<li class="file-stats">
<a href="#787472d0fe5a8141a7b48311caebe6813fc0e241">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GHR.java
</a>
</li>
<li class="file-stats">
<a href="#5281edb00c08bd01294693723407d96da85c39eb">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GHR_topol.java
</a>
</li>
<li class="file-stats">
<a href="#c3ca6a268c6a9554cac11c54c13d77f6f6e660e7">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GSR.java
</a>
</li>
<li class="file-stats">
<a href="#418a2b034394e70b8a6e692ab2eb298043e25c06">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/SigmaElectronegativityDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#e24ce3abdb231919a28f597abc15400ce8a26f18">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/StabilizationPlusChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#5afe95ac4dac9a1f9f854b727275308531bab118">
descriptor/qsaratomic/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/VdWRadiusDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#08d2da506b01c4e1b6306652292d556322f8868e">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/AtomDegreeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3475df8f2613a92fea7fbda69606f8f7b0fde013">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/AtomHybridizationDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a51dfa0c3eec295823aa2f9553c5b2f9195fcd69">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/AtomHybridizationVSEPRDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3bbf7688095d835c7ddd3ae0ba3410dc8b4430f7">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/AtomValenceDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#7a8754f565b515a7c4543336b70cfd16874a4170">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/AtomicDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6fae2980c925d9dcd7b477fc72dc7273f8a69329">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/BondsToAtomDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a24be6439ad9e86feef81e05ed99aadc3e8e5240">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/CovalentRadiusDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#142b575475b5a13e7641545d63a70feb2898c51d">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/DistanceToAtomDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#12d4a80984d48e803b13d493bdd500193994f6a8">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/EffectiveAtomPolarizabilityDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#c3b0fabc582506a35962077f831d190ddf9fac5b">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/IPAtomicHOSEDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#83fd8b9df4cba2ff6f49ec5874aec1d5a1e9d8bf">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/InductiveAtomicHardnessDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8e320f3ce7d12b8087a848fa45ee435f36a7cea2">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/InductiveAtomicSoftnessDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca8002c2dfd706aeae6b4b606503d5884986c023">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/IsProtonInAromaticSystemDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#de983b965969de2eaecf231ec902d04b8b4dd57a">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/IsProtonInConjugatedPiSystemDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f2f6511abdd4d91a91f8f039c3544d9cdf6d18f5">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PartialPiChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#888e6cde75a1436a1700c337e4cec0f82c4abb83">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PartialSigmaChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#025c17fdb32a30358a3af9878c1e96fe4956107e">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PartialTChargeMMFF94DescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#e23eddf702b7ebb43375e6e1d23b8d529a35d6b8">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PartialTChargePEOEDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ed82dc5ab36ce7bc2a1fc4e6b0c18a165eeeee6c">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PeriodicTablePositionDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#c4df11a160519c46fd61bcf859dd60f5b168e3af">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/PiElectronegativityDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f9b7678b3d7e7df257eaf8cbffd4fcb2d0ed231e">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/ProtonAffinityHOSEDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#80418f522abdd5c652e29607418c55c41959e818">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/ProtonTotalPartialChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#dd4c5abcd6883826530b59c2d53c18741b31f009">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_G3RTest.java
</a>
</li>
<li class="file-stats">
<a href="#1f91fed3c3dabb405982a7e371820e0c23ff5671">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GDRTest.java
</a>
</li>
<li class="file-stats">
<a href="#0f3d86d80c8bcdb16203fd64091158baac71287c">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GHRTest.java
</a>
</li>
<li class="file-stats">
<a href="#0877e8861865ad4d254fc45d4b2c20995ffd6f49">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GHR_topolTest.java
</a>
</li>
<li class="file-stats">
<a href="#15c40407a217aae9c7a1b3aa63b889c7cbe69688">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/RDFProtonDescriptor_GSRTest.java
</a>
</li>
<li class="file-stats">
<a href="#7b7152d4e86babbe63694a5da5e97c6aa3e4f49d">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/SigmaElectronegativityDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d20dbe3bb232e5f6e552c786c927c15f496d8318">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/StabilizationPlusChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#fd6740e28103a72df79ca934f2a2abffe59ea307">
descriptor/qsaratomic/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/VdWRadiusDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3ea9a6f3413288036cf8b128a1ddb73316b9310c">
descriptor/qsarbond/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#af65d13a5b6a2e4a941b8020c3e2b9d29bfb090a">
descriptor/qsarbond/src/main/java/org/openscience/cdk/qsar/descriptors/bond/AtomicNumberDifferenceDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#58ce6f509f1ab8257c4f526c03ed00a47256de03">
descriptor/qsarbond/src/main/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialPiChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#15a6a4fa9d59ed231cd20f5d64b014616a5d4eae">
descriptor/qsarbond/src/main/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialSigmaChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#db8637c09777597ee401f55b883e57721e9de3af">
descriptor/qsarbond/src/main/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#34472d0d24f472321211673181e97e29f2cfc4c6">
descriptor/qsarbond/src/main/java/org/openscience/cdk/qsar/descriptors/bond/BondSigmaElectronegativityDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#bca70810041fe323c8fa2a16024074a10c6de1ad">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/AtomicNumberDifferenceDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#676ca0c0da58b2e3dfc4f90c6c06586e49274186">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/BondDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#58af478e14aec1e0d181257aec093aa2bf9212b1">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialPiChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#c41ce4eada3fb4bc87ebb1999080407f99bee055">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialSigmaChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8530b9f8d1759862ddd45f5690da07487b4ae161">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/BondPartialTChargeDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8dd2c16d6f9c84a78e089f998e46751e72dcbc49">
descriptor/qsarbond/src/test/java/org/openscience/cdk/qsar/descriptors/bond/BondSigmaElectronegativityDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#dfa0f2adc6cc8c9ec1c2bf85d26c6a49813824f2">
descriptor/qsarcml/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#4181ef7b8d84dddc88770352319b8df736e21a4b">
descriptor/qsarcml/src/main/java/org/openscience/cdk/libio/cml/QSARCustomizer.java
</a>
</li>
<li class="file-stats">
<a href="#dfc8f126eee09147b7ddda4bdb00ed61682a6444">
descriptor/qsarcml/src/test/java/org/openscience/cdk/io/cml/QSARCMLRoundTripTest.java
</a>
</li>
<li class="file-stats">
<a href="#ecc6b28ead0963e660bfd5c72449cce10553d639">
descriptor/qsarionpot/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#7fea7b51407e029f051943b0ed04635b47474e61">
descriptor/qsarmolecular/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#2a7b00ac74ef94ab677d204243ab40f7599d5a0e">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/geometry/surface/NeighborList.java
</a>
</li>
<li class="file-stats">
<a href="#52fba07ac97f7c58b638f4926b24662838d68bd5">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/geometry/surface/NumericalSurface.java
</a>
</li>
<li class="file-stats">
<a href="#ce65dded055084c869a2fa6824b1bd011e192075">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/geometry/surface/Tessellate.java
</a>
</li>
<li class="file-stats">
<a href="#6a6a8f32c96baf50e9c21a5f613e2924aad50d3f">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/geometry/surface/Triangle.java
</a>
</li>
<li class="file-stats">
<a href="#513013e9331a2dfc66f6a0ad1da9c403144a473b">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/graph/matrix/TopologicalMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#f373ce8e5162b4f9925be01fcefb509cc268ce6b">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/DescriptorEngine.java
</a>
</li>
<li class="file-stats">
<a href="#af266d813715e77f5e2300598a546beb862bc694">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/atompair/PiContactDetectionDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#62dd17d5edada99dbdecf2ff962a30751d9fa362">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ALOGPDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#886ec61dc8ca0d6c32878c66b9543f672d6d8bfc">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/APolDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#5e3664e9dbd73036438e34bdda628094f0824acd">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AcidicGroupCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#093263c3160048da48b444a8a4c7bd2b895df954">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AromaticAtomsCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#2e4b6f42066e8d74e8d86e132c8c6f92fc7b9b37">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AromaticBondsCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#d6af2f324269d0e8214e5d81625749a5e542173f">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AtomCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#20d67a861bc0c4b18c708edb4101e6d0035782f9">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorCharge.java
</a>
</li>
<li class="file-stats">
<a href="#af5aca24c5ec2b250d4dcf4569d967765dcbe230">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorMass.java
</a>
</li>
<li class="file-stats">
<a href="#a43e426b3c0685a0449e3ec758b77e5b79db3e99">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorPolarizability.java
</a>
</li>
<li class="file-stats">
<a href="#fa00951449be6c2599cc6e7168cfe2d2595d678d">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/BCUTDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#c6ca163d5d6fc7496d71bd6895c6f78890112577">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/BPolDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#bba2738cb19696a4e2e1369d577f50944f4adf80">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/BasicGroupCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#a2a164353cc61652995e5cd7dc988bf0989fc74e">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/BondCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#cf6c7e1387c7ec8b9d52a72e0707c26ee3af8170">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/CPSADescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#a6f5f561e591312e45221332d51e48b4225f30fc">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/CarbonTypesDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#b29a75931c2ae144808c73f5d30371aa557f379a">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ChiChainDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#f74993ac3d7335f865a69320aa5ba6493cbfaa5b">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ChiClusterDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#e446d5eaec8b1c00786be9d4c33ea899b7cfa047">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ChiIndexUtils.java
</a>
</li>
<li class="file-stats">
<a href="#b90a1c1c653cf0784bc2509d39fa5cee5d8675c4">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ChiPathClusterDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#f55002318bd95f54b532f1678cb996255ef706f3">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ChiPathDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#24620d9bf88c1e03816ad2ac500726fa9eed499b">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/EccentricConnectivityIndexDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#f295e70485209476c80818c38086ed733b23d316">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/FMFDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#922109ee4b81a39f50cde0a0aea76b4f06b26718">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/FractionalCSP3Descriptor.java
</a>
</li>
<li class="file-stats">
<a href="#bae2a54b1d4f5952c931c045db7eaeddc12e61cc">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/FractionalPSADescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#c1bf0808d1e2dedd0e6ae114bc6df074728e86ff">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/FragmentComplexityDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#94c4ff31a2f0973a046c52d3d7501cce892730b3">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/GravitationalIndexDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#3012d5f28f42dce0e3b3c4e83fa66e33d360dbb7">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/HBondAcceptorCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#755f475d7feaa0c81feebca57f8f3ceb28fb5109">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/HBondDonorCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#63b36b9c0d9ab4c239550dfe4f2051b2b225b087">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/HybridizationRatioDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#98e7b9ddbb5f4111f81ecbe5ab151b796b61bad0">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/KappaShapeIndicesDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#64b697200809b7966c18ba022c92149e678bf0b1">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/KierHallSmartsDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#682b286f31b69cbf562ce0249a600f3c8a26f065">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#6b86f75217e42c86be749550277f049d4bb2c03a">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#623db725e4d891cda6b25d0d81e6be2dfa5f8f6d">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/LengthOverBreadthDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#c3b9694bd8f91fa3781bf5557d83d811950677ff">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#e263782756947007cd0b8a3050e29392c59a9803">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/MDEDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#2b9181f63d5a32bab77c774faa0959d50ebc4166">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/MannholdLogPDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#d4c29e2d28a25a9c36a5b55e1ac676587a50f4f2">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/MomentOfInertiaDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#ca3dc45728c26f41611a323408296616796d23be">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/PetitjeanNumberDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#daf0f557e9bf381e0e9e6b50283143d34e6b02b8">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/PetitjeanShapeIndexDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#0ccffc187e273a63d30ac19a81b58e6b8bf2f341">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/RotatableBondsCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#f8e1de6c3d16a426360cf8246515cf6026183083">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/RuleOfFiveDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#3d850bd8d3b247e1aa02237d31be38eeb32ca03d">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/SmallRingDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#0753741efc58be3a98a6d1dd58df5759b677de40">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/TPSADescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#0653091325e748232b6895f59d5c2f0eec21be52">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/VABCDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#9a8a06077c433c9732cbfa6d1f6bb1807e278f47">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/VAdjMaDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#6aa77641eb1085cd7fd3131e2b6bf701fe61edb2">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/WHIMDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#2f06bb53a7fc358d6568fa1cc42b9dfc455d42e0">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/WeightDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#0ebfcfc5be0557f6e5471a0e01f36bebed5069b6">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/WeightedPathDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#5b985d8853dbb379837ef5cfd1a23b7a64501f7a">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/WienerNumbersDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#2df3e268908b36f189a0da8d9ba27ea026c8292f">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/XLogPDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#b528885695b7c08005809efd2b056ce2b0d7c48f">
descriptor/qsarmolecular/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/ZagrebIndexDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#266a40600ddb02e8fb6beea54c3b1a598d2d11e8">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/graph/matrix/TopologicalMatrixTest.java
</a>
</li>
<li class="file-stats">
<a href="#ecef0cec88883b368da71e852402bc373391f009">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/DescriptorEngineTest.java
</a>
</li>
<li class="file-stats">
<a href="#eff676b576f28be79430cb45bf5da6b918be937a">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/DescriptorNamesTest.java
</a>
</li>
<li class="file-stats">
<a href="#cd794d61b6fbf75cd17eab4c7aa311c18254671b">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ALOGPDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8f6451bd5e4bb68774f67d654cb4c7905f894c64">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/APolDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#db079e4ce2bcbe5b2fc448ab05e09096ae3b5b0a">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AcidicGroupCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#b428bfbb67affa00c1b02e5d49dcd8766a2ec252">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AromaticAtomsCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f26199e4aa177906fc8a7fa57e8842201b79e48f">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AromaticBondsCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#26c3ff169de1cd9869e2728c06a04cb5303a2d95">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AtomCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a3ab223255fc678d08071e260be4a476ff3b7610">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorChargeTest.java
</a>
</li>
<li class="file-stats">
<a href="#2a949b15d86b4fbc4a810e66f236987e5018db3a">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorMassTest.java
</a>
</li>
<li class="file-stats">
<a href="#2fc786996d7ef43d0f83634e1f734fb58721fa8b">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AutocorrelationDescriptorPolarizabilityTest.java
</a>
</li>
<li class="file-stats">
<a href="#2babc6f0dfa9260f9d8c17f0444850d523f676da">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/BCUTDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#caa95ee9bfa9c6d9c3abe175e0adef45c154fb54">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/BPolDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#fcd1b87f1049ff283a0b691cabf57542060c0c93">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/BasicGroupCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#5f6e863780fe9cdb914981528e5c49dc251b3845">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/BondCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4e335c73d58e19e5a94adeefecf48e761274acc6">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/CPSADescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#558fa22611d5f61a1a3dedeaa6077d75d3a2adaa">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/CarbonTypesDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#98ded3c1c3b2d2c0680dba87afaef1b9f287d8ea">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ChiChainDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8941218cd8fdea51d95b3481ef8ae9fd8b96f727">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ChiClusterDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#b423c38a92a457aa836541391e94b5a6afc85a97">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ChiIndexUtilsTest.java
</a>
</li>
<li class="file-stats">
<a href="#1c3b15299fe2ca82a4798804e361605b8c88684e">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ChiPathClusterDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#89f65c824c0284fdbe7d65ec524296086e9ee1b8">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ChiPathDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc40a39a96f99203dc0662d6cbed32b08ad2f1d7">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/EccentricConnectivityIndexDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#5bb1dcd8fbf3b51b359e1b9de5f2699c7fff27a7">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/FMFDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#10ad5a06a657004dc6e3d482a666a5637a2818a0">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/FractionalPSADescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#43682c2fee3471fdfd851b2ed382ff7224a85d65">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/FragmentComplexityDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4659989dd23e3bf057bae4f5c1d25d4710baa332">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/GravitationalIndexDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3077cf75a1a8d86a3ff1a168100e4f6a77b59a63">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/HBondAcceptorCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#51bbfaffd1400d7090dcf9ce1de12f82690e94d7">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/HBondDonorCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#60e00e4fca1c772d4ea0db87548595387e1bdfee">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/HybridizationRatioDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d249a01344dc59782fccbd584cce426d8e7febc5">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/KappaShapeIndicesDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#aaaa0356398983a63cfba4807c6cc4450ca7762b">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/KierHallSmartsDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f396ecd070a42f6fa34d0a3091ebaee5aeada65">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/LargestChainDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f424b4bd11600ceecf74ab39b3e171211983a6db">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/LargestPiSystemDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#45d479d6dbfcadf87d5bed48cdd9a45f1a99832d">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/LengthOverBreadthDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#1641d520f64117e9fc60d12152b821edfc3a84a8">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/LongestAliphaticChainDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bbedd69e932634e03325b9063c896665d911c238">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/MDEDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#9f86e9b0c888b090110fb8c8d6b66eb077b1295b">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/MannholdLogPDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bcc572a40444f1e85674eccadbf8ece62a3eac9c">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/MolecularDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f8aa5a334538e299c2941dfdafb7528b2c4b8144">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/MomentOfInertiaDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#95bad7e2505da4eff77603aa63e5023497699a91">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/PetitjeanNumberDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0b6c06710b52a5da8ed31b2c024619aea71495f2">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/PetitjeanShapeIndexDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#09d0de14dc8125caf640b9a0a90f0ea1e4c27469">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/RotatableBondsCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#2aa19083158d5f095da623391c5a80a378ebfbc1">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/RuleOfFiveDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8f1ff1ab8794bc6ef2b72b970ddbe2e7a076a5c6">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/SmallRingDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bc6232c68fd273d3f12e188662463aa43cc679ee">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/TPSADescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4531e5ced26555fb8a17eaf978dd7bc278557f6b">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/VABCDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#453fad47908d1889361ca6caed3174dc1ea207bf">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/VAdjMaDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d5bacc1159ef0c279feb6e9e03ab63348dbfe5bb">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/WHIMDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#51e1d1dde8ee5ff77f86702e9426294a9394f093">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/WeightDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#26e46018cd932332d6a405155add36c3a8999939">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/WeightedPathDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6371dab0562e86d57a7f6a83998ad5e9c5e6d39f">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/WienerNumbersDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a29693c6d3f1a86f8756128f65dfb908f974f23a">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/XLogPDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#c037c05ae8a98a9d313a1430be4ff4b1075d6921">
descriptor/qsarmolecular/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/ZagrebIndexDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d831c1a25e3a43ddafdbaa9c0971bfed5ef23491">
descriptor/qsarprotein/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#796e61a46f2f31c180c3475f80b2ca059c36b2d3">
descriptor/qsarprotein/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/AminoAcidCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#a9169e8023eee046f5a48d1f52277e21fc349afa">
descriptor/qsarprotein/src/main/java/org/openscience/cdk/qsar/descriptors/protein/TaeAminoAcidDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#82dabe2ad3a2354e6cfcaf9eca1f7b925edf4580">
descriptor/qsarprotein/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/AminoAcidCountDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bbe059be202739062cc8a82872f7809c6298a23f">
descriptor/qsarprotein/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/MolecularDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#888beb6c6cdc1b36e624d9dcf95ae86c74250c0b">
descriptor/qsarprotein/src/test/java/org/openscience/cdk/qsar/descriptors/protein/TaeAminoAcidDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ab451b57399c9aee4a3369e9757e1ec398c117f7">
descriptor/qsarsubstance/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c1320c9f7222e480ccf42f14dbceb3fe410d6adf">
descriptor/qsarsubstance/src/main/java/org/openscience/cdk/qsar/descriptors/substance/ISubstanceDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#fe3df57615df67fec74a52a95a15b64055c29b93">
descriptor/qsarsubstance/src/main/java/org/openscience/cdk/qsar/descriptors/substance/OxygenAtomCountDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#b39fe5b87703e25253a28dc0d592f15cc6613e88">
descriptor/signature/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#e243a8dabb408bf9cbf0ec1c7abc5328685c8887">
descriptor/signature/src/main/java/org/openscience/cdk/fingerprint/SignatureFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#f4377d8b2f630cb9faa27868a079599f3b51ef16">
descriptor/signature/src/main/java/org/openscience/cdk/signature/AtomSignature.java
</a>
</li>
<li class="file-stats">
<a href="#f1e4cd28372626e8c0dfee34580b1089282b13f2">
descriptor/signature/src/main/java/org/openscience/cdk/signature/MoleculeFromSignatureBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#3e4062b1bf1d586426aaf62bd9921c53b90f0130">
descriptor/signature/src/main/java/org/openscience/cdk/signature/MoleculeSignature.java
</a>
</li>
<li class="file-stats">
<a href="#1633b67deb6a773d9ad0a287e20236a89876c57a">
descriptor/signature/src/main/java/org/openscience/cdk/signature/Orbit.java
</a>
</li>
<li class="file-stats">
<a href="#00ee8f81dfe9df8408af3738f541916339787a21">
descriptor/signature/src/main/java/org/openscience/cdk/signature/SignatureQuotientGraph.java
</a>
</li>
<li class="file-stats">
<a href="#b963063186a17145a9d21d37b3e935df725d60a6">
descriptor/signature/src/test/java/org/openscience/cdk/fingerprint/SignatureFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#530458ff5081eaeb06f557219697d5aeccc1b5b9">
descriptor/signature/src/test/java/org/openscience/cdk/signature/AbstractSignatureTest.java
</a>
</li>
<li class="file-stats">
<a href="#200bea4328cbf4136c4d3fe8853adf86546f94de">
descriptor/signature/src/test/java/org/openscience/cdk/signature/AtomSignatureTest.java
</a>
</li>
<li class="file-stats">
<a href="#9e284608d7045ae819be93f13b0d6b7c261d5e34">
descriptor/signature/src/test/java/org/openscience/cdk/signature/MoleculeFromSignatureBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#8f0320b16aa65d6fe53dd3238a252e905748f65b">
descriptor/signature/src/test/java/org/openscience/cdk/signature/MoleculeSignatureTest.java
</a>
</li>
<li class="file-stats">
<a href="#20cf8f8007f04bdb3369c65f58c9573ac4fa36ca">
descriptor/signature/src/test/java/org/openscience/cdk/signature/OrbitTest.java
</a>
</li>
<li class="file-stats">
<a href="#9eb70e8b99a35d15d55f4c6ac27586f4152ef4af">
descriptor/signature/src/test/java/org/openscience/cdk/signature/SignatureQuotientGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#43a6d52a735adbf7e34080cb01188c4bcd76cdf5">
descriptor/signature/src/test/java/org/openscience/cdk/similarity/SignatureFingerprintTanimotoTest.java
</a>
</li>
<li class="file-stats">
<a href="#2f1b778675269741062e8ef438a644b5f35234bb">
display/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#4fe822ab9e8e2497d9c91e75f080511d9bc9c78f">
display/render/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#59e1494d027903b516b25f3478c0dfab7d2e9457">
display/render/src/main/java/org/openscience/cdk/renderer/IRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#715d2824449c2b9fd8d68d786fca9b616982feb5">
display/render/src/main/java/org/openscience/cdk/renderer/RendererModel.java
</a>
</li>
<li class="file-stats">
<a href="#10ecf50236928c8ebe5614f9644c3a4822f4d99d">
display/render/src/main/java/org/openscience/cdk/renderer/color/CDK2DAtomColors.java
</a>
</li>
<li class="file-stats">
<a href="#8ef500f4dbcac0f89a673dd17d2c6757d3090162">
display/render/src/main/java/org/openscience/cdk/renderer/color/CDKAtomColors.java
</a>
</li>
<li class="file-stats">
<a href="#546c23d4f1e3795bce0bc693a06010bd6f35d982">
display/render/src/main/java/org/openscience/cdk/renderer/color/CPKAtomColors.java
</a>
</li>
<li class="file-stats">
<a href="#849e697d75ce666cd6a7ce71c4785478f8c6b639">
display/render/src/main/java/org/openscience/cdk/renderer/color/IAtomColorer.java
</a>
</li>
<li class="file-stats">
<a href="#0ba6cef04e659743fdb896dc521b21abb5ce9023">
display/render/src/main/java/org/openscience/cdk/renderer/color/PartialAtomicChargeColors.java
</a>
</li>
<li class="file-stats">
<a href="#a147809c45108ae308ae331591f7a7b7af49dc38">
display/render/src/main/java/org/openscience/cdk/renderer/color/RasmolColors.java
</a>
</li>
<li class="file-stats">
<a href="#ecac95803a343f66de97be13896360c08719d863">
display/render/src/main/java/org/openscience/cdk/renderer/elements/IRenderingElement.java
</a>
</li>
<li class="file-stats">
<a href="#dbffbf190cc38302970110949b8903c6ce8799c5">
display/render/src/main/java/org/openscience/cdk/renderer/elements/IRenderingVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#e4ae6751497f54cfbeab8bd6d52e52909db74ed9">
display/render/src/main/java/org/openscience/cdk/renderer/elements/TextElement.java
</a>
</li>
<li class="file-stats">
<a href="#22b594c7d66ce46a5e5d3699027b3001230031a4">
display/render/src/main/java/org/openscience/cdk/renderer/font/IFontManager.java
</a>
</li>
<li class="file-stats">
<a href="#b19aa18449d0acdaa2d2792185e266c698ed79e3">
display/render/src/main/java/org/openscience/cdk/renderer/generators/IGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#07af4493dab9b839ee46e2451c888aca57d4c025">
display/render/src/main/java/org/openscience/cdk/renderer/generators/IGeneratorParameter.java
</a>
</li>
<li class="file-stats">
<a href="#bed2980e0cb7483a428f4c1336e4b367ca8e415a">
display/render/src/main/java/org/openscience/cdk/renderer/generators/parameter/AbstractGeneratorParameter.java
</a>
</li>
<li class="file-stats">
<a href="#f928959ec5daab500657d0d9559aa92b01dee7ab">
display/render/src/main/java/org/openscience/cdk/renderer/selection/IChemObjectSelection.java
</a>
</li>
<li class="file-stats">
<a href="#100bb8150bf4b1cdb6652993ca0df92380e0b3b9">
display/render/src/main/java/org/openscience/cdk/renderer/visitor/IDrawVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#489b426c15142b201a07c977fa6228206b7cedce">
display/render/src/test/java/org/openscience/cdk/renderer/RendererModelTest.java
</a>
</li>
<li class="file-stats">
<a href="#a860b40c06e0be2761fff7135c080bc04a9e20a6">
display/render/src/test/java/org/openscience/cdk/renderer/SomeParam.java
</a>
</li>
<li class="file-stats">
<a href="#3697f02c4a38d9bf11ceae5d673c6e23d5740b23">
display/render/src/test/java/org/openscience/cdk/renderer/color/CDK2DAtomColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#1f30c6515042dee528cba0b297652d3a3cdac61e">
display/render/src/test/java/org/openscience/cdk/renderer/color/CDKAtomColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#b7e1a50292b8d63fce6a96b76b25ca639a7093ee">
display/render/src/test/java/org/openscience/cdk/renderer/color/CPKAtomColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#cb1b6401c7ea3eb86e126b2fd827b8cb674b5a58">
display/render/src/test/java/org/openscience/cdk/renderer/color/JmolColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#7cf705fb71e92e4ea307a5098270191b01a5b728">
display/render/src/test/java/org/openscience/cdk/renderer/color/PartialAtomicChargeColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f76667afb55ff36ccbc512d218575a82c1be6f4">
display/render/src/test/java/org/openscience/cdk/renderer/color/RasmolColorsTest.java
</a>
</li>
<li class="file-stats">
<a href="#28112448e7fb54c0a20c76f5c5aaadcf1f80aa21">
display/render/src/test/java/org/openscience/cdk/renderer/elements/TextElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#a5c99a83fa8defa1ae18a6bd306e7b73bfb9b5d3">
display/render/src/test/java/org/openscience/cdk/renderer/generators/parameter/AbstractGeneratorParameterTest.java
</a>
</li>
<li class="file-stats">
<a href="#8bee31f1ad65b0aff4c90d2f1bc29ab378fbf4a5">
display/renderawt/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#b5aa3630f16254c1aae171a87016b00c527631a2">
display/renderawt/src/main/java/org/openscience/cdk/renderer/visitor/AWTDrawVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#e26b52f8dd070ffb14479558ac227f7df37bb9f8">
display/renderawt/src/main/java/org/openscience/cdk/renderer/visitor/AbstractAWTDrawVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#071dd1566d985f19e70af98efd0858ab9f88e251">
display/renderawt/src/test/java/org/openscience/cdk/renderer/visitor/AWTDrawVisitorTest.java
</a>
</li>
<li class="file-stats">
<a href="#60c98a551a824020590924c569070e36caf7aee5">
display/renderawt/src/test/java/org/openscience/cdk/renderer/visitor/AbstractAWTDrawVisitorTest.java
</a>
</li>
<li class="file-stats">
<a href="#2f0265f1a9e12d690bb16af2890051f3b628954e">
display/renderbasic/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#7058c49031ba520732303d1cde24bcb4f444dedd">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/AbstractRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#7b656f0debc78bea117107162ac886c2949ed914">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/AtomContainerRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#d7e613391e1078e6d9c7fe24fea15b1dd7b93fcb">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/AverageBondLengthCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#672d5d0917597f83c585a710bbae578ea52c8192">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/BoundsCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#4a48a4c9fb93174b3ab08d7407ac969d8b05d2b0">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/ArrowElement.java
</a>
</li>
<li class="file-stats">
<a href="#5554aea44a3cb493032b351f22e35f4de77b1fca">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/AtomSymbolElement.java
</a>
</li>
<li class="file-stats">
<a href="#25c5e355c38983bf4cff4954c1f1b05e0f333a15">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/Bounds.java
</a>
</li>
<li class="file-stats">
<a href="#d5f4bd44d4c4c721ae30024e988b21e0c68483b0">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/ElementGroup.java
</a>
</li>
<li class="file-stats">
<a href="#5dce8b12a93942c36662b15db0ecdae6abd1932b">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/GeneralPath.java
</a>
</li>
<li class="file-stats">
<a href="#a7564dccefffaa7ba7d6a6a5493ed697a8b284ac">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/LineElement.java
</a>
</li>
<li class="file-stats">
<a href="#67576a763ac67ebf1b271538e79a6fda2194fb3c">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/OvalElement.java
</a>
</li>
<li class="file-stats">
<a href="#38b8dba35e1688ff515b768aaa45449d14623ded">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/PathElement.java
</a>
</li>
<li class="file-stats">
<a href="#c021668d3318f7188a2fd8f9bf913d70ab6b79c1">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/RectangleElement.java
</a>
</li>
<li class="file-stats">
<a href="#00d135ee8be4c7addbc97779065680e4d9357748">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/RingElement.java
</a>
</li>
<li class="file-stats">
<a href="#5f00e5b5e14aaf09fedca14c9b5003d804cc8551">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/TextGroupElement.java
</a>
</li>
<li class="file-stats">
<a href="#cd5457684d090e930eaf1b6e32a9e729b1b69c29">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/WedgeLineElement.java
</a>
</li>
<li class="file-stats">
<a href="#60baf07fa7fe7672d15c3ce90cf1bc89f3ed5f7a">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/Close.java
</a>
</li>
<li class="file-stats">
<a href="#5a632c73133ea1806803af282defd6ce9eeed3a2">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/CubicTo.java
</a>
</li>
<li class="file-stats">
<a href="#5f2d2d723283f7fbc972d558953583a8f00d7e33">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/LineTo.java
</a>
</li>
<li class="file-stats">
<a href="#88a08aaf1b5d1ceb2f43b8ef43112cf1e94d0146">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/MoveTo.java
</a>
</li>
<li class="file-stats">
<a href="#1e5ea110534e0f921f81bd0df4629742000516a5">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/PathBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#b267053c6be94de16ae709d5b83d5d6a6455eff8">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/PathElement.java
</a>
</li>
<li class="file-stats">
<a href="#a543af62a449a44a805dfbe2540f6df221eb7459">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/QuadTo.java
</a>
</li>
<li class="file-stats">
<a href="#8b6ce1cf5bc2ff0a1aeacbe498295959ab982ce9">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/elements/path/Type.java
</a>
</li>
<li class="file-stats">
<a href="#3f2d600db25040f7367979864d3f882039d7889b">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/font/AWTFontManager.java
</a>
</li>
<li class="file-stats">
<a href="#0ac6a7104da0ddd219597cc87b1b9f1209175151">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/font/AbstractFontManager.java
</a>
</li>
<li class="file-stats">
<a href="#b456f5935317c0c5328ee1b092e4780cb49dcdd3">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/BasicAtomGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#2d5dbbf2b92cd1bab8b78aa2522772df83acbaba">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/BasicBondGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#476054922aeeadfb7194dc906b3988adea65ae2d">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/BasicGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#278c1cf97bdef1090f28d30395b4e4ba7d9229e3">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/BasicSceneGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#4b2a3e80d495b63903391056359c02bed1774978">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/RingGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#1824e538008e18cacad01f9af093ed4c686214fd">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/standard/StandardBondGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#e3060be3e4038c65d1d852117e2f4148cae2c4d6">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/generators/standard/StandardGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#337b86ff17d2058a3be4f2baee8441ac965e35b3">
display/renderbasic/src/main/java/org/openscience/cdk/renderer/selection/AbstractSelection.java
</a>
</li>
<li class="file-stats">
<a href="#735c010d95b787efdf5ff021ffbf75127ad1a8d6">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/AtomContainerRendererTest.java
</a>
</li>
<li class="file-stats">
<a href="#49da5475b47b4538091a71c4d70c832aef9444e8">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/BoundsCalculatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#e1312ba2537026565b44dac7f431a53715fe5206">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/ElementUtility.java
</a>
</li>
<li class="file-stats">
<a href="#badb55b584b254a3236e99aa4fcf3c4476b46254">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/AbstractElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#cda371ba686d8f44660ee081373aae6103f35fa5">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/ArrowElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#ccdc3f03c73567e7d826d0cc39a3812e86eeae89">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/AtomSymbolElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#71214bf3171a8e7fb257b7061ea695f479fa7f53">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/BoundsTest.java
</a>
</li>
<li class="file-stats">
<a href="#408185a9b8cae5f0902986d9c75704c1fe7f3e63">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/ElementGroupTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a968390f00d5dffe3d454bbd0df2f97e58cd288">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/GeneralPathTest.java
</a>
</li>
<li class="file-stats">
<a href="#7832fc87901374f8aa1172b6a769be7e5597200c">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/LineElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#e71f2db6dd2033f503f6ea24330a8b5e56682a2d">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/OvalElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#08d761318bb5a61f0b04c5ddd06b27b35b74ce4b">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/PathElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#0082115999c0b8501a984e10a696d5171a06c303">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/RectangleElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#f15a7c9ca0bf533d0458241006c92a81317568f6">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/RingElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#f1a06472feb4b6dca0a0473d5de6e19ac2e02155">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/TextGroupElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#22c4bd2f155420467e408be4a7264f1093fc6a42">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/WedgeLineElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#37b506d09fdf9aa43e4294309d20f157c90496f9">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/path/AbstractPathElementTest.java
</a>
</li>
<li class="file-stats">
<a href="#7c4ad690d03ab5731b13533799db6b121520e763">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/path/CubicToTest.java
</a>
</li>
<li class="file-stats">
<a href="#fd10a3a56bf8b47989671ee5416ed26fec1fc63d">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/path/LineToTest.java
</a>
</li>
<li class="file-stats">
<a href="#34fe3633f7f33336e95c0361d41046ccb28e2f97">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/path/MoveToTest.java
</a>
</li>
<li class="file-stats">
<a href="#99d2dfe6b3da045d41f8d7d35dac29bfb88e61f6">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/elements/path/QuadToTest.java
</a>
</li>
<li class="file-stats">
<a href="#23945254ddcae429123618ee3f3cd645daaf1ef9">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/font/AWTFontManagerTest.java
</a>
</li>
<li class="file-stats">
<a href="#4f85e203032b4894fa3792c8af2a1dbf04921ae8">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/font/AbstractFontManagerTest.java
</a>
</li>
<li class="file-stats">
<a href="#1c6d493c7eceeb060c97ed8c2e0221940842eccc">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/AbstractGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#1f6345140ecb562baf076512251c86814f3e6870">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/BasicAtomGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bbda5df37c64af5d8a4e55e65a7b7e5440f197eb">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/BasicBondGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4b707708ccd4a078625537a4daf03d6946784e4c">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/BasicGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0f19bbb7ffa14321d81c67443d760c07a40354c6">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/BasicSceneGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0e94fe4d060631b7290cbcbd707dccf642164f16">
display/renderbasic/src/test/java/org/openscience/cdk/renderer/generators/RingGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#644cc1e7e84f47fd2caaf94ee67f955bae7d60df">
display/renderextra/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#59b94d9d17089787ddddb3304131967b96798c15">
display/renderextra/src/main/java/org/openscience/cdk/renderer/ChemModelRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#0df47c28f3f84ae0e9d3f202c0835538dcc35560">
display/renderextra/src/main/java/org/openscience/cdk/renderer/MoleculeSetRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#ff61bf4fd023f1dda557e560c33ac83ac4a5631e">
display/renderextra/src/main/java/org/openscience/cdk/renderer/ReactionRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#d85518ef6eb43a5246f3769a76f1aaf3be1c01dd">
display/renderextra/src/main/java/org/openscience/cdk/renderer/ReactionSetRenderer.java
</a>
</li>
<li class="file-stats">
<a href="#175e7a1df3ffc1fa164f64e2aed7ca4743003e4d">
display/renderextra/src/main/java/org/openscience/cdk/renderer/elements/AtomMassSymbolElement.java
</a>
</li>
<li class="file-stats">
<a href="#72b9e46190583116dff2e2d71fb39fc5b6c1ebb9">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/AtomContainerBoundsGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#cb066fd35cc04bc04dffe103e118a863660755a3">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/AtomMassGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#ca016b0e9fdc80335dd78d9fed7b4425eb2d5c33">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/AtomNumberGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#43bcae75735b922125881e2e8a0c26f1a4fc8c28">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/BoundsGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#a5df3a906454516b3eb58b1ebea5397576a8ec5a">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ExtendedAtomGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#321588ad63a05f0b6a765a7765fdb66bc9c8080a">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/HighlightGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#267816cf5672da8e5bd985c20a56c6d0c7a8944b">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/LonePairGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#b521606e7841b61bf4005c1cccfe73dd39d8da3c">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/MappingGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#bce7f161a3e904a06904c219d499691ed7fdeadf">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ProductsBoxGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#7fac1263aea22502c9bf59ea12b35419f468a487">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/RadicalGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#efb1fbdcaa5cfcc3065dd87646d9c8620ab18d61">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ReactantsBoxGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#cc0376d4feb69f2ff9fe4c9d36568be1676019bc">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ReactionArrowGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#1fcd0b820d53d015a26126a9282a856d8f736092">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ReactionBoxGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#603370a666999b3a4a32f91791f4873235f9c261">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ReactionPlusGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#274be1988ad6228b5f8c852a74a21ae325593302">
display/renderextra/src/main/java/org/openscience/cdk/renderer/generators/ReactionSceneGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#bb6beac282f57db11662d8da971caa1669f27541">
display/renderextra/src/test/java/org/openscience/cdk/renderer/ChemModelRendererTest.java
</a>
</li>
<li class="file-stats">
<a href="#3eea3b8a140b04c0a02a253a129b3d1d18a1e57c">
display/renderextra/src/test/java/org/openscience/cdk/renderer/ElementUtility.java
</a>
</li>
<li class="file-stats">
<a href="#111df8e4a2c076800741ab8e19f17d68d6d6c498">
display/renderextra/src/test/java/org/openscience/cdk/renderer/MoleculeSetRendererTest.java
</a>
</li>
<li class="file-stats">
<a href="#f8b87e5052d79a0a49b3a4a9f15c90171ba7cd34">
display/renderextra/src/test/java/org/openscience/cdk/renderer/ReactionRendererTest.java
</a>
</li>
<li class="file-stats">
<a href="#dc52fe37e31d3bd5323cf7965d5817085b4406a1">
display/renderextra/src/test/java/org/openscience/cdk/renderer/ReactionSetRendererTest.java
</a>
</li>
<li class="file-stats">
<a href="#64eeb9c0a9cbce99cdb6868ed011f0b64b4fb691">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/AbstractGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#59b156d27356c5268144a50ead1aa8b8ee604b15">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/AtomContainerBoundsGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ae98d52fc645d2f7d7ba60eff9cbbf6ededda5d0">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/AtomMassGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#868600bcdc88eea8ee371f25d0c066f199f139a5">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/AtomNumberGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#675a8fe4c52fea5d3ec73a0f220341d4346a3384">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/BasicAtomGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8798a316292a1b6b3976ffde0df3f661d948247e">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/BasicBondGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bbe10d8b77812e5578f019c2d19362e96ba040b4">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/BoundsGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f79d9646d7d7c0303dbd9aca21d7e84ed515f95d">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ExtendedAtomGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#d7619322968efd420d00aae10c965db90cdd8302">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/LonePairGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#71ef95abc614512af4527610892512f1d148aae2">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/MappingGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#80f1f3d2d98d663c8ee598c27aea029eb6cd2e88">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ProductsBoxGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#2996f17319860e344fbc7a8d6fd2d427cc326449">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/RadicalGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ecc3fdc48bf74009494987a11078ea09498864bc">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ReactantsBoxGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#e6a1bf45397520f6194c1349665bfc80d563ec75">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ReactionArrowGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#9e5ebb7346b8c5288e33326a3b317a18f41b212d">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ReactionBoxGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#667ce6254344cbc9f969c53891f19b647bcc8303">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ReactionPlusGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f014c51428368927a791e9ea4b0d1e4cc5223ab8">
display/renderextra/src/test/java/org/openscience/cdk/renderer/generators/ReactionSceneGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#99f143d17be4dcaff3f2c9776f36ba7f1a077aec">
legacy/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#b4f7b426cbb22ccea7c677b8a546d549f4565c1d">
legacy/src/main/java/org/openscience/cdk/aromaticity/AromaticityCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#1227fc7f126cf260e68152e00ded6fb63ed9d5a1">
legacy/src/main/java/org/openscience/cdk/aromaticity/CDKHueckelAromaticityDetector.java
</a>
</li>
<li class="file-stats">
<a href="#48d1e6073f9a237161ecbf8e13bfe5ff9df64cc7">
legacy/src/main/java/org/openscience/cdk/aromaticity/DoubleBondAcceptingAromaticityDetector.java
</a>
</li>
<li class="file-stats">
<a href="#03e46f85e6783cf55f4851bd40efb6365014c064">
legacy/src/main/java/org/openscience/cdk/atomtype/MM2AtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#4f187c3f13d4741ab088dd7a94ca408e3c01032d">
legacy/src/main/java/org/openscience/cdk/atomtype/MMFF94AtomTypeMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#e97d3e4e4a980fb17b0b32b50d786e6498cd936a">
legacy/src/main/java/org/openscience/cdk/formula/MassToFormulaTool.java
</a>
</li>
<li class="file-stats">
<a href="#7c8f50ff97f460d9d155f9f81064a8439904394c">
legacy/src/main/java/org/openscience/cdk/geometry/GeometryTools.java
</a>
</li>
<li class="file-stats">
<a href="#2154738ef7ce24558dd7e2c73e248b8a9b815405">
legacy/src/main/java/org/openscience/cdk/graph/BFSShortestPath.java
</a>
</li>
<li class="file-stats">
<a href="#29336f9b74a870ca72c78b55d6721c7e83dd27ca">
legacy/src/main/java/org/openscience/cdk/graph/BiconnectivityInspector.java
</a>
</li>
<li class="file-stats">
<a href="#12ab33c27eabbc39d1435b30abcf05e385c366f8">
legacy/src/main/java/org/openscience/cdk/graph/MinimalPathIterator.java
</a>
</li>
<li class="file-stats">
<a href="#d9f5dc7b73746c4115c4ad3de6f70164c310d14f">
legacy/src/main/java/org/openscience/cdk/graph/MoleculeGraphs.java
</a>
</li>
<li class="file-stats">
<a href="#6791edb0e29c308687364fc4c311b0217a6acff4">
legacy/src/main/java/org/openscience/cdk/io/inchi/INChIContentProcessorTool.java
</a>
</li>
<li class="file-stats">
<a href="#2c51897b962bfb9009dd77024e6e9b70cc4d4cac">
legacy/src/main/java/org/openscience/cdk/io/inchi/INChIHandler.java
</a>
</li>
<li class="file-stats">
<a href="#8fb532dc3ea9571e79c6917c9fde2c2823776af8">
legacy/src/main/java/org/openscience/cdk/isomorphism/SmartsStereoMatch.java
</a>
</li>
<li class="file-stats">
<a href="#6ff1630347e012a08f32e758119f47a5b98ac78a">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/CTFileQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#8bf44c73110d8cd8f0b6873cac4f900f0186cc6a">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/InverseSymbolSetQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#174e3fb4600cd781604ded4c71a6b0702e46bae1">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/OrderQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#ba31781b2782cf0a572c5c9fc4f59eabaf6dc1c1">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/OrderQueryBondOrderOnly.java
</a>
</li>
<li class="file-stats">
<a href="#bd3e0213d840e72398bb0029e7c72bb8bf1a2341">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/SymbolAndChargeQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#fb0c781a9be5c2abdf3c92fdfecfe978f97ca5a7">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/SymbolQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#31a01ce2d4b3e6a7fc6d4def4949b1512c08c18d">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/SymbolSetQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#45235bfa13ac1e00a240abd8a47d315491a5dbf2">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AliphaticAtom.java
</a>
</li>
<li class="file-stats">
<a href="#0769acfee0837fbb688b6be175acadcb1dcbd5d1">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AliphaticSymbolAtom.java
</a>
</li>
<li class="file-stats">
<a href="#712e86ce6525e85dbb1d8d23f076368dffe777a8">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AnyAtom.java
</a>
</li>
<li class="file-stats">
<a href="#2276ffd76e0424d7f4ae856239c412b9a33045db">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AnyOrderQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#4f4ac7a4a8f5bcceabd0e5fe0ad5c18cbcd50d38">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AromaticAtom.java
</a>
</li>
<li class="file-stats">
<a href="#2fe9d6777fc28ff795fd34ec066e61f394a38afb">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AromaticOrSingleQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#4af74951039f71c94df716c122e60e1be2586b4b">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AromaticQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#ca5b7e430bb9add373a3e602bece6d12e0a4bd93">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AromaticSymbolAtom.java
</a>
</li>
<li class="file-stats">
<a href="#c1db13e45beca3d0ef444648090b89dcb50358c8">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/AtomicNumberAtom.java
</a>
</li>
<li class="file-stats">
<a href="#73dab0767664fcc835bd1785f997acd511d001cb">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/ChiralityAtom.java
</a>
</li>
<li class="file-stats">
<a href="#3d8af8b8102f489bcdb36c3d6bbe26f5317ea4d4">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/ExplicitConnectionAtom.java
</a>
</li>
<li class="file-stats">
<a href="#52a2f0f41ff709d5261ad357657ce7390be2359f">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/FormalChargeAtom.java
</a>
</li>
<li class="file-stats">
<a href="#5e6d75d46c2fc4827273ac9644c4f984eff933da">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/HybridizationNumberAtom.java
</a>
</li>
<li class="file-stats">
<a href="#04b0122480e54cb1be8a64b6597bb7172fdf1eaf">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/HydrogenAtom.java
</a>
</li>
<li class="file-stats">
<a href="#8f9b0ae0f05c6ab8ca465b62a0c3cf057812a2ae">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/ImplicitHCountAtom.java
</a>
</li>
<li class="file-stats">
<a href="#afdb35ac4eb4001365fca55e0b17ad89bea4e7eb">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/LogicalOperatorAtom.java
</a>
</li>
<li class="file-stats">
<a href="#62120e8c9a9ea40df7a892ce671f65ee04712ac5">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/LogicalOperatorBond.java
</a>
</li>
<li class="file-stats">
<a href="#9ba1f30914223f595fe0053f030082aac0566f01">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/MassAtom.java
</a>
</li>
<li class="file-stats">
<a href="#8d1db7071d0e182e83e5fcdbe7612d80341b8d0c">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/NonCHHeavyAtom.java
</a>
</li>
<li class="file-stats">
<a href="#8b9cba827c4669393d29b336a01ccfbf26cd918a">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/OrderQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#63227201753312d2c5d8a096169770ea57284f46">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/PeriodicGroupNumberAtom.java
</a>
</li>
<li class="file-stats">
<a href="#f85668b98f1a46f49820c2bf4ffde5c87858c039">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/RecursiveSmartsAtom.java
</a>
</li>
<li class="file-stats">
<a href="#7d6f0f5782981503f265f051cd8e7f765dbed9a3">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/RingBond.java
</a>
</li>
<li class="file-stats">
<a href="#9324e550fd76f4d7961a533cd09f4b9937397f72">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/RingIdentifierAtom.java
</a>
</li>
<li class="file-stats">
<a href="#a6b95f9f252e119c0af84f399a84e4b863f24b3f">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/RingMembershipAtom.java
</a>
</li>
<li class="file-stats">
<a href="#471ae16f38e4d5e58523c5aa5654ee5bc5349100">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/SMARTSAtom.java
</a>
</li>
<li class="file-stats">
<a href="#cdd9021f969efe1faf257a517e81ded760b2dee4">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/SMARTSAtomInvariants.java
</a>
</li>
<li class="file-stats">
<a href="#bd17242b8ef7d55478f549a2049a675b04374e6f">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/SMARTSBond.java
</a>
</li>
<li class="file-stats">
<a href="#315a02761fd861d09f2f4ed96c61e3438df5f0ca">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/SmallestRingAtom.java
</a>
</li>
<li class="file-stats">
<a href="#ef9b86dcc20c35b687790bce632393daf71b4f75">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/SmartsMatchers.java
</a>
</li>
<li class="file-stats">
<a href="#769f88af88986251d7ba3dab27fa05d239fa6359">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/StereoBond.java
</a>
</li>
<li class="file-stats">
<a href="#a6ba25991f3d963d0735ede3d3abb99ec420a1e1">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalConnectionAtom.java
</a>
</li>
<li class="file-stats">
<a href="#8616e522dbb1a2ed5b863dbfa6ef8ca7d989234d">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalHCountAtom.java
</a>
</li>
<li class="file-stats">
<a href="#1d9109c639c21be16a3f8a96e965100424e0f488">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalRingConnectionAtom.java
</a>
</li>
<li class="file-stats">
<a href="#9c76078360f267362cd2980a56d32776dbcf1792">
legacy/src/main/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalValencyAtom.java
</a>
</li>
<li class="file-stats">
<a href="#d407f8066dc3f6541b7989afe210d28d71af1eb1">
legacy/src/main/java/org/openscience/cdk/iupac/parser/AttachedGroup.java
</a>
</li>
<li class="file-stats">
<a href="#55775a396aa4b50f902ac8f5764482471e9f9333">
legacy/src/main/java/org/openscience/cdk/iupac/parser/MoleculeBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#e85869fba3530696f3df8c3c7c78d68ce9c62eb2">
legacy/src/main/java/org/openscience/cdk/math/Complex.java
</a>
</li>
<li class="file-stats">
<a href="#8a5a0150dc348846f9cdd7d4c38f74fe65978d59">
legacy/src/main/java/org/openscience/cdk/math/IFunction.java
</a>
</li>
<li class="file-stats">
<a href="#d81056d3ddcd93b4505e8b98d1c52423b189ed16">
legacy/src/main/java/org/openscience/cdk/math/IMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#3213878e19db9e042e13d4fa2364d1575a0bc96a">
legacy/src/main/java/org/openscience/cdk/math/IVector.java
</a>
</li>
<li class="file-stats">
<a href="#b2876888a335ff8b274689d2454b197072f47f98">
legacy/src/main/java/org/openscience/cdk/math/Matrix.java
</a>
</li>
<li class="file-stats">
<a href="#ea7199ee67323736af291b28dbcca4a79db5f0e9">
legacy/src/main/java/org/openscience/cdk/math/Quaternion.java
</a>
</li>
<li class="file-stats">
<a href="#f9dcfe4072696a5814061f8cacab61a119584727">
legacy/src/main/java/org/openscience/cdk/math/Vector.java
</a>
</li>
<li class="file-stats">
<a href="#0da80be3c41351e9733bc5ddb18571e82ae456f5">
legacy/src/main/java/org/openscience/cdk/math/qm/AngularMomentum.java
</a>
</li>
<li class="file-stats">
<a href="#5597e4ea15522276165c839cae81e451537a55a7">
legacy/src/main/java/org/openscience/cdk/math/qm/ClosedShellJob.java
</a>
</li>
<li class="file-stats">
<a href="#38c491e99fd3e01c82ab102ea4d9253a8de51960">
legacy/src/main/java/org/openscience/cdk/math/qm/FourierGridBasis.java
</a>
</li>
<li class="file-stats">
<a href="#6cdf0427e3eb7de54cd6ab1fb1290c336383dd5a">
legacy/src/main/java/org/openscience/cdk/math/qm/GaussiansBasis.java
</a>
</li>
<li class="file-stats">
<a href="#becf0d194d18e1eda5713e778b78867e5e3a199d">
legacy/src/main/java/org/openscience/cdk/math/qm/IBasis.java
</a>
</li>
<li class="file-stats">
<a href="#f9bcfe57aa6304b2b679ac05a33f45f412c837a8">
legacy/src/main/java/org/openscience/cdk/math/qm/OneElectronJob.java
</a>
</li>
<li class="file-stats">
<a href="#90a4291fbae429736dde81a70edddc565fb7ad52">
legacy/src/main/java/org/openscience/cdk/math/qm/Orbitals.java
</a>
</li>
<li class="file-stats">
<a href="#5694bbf5c4ab2af710f2581ee7c8d31489240a28">
legacy/src/main/java/org/openscience/cdk/math/qm/SimpleBasisSet.java
</a>
</li>
<li class="file-stats">
<a href="#48fe9b6e731d86c695cc1767dcd299066e15e108">
legacy/src/main/java/org/openscience/cdk/normalize/Normalizer.java
</a>
</li>
<li class="file-stats">
<a href="#b517888df205f1e0719de6983adfe7630ae93f8a">
legacy/src/main/java/org/openscience/cdk/normalize/SMSDNormalizer.java
</a>
</li>
<li class="file-stats">
<a href="#c6463d039e5def2f696be06b3979768be95006cc">
legacy/src/main/java/org/openscience/cdk/qsar/descriptors/atomic/IPAtomicLearningDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#829a61edae7b8321b5bc96278b744d0c7cabff7e">
legacy/src/main/java/org/openscience/cdk/qsar/descriptors/bond/IPBondLearningDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#a733188217416e8392bed04e0df2b578b4c7b2a5">
legacy/src/main/java/org/openscience/cdk/qsar/descriptors/molecular/IPMolecularLearningDescriptor.java
</a>
</li>
<li class="file-stats">
<a href="#9f2e6a095f80787ce1d3f6718a95fc8f639c9bc3">
legacy/src/main/java/org/openscience/cdk/renderer/GraphRendererModel.java
</a>
</li>
<li class="file-stats">
<a href="#66305b5ef584d07046385ee2f3ac58cd5857512b">
legacy/src/main/java/org/openscience/cdk/ringsearch/FiguerasSSSRFinder.java
</a>
</li>
<li class="file-stats">
<a href="#493610b8bf0a596dc60940c070a981bf4d9295ee">
legacy/src/main/java/org/openscience/cdk/ringsearch/Queue.java
</a>
</li>
<li class="file-stats">
<a href="#dcdbc5382359a546f5f7b5f945ed78eb9e57d86b">
legacy/src/main/java/org/openscience/cdk/ringsearch/SSSRFinder.java
</a>
</li>
<li class="file-stats">
<a href="#c5b98684fb9f0299619279818fc8b0bd812aa3dc">
legacy/src/main/java/org/openscience/cdk/ringsearch/cyclebasis/CycleBasis.java
</a>
</li>
<li class="file-stats">
<a href="#9500a96009f4d4c7539042bc4c1ad2eedc2d78e8">
legacy/src/main/java/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycle.java
</a>
</li>
<li class="file-stats">
<a href="#a2a1f566e8a1d0bff99fa167ed0f6c178719b057">
legacy/src/main/java/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasis.java
</a>
</li>
<li class="file-stats">
<a href="#41b756a90d7959c014e09d7241a765586554d035">
legacy/src/main/java/org/openscience/cdk/smiles/DeduceBondSystemTool.java
</a>
</li>
<li class="file-stats">
<a href="#83add920c730432591543aa096ff5cf9a0290e2b">
legacy/src/main/java/org/openscience/cdk/smiles/FixBondOrdersTool.java
</a>
</li>
<li class="file-stats">
<a href="#99b35fad005a44c51d0d15899e4a0a59c45729d6">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/SMARTSQueryTool.java
</a>
</li>
<li class="file-stats">
<a href="#ca82f0db77aa68c5725ff929f4f385c883ed3e99">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAliphatic.java
</a>
</li>
<li class="file-stats">
<a href="#5671d17dbed1241d87c7c1935057f6c70b2668bd">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAnyAtom.java
</a>
</li>
<li class="file-stats">
<a href="#d71d203c3d36628092516dfa4d3528bc2ee0e4a2">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAromatic.java
</a>
</li>
<li class="file-stats">
<a href="#affb9eecad127059a7c6387f68fffc9e14221240">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAtom.java
</a>
</li>
<li class="file-stats">
<a href="#d49f62ffedbce3a248d03772cdf484650398b5a1">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAtomicMass.java
</a>
</li>
<li class="file-stats">
<a href="#596c7e94318281fcf39c2bddb53b0052db6e93fb">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTAtomicNumber.java
</a>
</li>
<li class="file-stats">
<a href="#b02d94dbf535769f9fdad8224fd65e0dfec63226">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTCharge.java
</a>
</li>
<li class="file-stats">
<a href="#3971dbea6dd2ba7df84b6660a9459e0c9af8188a">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTChirality.java
</a>
</li>
<li class="file-stats">
<a href="#838b87534555a01e4b4e6bdb7ee3b41343a48837">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTElement.java
</a>
</li>
<li class="file-stats">
<a href="#c09da7e8ec5250e50d74956dee2b0320f234cc33">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTExplicitAtom.java
</a>
</li>
<li class="file-stats">
<a href="#92f9844625f8d1e8cd901e09c1d1553fe38a64d4">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTExplicitConnectivity.java
</a>
</li>
<li class="file-stats">
<a href="#33be29bc9d57412b147b9aa14e3bf7b7c5661067">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTExplicitHighAndBond.java
</a>
</li>
<li class="file-stats">
<a href="#6fa82edcc41cf78fda1b0e0ca6c774efa4b39291">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTExplicitHighAndExpression.java
</a>
</li>
<li class="file-stats">
<a href="#fa42ba1b4441fde5c03b2d196868a6c4ff42b4d9">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTGroup.java
</a>
</li>
<li class="file-stats">
<a href="#b59cdb3c3c10541d2d8cb710b51d07bbef458add">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTHybrdizationNumber.java
</a>
</li>
<li class="file-stats">
<a href="#35200ce1f98b0b7f4b50ab5bf3976250dfee49dd">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTImplicitHCount.java
</a>
</li>
<li class="file-stats">
<a href="#43d33c38efa6001e27b82ab78974bd2a56149b3c">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTImplicitHighAndBond.java
</a>
</li>
<li class="file-stats">
<a href="#32243faf94524b59758e80311fd7d939d8a1e892">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTImplicitHighAndExpression.java
</a>
</li>
<li class="file-stats">
<a href="#9b91efa16dbbad2b7ab880c4f48b64ceaa55c96d">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTLowAndBond.java
</a>
</li>
<li class="file-stats">
<a href="#f4f8882a8224b7a3383456b7492157033c5f5fb1">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTLowAndExpression.java
</a>
</li>
<li class="file-stats">
<a href="#fc8a94041cb880e5d5b479c0b32c41335e8916fb">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTNonCHHeavyAtom.java
</a>
</li>
<li class="file-stats">
<a href="#ca3159729f663e278c9cc3024d930f69f6ccadb9">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTNotBond.java
</a>
</li>
<li class="file-stats">
<a href="#d12d60a931f59a4a3ab567bd1d5f560e870acee9">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTNotExpression.java
</a>
</li>
<li class="file-stats">
<a href="#b04759d35d11f6cd4138beea1144f1d4d23e7d4e">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTOrBond.java
</a>
</li>
<li class="file-stats">
<a href="#9c21e3b4c68b0e6775a4cc2b66fa274f19aef449">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTOrExpression.java
</a>
</li>
<li class="file-stats">
<a href="#47991593bd48be1e804f488c76a07c5623674591">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTPeriodicGroupNumber.java
</a>
</li>
<li class="file-stats">
<a href="#f5d3494e58a136354249e2581448c1e9a5dcf35b">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTPrimitiveAtomExpression.java
</a>
</li>
<li class="file-stats">
<a href="#2454cfa204b2ed85c28bce09054308a3ae90b2f0">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTReaction.java
</a>
</li>
<li class="file-stats">
<a href="#a4e955d37b3bdf8b9f2d3d0a9dbe29cd7ca1eda7">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTRecursiveSmartsExpression.java
</a>
</li>
<li class="file-stats">
<a href="#adc31528e7636556b3853cfb1644b5c21eaa406d">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTRingConnectivity.java
</a>
</li>
<li class="file-stats">
<a href="#281ac763cccf02070f86c0e27790b1ff44d173ad">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTRingIdentifier.java
</a>
</li>
<li class="file-stats">
<a href="#6fec5b5ac86df01f0e9a95eed4001cf081462ba0">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTRingMembership.java
</a>
</li>
<li class="file-stats">
<a href="#ea03a263e2653c155aee636059a39a7849716cea">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTSimpleBond.java
</a>
</li>
<li class="file-stats">
<a href="#77dc70e95761145189f5df08b672885de5a87cd0">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTSmallestRingSize.java
</a>
</li>
<li class="file-stats">
<a href="#a66ba7a8e65d6319be39338aadd71a71769e1c5f">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTSmarts.java
</a>
</li>
<li class="file-stats">
<a href="#ce189e5cdd6cfe69a2d81335ccee42ae4bc9504b">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTStart.java
</a>
</li>
<li class="file-stats">
<a href="#80e4ff60ffe64077e696aff7c22e370c71d4f171">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTTotalConnectivity.java
</a>
</li>
<li class="file-stats">
<a href="#fefc8cc1b2b1891770b6e072d4f6b4368ce87aa6">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTTotalHCount.java
</a>
</li>
<li class="file-stats">
<a href="#27a75d9bd914baaddbf54eb4f087ba5ebcf5cad5">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/ASTValence.java
</a>
</li>
<li class="file-stats">
<a href="#e5d17e7db2cf5220c0612d5bda6e26d64c9fab95">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/Node.java
</a>
</li>
<li class="file-stats">
<a href="#d2e8c8a4d33e31873d1a6df545f44ca3f2a00402">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/SimpleNode.java
</a>
</li>
<li class="file-stats">
<a href="#3e9a405ad93e09444155144522fb8c2d05d770fc">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/Smarts2MQLVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#ad21fbf25d401b65eeb0f122861065f1fd7a7cea">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/SmartsDumpVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#1da05ff65b257688d62996aa842dd5524384a6de">
legacy/src/main/java/org/openscience/cdk/smiles/smarts/parser/SmartsQueryVisitor.java
</a>
</li>
<li class="file-stats">
<a href="#e2beb65842618074e63ac71fc2bbd954e9b979f4">
legacy/src/main/java/org/openscience/cdk/smsd/Isomorphism.java
</a>
</li>
<li class="file-stats">
<a href="#a8abb51b13bbd35bdd097138b0c1ec0fa9d05141">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/AtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#533e3d0c99f199dbde7fef1b89057bae1bf4bc88">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/BondMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#547a596aa800ed83f651a9e2ea60bc6b6f80174b">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultBondMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#13d58abcf33f285932cb1154f4827845578ae9b1">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultMCSPlusAtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#c083f10f34b28daa8f35297a4d7a21d86c66033d">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#e4528c714254a2f88bd962fecda8a634ee174391">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultRGraphAtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#6b7d69a1dbe331f84607ab8d456ce187677c3aa4">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultVFAtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#90feda1cedb6ca01b12be97196bea9bdbdc20dd7">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/DefaultVFBondMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#622df9759efa6dc5a58584231b88069391500c94">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/VFAtomMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#9feb6b21712fee12ba58b29b95ec33a7df3b19fd">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/matchers/VFBondMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#5bfc3d5760e8848d921e97719471445e5c1af468">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcgregor/McGregor.java
</a>
</li>
<li class="file-stats">
<a href="#084a74178aa863b79e25a3e4fcc15805c18d6723">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcgregor/McGregorChecks.java
</a>
</li>
<li class="file-stats">
<a href="#a0f072ea40941226b13e6ef34499c7d68f6310c2">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcgregor/McgregorHelper.java
</a>
</li>
<li class="file-stats">
<a href="#2446b54daf764a8295a40d42d61fba575f79a942">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcgregor/QueryProcessor.java
</a>
</li>
<li class="file-stats">
<a href="#dd5ec7b6b0f882e0d67c3b7414dadf2237452944">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcgregor/TargetProcessor.java
</a>
</li>
<li class="file-stats">
<a href="#7d070f30e8160d0db8c8b2e07858b162b0a54859">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcsplus/BKKCKCF.java
</a>
</li>
<li class="file-stats">
<a href="#e0f65e7338386875c4f111dd083dc1c01f6d0ad1">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcsplus/ExactMapping.java
</a>
</li>
<li class="file-stats">
<a href="#e8b5d1ba3f4f5b4814f938003c3343839c4fa78b">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcsplus/GenerateCompatibilityGraph.java
</a>
</li>
<li class="file-stats">
<a href="#f54e58a32a50dc58a6dac729207094c146fd8e9a">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcsplus/MCSPlus.java
</a>
</li>
<li class="file-stats">
<a href="#3baec041e44c61456c8abcc55687cca48c44d8aa">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/mcsplus/MCSPlusHandler.java
</a>
</li>
<li class="file-stats">
<a href="#07b0120c1161a9079daa693ab8d320ac7eed7212">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKMCS.java
</a>
</li>
<li class="file-stats">
<a href="#8634c1aacced7f3a3f65e5af3dc299b43ac4f57b">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKMCSHandler.java
</a>
</li>
<li class="file-stats">
<a href="#27970cc63fe0529aea6cb6516dfc057194bf8367">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRGraph.java
</a>
</li>
<li class="file-stats">
<a href="#38f56ae5217171dbdd939db6ea86e08043f9d261">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRMap.java
</a>
</li>
<li class="file-stats">
<a href="#4c0648fbe341c9073886793556c11ce83c3448bb">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRMapHandler.java
</a>
</li>
<li class="file-stats">
<a href="#b3a97f0526da5b51ad73ae2cd2c5c183a076eb6d">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRNode.java
</a>
</li>
<li class="file-stats">
<a href="#a337bd8a9a871177789315c114491c421a290d35">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKSubGraphHandler.java
</a>
</li>
<li class="file-stats">
<a href="#03d45e6100168dc63ffb0fe525bfd7d78b4ecb56">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/single/SingleMapping.java
</a>
</li>
<li class="file-stats">
<a href="#0851e6229b6f5a1c41ed9202e8a7f240cd9633c9">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/single/SingleMappingHandler.java
</a>
</li>
<li class="file-stats">
<a href="#45c3d03826888f7bef8354296350f4bb4ea3481e">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/VFlibMCSHandler.java
</a>
</li>
<li class="file-stats">
<a href="#6e94708d70dcafa743e3c2f20863386299e0c80a">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/VFlibSubStructureHandler.java
</a>
</li>
<li class="file-stats">
<a href="#3ad5f200a5f7cd235aa1147eb63c9c3e93e0d046">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/VFlibTurboHandler.java
</a>
</li>
<li class="file-stats">
<a href="#f6adf652b1c5c38e88a7520bbfa76026d084152f">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/builder/EdgeBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#310c428860b79081e5fdf35cd0a5750af3144e63">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/builder/NodeBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#48cced0b0350d291e98d44f3f7c2f795d676f095">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/builder/TargetProperties.java
</a>
</li>
<li class="file-stats">
<a href="#20db62770140c63ed68e100fae1934610b4f80cf">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/builder/VFQueryBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#46c77f7d46bc1b86eb92152f0a3fe0001117018e">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/IEdge.java
</a>
</li>
<li class="file-stats">
<a href="#da0942e5d22e59d317e9809ce1598058114083b2">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/IMapper.java
</a>
</li>
<li class="file-stats">
<a href="#5fa79cb02e4cce7fe4be39eb4453ce8e5e792798">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/INode.java
</a>
</li>
<li class="file-stats">
<a href="#0b0f02440caa17614384f45152fa9bbf9ca935e2">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/IQuery.java
</a>
</li>
<li class="file-stats">
<a href="#dde780fd7fbc1d5fb80c8fdfd8dec25d4a7df319">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/IQueryCompiler.java
</a>
</li>
<li class="file-stats">
<a href="#ee16e85745c939f4da78c747f9d494245f52e268">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/interfaces/IState.java
</a>
</li>
<li class="file-stats">
<a href="#438003cdbbe2e9c2966c46275673748a4364d557">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/map/Match.java
</a>
</li>
<li class="file-stats">
<a href="#110fc2e1ee02ab7d1b93875d55e0004fef48a4da">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/map/VFMCSMapper.java
</a>
</li>
<li class="file-stats">
<a href="#d90c95ff5d2c8f0ed969140d94adb72e3104d4da">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/map/VFMapper.java
</a>
</li>
<li class="file-stats">
<a href="#2eb75cc97225160f95147761b9730875a2099d60">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/map/VFState.java
</a>
</li>
<li class="file-stats">
<a href="#1d51c09edc2c048e3fd5676e973b2c2c63296ced">
legacy/src/main/java/org/openscience/cdk/smsd/algorithm/vflib/query/QueryCompiler.java
</a>
</li>
<li class="file-stats">
<a href="#4aef69ea7667679371b218bbac680c93edd9c967">
legacy/src/main/java/org/openscience/cdk/smsd/filters/ChemicalFilters.java
</a>
</li>
<li class="file-stats">
<a href="#8e0759f76fad48c5e4e826e2dc4a3afd97a69fbe">
legacy/src/main/java/org/openscience/cdk/smsd/filters/PostFilter.java
</a>
</li>
<li class="file-stats">
<a href="#8627cb961df740dee84f395940108c34c3d47e43">
legacy/src/main/java/org/openscience/cdk/smsd/global/TimeOut.java
</a>
</li>
<li class="file-stats">
<a href="#9afc0827196ae8ebd63dabfa1ebc0dc03c2034e7">
legacy/src/main/java/org/openscience/cdk/smsd/helper/BinaryTree.java
</a>
</li>
<li class="file-stats">
<a href="#fbed5b3f8478f2863d46f4a519c7d3c0bed3b8a6">
legacy/src/main/java/org/openscience/cdk/smsd/helper/BondEnergy.java
</a>
</li>
<li class="file-stats">
<a href="#719356942e750cfcde8dc1172d68981f862503dc">
legacy/src/main/java/org/openscience/cdk/smsd/helper/FinalMappings.java
</a>
</li>
<li class="file-stats">
<a href="#bb4f1ddebed9e07adbc115f874cc684ae0806c62">
legacy/src/main/java/org/openscience/cdk/smsd/helper/LabelContainer.java
</a>
</li>
<li class="file-stats">
<a href="#1b3e9caf4b80858621e950e2d44e244638605be9">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/AbstractMCS.java
</a>
</li>
<li class="file-stats">
<a href="#e1d11a5bacf2b2d6d6f1464ee93435aae72c64df">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/AbstractMCSAlgorithm.java
</a>
</li>
<li class="file-stats">
<a href="#ad40d72346b6182c34657ee10ad45ba10c3b9a1d">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/AbstractSubGraph.java
</a>
</li>
<li class="file-stats">
<a href="#48029c9d83ed54e07e60580d5494da1873f4c989">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/Algorithm.java
</a>
</li>
<li class="file-stats">
<a href="#790707b115c3722231acab9f32935574c2067f38">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/IFinalMapping.java
</a>
</li>
<li class="file-stats">
<a href="#e181072cac499a905a805e7536eb26db2dccef94">
legacy/src/main/java/org/openscience/cdk/smsd/interfaces/IMCSBase.java
</a>
</li>
<li class="file-stats">
<a href="#832a43d044ff5edfb46262f3b59739303964acd2">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/AbstractReactionLabeller.java
</a>
</li>
<li class="file-stats">
<a href="#f295cf96059217f53115631571201f7d651d58f4">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/AtomContainerAtomPermutor.java
</a>
</li>
<li class="file-stats">
<a href="#bd2631c26d3370aca6b0f37e49125369722429c6">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/AtomContainerPrinter.java
</a>
</li>
<li class="file-stats">
<a href="#3731d7417ba70d733629b53dfd6e82a3842d24df">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/CanonicalLabellingAdaptor.java
</a>
</li>
<li class="file-stats">
<a href="#e2695b875f01a1c251d3208ab8a6d1ff7b17f31b">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/ICanonicalMoleculeLabeller.java
</a>
</li>
<li class="file-stats">
<a href="#ddce851a11e474de3af318f2fc70d3b2caf89259">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/ICanonicalReactionLabeller.java
</a>
</li>
<li class="file-stats">
<a href="#e0c366aed11ddc2973b07e7bf6dc7a337365665e">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/MoleculeSignatureLabellingAdaptor.java
</a>
</li>
<li class="file-stats">
<a href="#e765a65ab14f0f50bff7f41a7ca153e89bfdea77">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/Permutor.java
</a>
</li>
<li class="file-stats">
<a href="#010130e06c77a931afcd0cd0fde7c6e45f42cdac">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/SignatureReactionCanoniser.java
</a>
</li>
<li class="file-stats">
<a href="#6ea13ecf22ca70d3a03dc2cbaab620fc0ef23a8a">
legacy/src/main/java/org/openscience/cdk/smsd/labelling/SmilesReactionCanoniser.java
</a>
</li>
<li class="file-stats">
<a href="#31ac1bc14d3d69d43b2e5f5f705e31dd0e92570c">
legacy/src/main/java/org/openscience/cdk/smsd/ring/HanserRingFinder.java
</a>
</li>
<li class="file-stats">
<a href="#d462681b6c7da80e87050545f59be0ee0cfa53e0">
legacy/src/main/java/org/openscience/cdk/smsd/ring/PathEdge.java
</a>
</li>
<li class="file-stats">
<a href="#49e97d71579f1a9b1e6937e238bff63be3e3d8b8">
legacy/src/main/java/org/openscience/cdk/smsd/ring/PathGraph.java
</a>
</li>
<li class="file-stats">
<a href="#64510b4045cc9aefc55bf32861e6af9d7a931ad3">
legacy/src/main/java/org/openscience/cdk/smsd/ring/RingFilter.java
</a>
</li>
<li class="file-stats">
<a href="#634bf4f11e8bb50bd0d1c17cc073585a768e27df">
legacy/src/main/java/org/openscience/cdk/smsd/ring/RingFinder.java
</a>
</li>
<li class="file-stats">
<a href="#71f77e38b770a8875a6bd1882c6cbd7d5647b695">
legacy/src/main/java/org/openscience/cdk/smsd/tools/BondEnergies.java
</a>
</li>
<li class="file-stats">
<a href="#40f3395962a31812c434aad6b993022ea35a925c">
legacy/src/main/java/org/openscience/cdk/smsd/tools/ExtAtomContainerManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#9fbb4c54924654b9a610a24328e2742fe443c074">
legacy/src/main/java/org/openscience/cdk/smsd/tools/MolHandler.java
</a>
</li>
<li class="file-stats">
<a href="#f8b00cbe6bdea57a965f0072f119ce756f5a8a2e">
legacy/src/main/java/org/openscience/cdk/smsd/tools/MoleculeSanityCheck.java
</a>
</li>
<li class="file-stats">
<a href="#56ae82279d319a2f08840306e504bc1337fbd329">
legacy/src/main/java/org/openscience/cdk/smsd/tools/TimeManager.java
</a>
</li>
<li class="file-stats">
<a href="#c0286968e01bb375956112233035c3658ad947dc">
legacy/src/main/java/org/openscience/cdk/templates/MoleculeFactory.java
</a>
</li>
<li class="file-stats">
<a href="#278a60762c8acfdcc44f0032ea06f3ed4e864c85">
legacy/src/main/java/org/openscience/cdk/tools/CDKUtilities.java
</a>
</li>
<li class="file-stats">
<a href="#e6f1bd0601cc8397c8324e1264dc12e121a0b7b4">
legacy/src/main/java/org/openscience/cdk/tools/DeAromatizationTool.java
</a>
</li>
<li class="file-stats">
<a href="#ec4d59425d198ca88462488a725ceae3caa2b02e">
legacy/src/main/java/org/openscience/cdk/tools/IonizationPotentialTool.java
</a>
</li>
<li class="file-stats">
<a href="#340d601e86172e61229a5a776012f5b67bc8c533">
legacy/src/main/java/org/openscience/cdk/tools/SwissArmyKnife.java
</a>
</li>
<li class="file-stats">
<a href="#7bafa5e91f46a4163ffa7f3e91626c2721b8fbd2">
legacy/src/main/java/org/openscience/cdk/tools/SystemOutLoggingTool.java
</a>
</li>
<li class="file-stats">
<a href="#b2ff989821b7d4e62995318281af23aebcd349a9">
legacy/src/main/jjtree/org/openscience/cdk/smiles/smarts/parser/SMARTSParser.jjt
</a>
</li>
<li class="file-stats">
<a href="#6dc5f968f67ff221adfce1255eccaefcf08ceb52">
legacy/src/test/java/org/openscience/cdk/aromaticity/AromaticityCalculatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0d25be28c714d79fc95c1650273945738d13913a">
legacy/src/test/java/org/openscience/cdk/aromaticity/CDKHueckelAromaticityDetectorTest.java
</a>
</li>
<li class="file-stats">
<a href="#3909b098f6e96410e4ea271c812a42cd28867738">
legacy/src/test/java/org/openscience/cdk/aromaticity/DoubleBondAcceptingAromaticityDetectorTest.java
</a>
</li>
<li class="file-stats">
<a href="#f837cd5a57e13f3b2645d7be9a592ce060ad188e">
legacy/src/test/java/org/openscience/cdk/atomtype/MM2AtomTypeMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#dc232dd56166a3110d1e7c2f6e44015a78eb7236">
legacy/src/test/java/org/openscience/cdk/atomtype/MMFF94AtomTypeMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#916a78bcf8273d66bcf7f5b0d63d4cc57c5c8bb4">
legacy/src/test/java/org/openscience/cdk/formula/MassToFormulaToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#b12307da8d6605e717fea08660d390a0a58ec65a">
legacy/src/test/java/org/openscience/cdk/geometry/GeometryToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#9255291558de1f844d1b3ccfa90a097f137dc527">
legacy/src/test/java/org/openscience/cdk/graph/BFSShortestPathTest.java
</a>
</li>
<li class="file-stats">
<a href="#55f8abc7ad7c8f28616c5f89203e1bf72a0942c5">
legacy/src/test/java/org/openscience/cdk/graph/BiconnectivityInspectorTest.java
</a>
</li>
<li class="file-stats">
<a href="#297dff94580f10873213b96e681922a570e525ae">
legacy/src/test/java/org/openscience/cdk/graph/MinimalPathIteratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#609d93a3396053a4ce66ef2115b8cfab13e63bf2">
legacy/src/test/java/org/openscience/cdk/graph/MoleculeGraphsTest.java
</a>
</li>
<li class="file-stats">
<a href="#d8e89e048695507ec2489aec3933522ffa7004ec">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/SymbolSetQueryAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#665cde69bfbdeacdfeb78f27c63bc87100ffa48c">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/AnyOrderQueryBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#3e00a428b604272137f166075ffdbedcfe9772e6">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/DaylightSMARTSAtomInvariantsTest.java
</a>
</li>
<li class="file-stats">
<a href="#575bda8d52298fb70c2de986a1645453bfe08331">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/ExplicitConnectionAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce4486cb7d7583728fee6678599e42ebbe291add">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/RingMembershipAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#c9a278598b69301518d1183b8bab0e1c288b24cc">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/SmallestRingAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#fba220628ce92e5d9edc9739881d5b8f14470484">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalConnectionAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#4b1ee60d4d2baa33759b9615d9a2f4cc9120a69b">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalHCountAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#68181f34a5832bebd2eaee7a9efb8871655146da">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalRingConnectionAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#9970e5e7bd1127b961bd5ed16fe8cbf4e6a1e249">
legacy/src/test/java/org/openscience/cdk/isomorphism/matchers/smarts/TotalValencyAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#6cddb434585acc5243ef54f063ec339311f0f82a">
legacy/src/test/java/org/openscience/cdk/iupac/ParserTest.java
</a>
</li>
<li class="file-stats">
<a href="#221cbb62210dae14c6ff586b4eeb5b286fa7da78">
legacy/src/test/java/org/openscience/cdk/math/GaussiansCalculationTest.java
</a>
</li>
<li class="file-stats">
<a href="#47aa26eba92eb756f83cb6fb046c4396be869357">
legacy/src/test/java/org/openscience/cdk/normalize/SMSDNormalizerTest.java
</a>
</li>
<li class="file-stats">
<a href="#8e07bbfe56ba8fd2e101605231dac4521c97fe82">
legacy/src/test/java/org/openscience/cdk/qsar/descriptors/atomic/IPAtomicLearningDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#eecc6d478497e89a3ac2134e4d200500a7194e9a">
legacy/src/test/java/org/openscience/cdk/qsar/descriptors/bond/IPBondLearningDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bc720c23ec077f0fbb10a301cd15035b402f2556">
legacy/src/test/java/org/openscience/cdk/qsar/descriptors/molecular/IPMolecularLearningDescriptorTest.java
</a>
</li>
<li class="file-stats">
<a href="#fd325d02602909643fffe388417cedfe1c01be0a">
legacy/src/test/java/org/openscience/cdk/ringsearch/QueueTest.java
</a>
</li>
<li class="file-stats">
<a href="#17022e4a5ad6c3e0be3195db4e4bd8571be2a8a5">
legacy/src/test/java/org/openscience/cdk/ringsearch/SSSRFinderTest.java
</a>
</li>
<li class="file-stats">
<a href="#ea7e1da772fb0352e1dd66c50455c0c472d773d8">
legacy/src/test/java/org/openscience/cdk/ringsearch/cyclebasis/CycleBasisTest.java
</a>
</li>
<li class="file-stats">
<a href="#b65ecb3e32f197d905bb93dd7af55c47164a17d0">
legacy/src/test/java/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleBasisTest.java
</a>
</li>
<li class="file-stats">
<a href="#88e088476aa823a39f561e2e5aa7e2e3a789fd71">
legacy/src/test/java/org/openscience/cdk/ringsearch/cyclebasis/SimpleCycleTest.java
</a>
</li>
<li class="file-stats">
<a href="#a7b80f2304acc2626f8af69f331e833dce51b17f">
legacy/src/test/java/org/openscience/cdk/smiles/DeduceBondSystemToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#5945b48e5fea310e32aa113432a44ed1ff1672a2">
legacy/src/test/java/org/openscience/cdk/smiles/FixBondOrdersToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#93e2d2500ee9bcf4e5b5c2f892f26ac3842f897b">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/SMARTSQueryToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#4b0d5195835f6f42e285babf10a3fda79c399ee1">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/SMARTSTest.java
</a>
</li>
<li class="file-stats">
<a href="#2bd5f8af277909dffa9814b5207aab919485e17c">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/ParserTest.java
</a>
</li>
<li class="file-stats">
<a href="#75776b88fdace17ee79ec88520d54fb887e052d6">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/RecursiveTest.java
</a>
</li>
<li class="file-stats">
<a href="#04fb6847de4efcd09197f03a7c5b69e0f4e53821">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/SMARTSSearchTest.java
</a>
</li>
<li class="file-stats">
<a href="#905aa84682db9c7ec31fbcbf5b4f0d6892785fed">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/SmartsDumpVisitorTest.java
</a>
</li>
<li class="file-stats">
<a href="#8ac762c76631cb560dbf5fa4c1fa71806585b025">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/SmartsQueryVisitorTest.java
</a>
</li>
<li class="file-stats">
<a href="#c0b8fb3ed6047b18e4e31d2de1d18983d235b9a1">
legacy/src/test/java/org/openscience/cdk/smiles/smarts/parser/SmartsStereoTest.java
</a>
</li>
<li class="file-stats">
<a href="#628a36131de692575a3b695afb5eda086bafa10a">
legacy/src/test/java/org/openscience/cdk/smsd/SMSDBondInsensitiveTest.java
</a>
</li>
<li class="file-stats">
<a href="#91678172ee6f36c21241bfdfd181e2cd18d70b1c">
legacy/src/test/java/org/openscience/cdk/smsd/SMSDBondSensitiveTest.java
</a>
</li>
<li class="file-stats">
<a href="#ea382504ef261cebabf11b19544ccd291eb78c92">
legacy/src/test/java/org/openscience/cdk/smsd/SMSDTest.java
</a>
</li>
<li class="file-stats">
<a href="#00f076ee352e647e80bf93e80f99a87c854fa0fc">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/mcsplus/BKKCKCFTest.java
</a>
</li>
<li class="file-stats">
<a href="#2797594f2cd234db334ced64b0701f5863d927a7">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/mcsplus/ExactMappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#fb2c137f77b3c0a09316c070dfd5cfeede11720f">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/mcsplus/GenerateCompatibilityGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#432a5e8f9e6364db4148c8a069acd2b4429b384f">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/mcsplus/MCSPlusHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#3e01ace0672457d3cfdead9f613833f99a64978e">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/mcsplus/MCSPlusTest.java
</a>
</li>
<li class="file-stats">
<a href="#2342003a086c2c1a80c793fe9c8b05710e10f053">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKMCSHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#c78549b155332d8addeff543f547c5ac77fb8eb4">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKMCSTest.java
</a>
</li>
<li class="file-stats">
<a href="#53744d0117696da1dc5fa0bd944d52ef4320597d">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#24e155a60d5c2c4569de1725c68cc855f07d1a2e">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRMapHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#fff64705b10b63ecb74d95418811e7e6e6b2badd">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRMapTest.java
</a>
</li>
<li class="file-stats">
<a href="#82c04f091992866bdc49fa7755490c17111c260d">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/rgraph/CDKRNodeTest.java
</a>
</li>
<li class="file-stats">
<a href="#17a15320a261120b180d5924900eb8267c964abf">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/single/SingleMappingHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#8a7858f3c0e5ed22a9516670a882296ee6c5389c">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/single/SingleMappingTest.java
</a>
</li>
<li class="file-stats">
<a href="#3a70a54db2120c24b5bdbab2eb4174e582000664">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/vflib/Molecules.java
</a>
</li>
<li class="file-stats">
<a href="#bfa5f7c35ef6418de9759947c43115ef154dcf8c">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/vflib/VFLibTest.java
</a>
</li>
<li class="file-stats">
<a href="#df45843072b53752ef6f4944ac72d963f158698a">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/vflib/VFMapperTest.java
</a>
</li>
<li class="file-stats">
<a href="#a368a3563e719f8a0ec814cf9915341e54427a81">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/vflib/VFlibMCSHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#02884e5d950d3bb4e179cacce05ce22da7ee1d2c">
legacy/src/test/java/org/openscience/cdk/smsd/algorithm/vflib/VFlibTurboHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#c06ad23ccccee34814996ede2eeaed81dad7557e">
legacy/src/test/java/org/openscience/cdk/smsd/factory/SubStructureSearchAlgorithmsTest.java
</a>
</li>
<li class="file-stats">
<a href="#cbd26835615417bc4248ec23ce823c9ac6cefb25">
legacy/src/test/java/org/openscience/cdk/smsd/filters/ChemicalFiltersTest.java
</a>
</li>
<li class="file-stats">
<a href="#07f3f5a148635fddbabfc9a7c6519a944ddee4ec">
legacy/src/test/java/org/openscience/cdk/smsd/filters/PostFilterTest.java
</a>
</li>
<li class="file-stats">
<a href="#011702247359ebc3a6d3d9cc24afccddccd58fee">
legacy/src/test/java/org/openscience/cdk/smsd/global/TimeOutTest.java
</a>
</li>
<li class="file-stats">
<a href="#1213ba5993bc2ed518cd7c200fd63b660c340820">
legacy/src/test/java/org/openscience/cdk/smsd/helper/BinaryTreeTest.java
</a>
</li>
<li class="file-stats">
<a href="#829475ea6a8676dc1053e639678cb428ad870a6d">
legacy/src/test/java/org/openscience/cdk/smsd/helper/BondEnergyTest.java
</a>
</li>
<li class="file-stats">
<a href="#d887e243e529e33d23e4f2786324c9f79aba0f81">
legacy/src/test/java/org/openscience/cdk/smsd/helper/FinalMappingsTest.java
</a>
</li>
<li class="file-stats">
<a href="#f20cc444fa26e08e6013f90f9a1d34a5c421394a">
legacy/src/test/java/org/openscience/cdk/smsd/helper/LabelContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#4e841e47f071eeb5f5d7315cf3a22d0949b8be15">
legacy/src/test/java/org/openscience/cdk/smsd/helper/MolHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#e48fa3ed2f0f352cb2edf11cbda1c265c4a1e47c">
legacy/src/test/java/org/openscience/cdk/smsd/interfaces/AbstractMCSAlgorithmTest.java
</a>
</li>
<li class="file-stats">
<a href="#8d04f06053e01e474a9f29429c420efbee73d078">
legacy/src/test/java/org/openscience/cdk/smsd/interfaces/AbstractMCSTest.java
</a>
</li>
<li class="file-stats">
<a href="#ccce6a30f46fe8946e2022b65e7057a61aee8db7">
legacy/src/test/java/org/openscience/cdk/smsd/interfaces/AbstractSubGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#39e7c646461e11d0d25f92a65b5325ab3ecc1720">
legacy/src/test/java/org/openscience/cdk/smsd/ring/HanserRingFinderTest.java
</a>
</li>
<li class="file-stats">
<a href="#18d93a0ec682a916d033199d8e0bc375e825c88a">
legacy/src/test/java/org/openscience/cdk/smsd/tools/BondEnergiesTest.java
</a>
</li>
<li class="file-stats">
<a href="#73be9333cc1fc29cadb1a118b6aa553df9573c6f">
legacy/src/test/java/org/openscience/cdk/smsd/tools/ExtAtomContainerManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0872afdcac15f42f1fc7dfee0d9e8d9fee7af151">
legacy/src/test/java/org/openscience/cdk/smsd/tools/MoleculeSanityCheckTest.java
</a>
</li>
<li class="file-stats">
<a href="#18e4e2c83b488cbce7b9aede5cd21af7aa948cdd">
legacy/src/test/java/org/openscience/cdk/smsd/tools/TimeManagerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2b2005c1f7af8406f9d738eaa48b4e4a4b4760c">
legacy/src/test/java/org/openscience/cdk/tools/DeAromatizationToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#c0b2bc45139c8833823093274bbc1b20fd407a42">
legacy/src/test/java/org/openscience/cdk/tools/IonizationPotentialToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#181f457dc799d83fa6fe4f8a480c2aa2dfaf9f69">
legacy/src/test/java/org/openscience/cdk/tools/SystemOutLoggingToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#3c38b49f695de9ceb0bf82cc53f986065c6f8781">
misc/control/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#e6cbc07699ec14912c7dbcea7182404176d27626">
misc/control/src/main/java/org/openscience/cdk/controller/IMouseEventRelay.java
</a>
</li>
<li class="file-stats">
<a href="#de23a9b828813fbb0c3f8151dee7118cbeb114de">
misc/control/src/main/java/org/openscience/cdk/controller/IViewEventRelay.java
</a>
</li>
<li class="file-stats">
<a href="#286f4b4eb28755f408704ae13c8f7c7460ceb7ed">
misc/control/src/main/java/org/openscience/cdk/controller/SwingEventRelay.java
</a>
</li>
<li class="file-stats">
<a href="#6da3519b0453417b563716d808513e2c37ebcfb5">
misc/control/src/main/java/org/openscience/cdk/controller/SwingMouseEventRelay.java
</a>
</li>
<li class="file-stats">
<a href="#bc7e7f10d09b801c5ae107bb759820685385a931">
misc/control/src/main/java/org/openscience/cdk/controller/UndoAdapter.java
</a>
</li>
<li class="file-stats">
<a href="#9936a784229485a238be2ed4d48f9763d94b46d2">
misc/diff/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#9ba539a36adad7559a1f97351a13bdd2e8978583">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/AtomContainerDiff.java
</a>
</li>
<li class="file-stats">
<a href="#95879f741271ab00b1bd685767df141d07cd4119">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/AtomDiff.java
</a>
</li>
<li class="file-stats">
<a href="#9e5d0d820a75a360b0ad78321b78da907bbc4820">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/AtomTypeDiff.java
</a>
</li>
<li class="file-stats">
<a href="#e04c961c0bae39f7ee7a90c11eefbdd121d817a2">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/BondDiff.java
</a>
</li>
<li class="file-stats">
<a href="#ac116ba81fb914c61ddaa25b26c1febd82346b8b">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/ChemObjectDiff.java
</a>
</li>
<li class="file-stats">
<a href="#129a407d45f49da2abfc56ffb7993af97fe3abfe">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/ElectronContainerDiff.java
</a>
</li>
<li class="file-stats">
<a href="#278b48f962ac04966de2de3cc57b6e2257da75d8">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/ElementDiff.java
</a>
</li>
<li class="file-stats">
<a href="#54dc015dfe642813d54b1e7bfefae17b3844fdfc">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/IsotopeDiff.java
</a>
</li>
<li class="file-stats">
<a href="#08516cc8e1b4c8d2c5b706a2655f5a7194431b9b">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/LonePairDiff.java
</a>
</li>
<li class="file-stats">
<a href="#06869b8ac825975c9a161744a790b18386e3fa89">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/SingleElectronDiff.java
</a>
</li>
<li class="file-stats">
<a href="#36d5b93d4e27629fb7f4fbbc2453461102ca47b3">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/AbstractDifference.java
</a>
</li>
<li class="file-stats">
<a href="#da0d0f5078cfc8355048a88db1a5663854588049">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/AbstractDifferenceList.java
</a>
</li>
<li class="file-stats">
<a href="#dfe09593ef72ec3f7d6c90617f8a206a7525888e">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/AtomTypeHybridizationDifference.java
</a>
</li>
<li class="file-stats">
<a href="#11021e80358ceb27ce5a776b332ba69d3737e518">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/BondOrderDifference.java
</a>
</li>
<li class="file-stats">
<a href="#5476c919de81b80392849cb258a399ec2539a85b">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/BooleanArrayDifference.java
</a>
</li>
<li class="file-stats">
<a href="#581a55c4ed778c4814119be4335ae17e024d144a">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/BooleanDifference.java
</a>
</li>
<li class="file-stats">
<a href="#2370a7bbd2e2cf039dbf988c3a8a0dc519819ebe">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/ChemObjectDifference.java
</a>
</li>
<li class="file-stats">
<a href="#4073edb5b3d46c180de1eb51f36026dd85edc727">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/DoubleDifference.java
</a>
</li>
<li class="file-stats">
<a href="#5346a40de0ffd9aa7d72e3ace06b3ff736fd9e73">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/IDifference.java
</a>
</li>
<li class="file-stats">
<a href="#fa7c34422af96b627bb5628964dc66ff63514cae">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/IDifferenceList.java
</a>
</li>
<li class="file-stats">
<a href="#4fc3a33342cb2e405a287b31c07b797d09b72852">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/IntegerDifference.java
</a>
</li>
<li class="file-stats">
<a href="#31ca770bff87b1002bb8a3987bb233759ad25925">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/Point2dDifference.java
</a>
</li>
<li class="file-stats">
<a href="#1e87d37460347211652f79aa061f05848aa08d86">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/Point3dDifference.java
</a>
</li>
<li class="file-stats">
<a href="#1df66c19efcd2e82a9b96dd9f92e9078e697585c">
misc/diff/src/main/java/org/openscience/cdk/tools/diff/tree/StringDifference.java
</a>
</li>
<li class="file-stats">
<a href="#4c0af5e0e36a69656b81ed0b019b08085e75be84">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/AtomContainerDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#73fae50d6c012c679da4cbdb5db375cc9b3e2036">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/AtomDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#a49b94625b85492fde07db1ab60ffb03f739e294">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/AtomTypeDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#ad2e1f60f6442cf829c994ab709168b1a4a23459">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/BondDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#7b6943b4c7d0d0e3e488da77b1192c72a4a4eea7">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/ChemObjectDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#26bd24d8af096c94be9e97c1bb26abd3cea558da">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/ElectronContainerDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#342cdd9ca4c4ecc52476fcdff9f2dd7cc1f32fcf">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/ElementDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#e5f50d02e782b687b3fb6397a399b5f6e74468d9">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/IsotopeDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#2f5b2af29374a31e89e2b1e671db45abbefd4ded">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/LonePairDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#6289baac962780963143eaf91dc9cdc6410b2331">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/SingleElectronDiffTest.java
</a>
</li>
<li class="file-stats">
<a href="#55c90611d0442fa8874460b7478dcab38678a9f9">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/AbstractDifferenceListTest.java
</a>
</li>
<li class="file-stats">
<a href="#30d57dda8a0d47e5c65a12b0d4805ca773a16c70">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/AbstractDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#abf226d40faec4dce17a07a63b9b671c2aabd726">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/AtomTypeHybridizationDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#4fe32ca9e997b3369e859a51d515104753f27ca1">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/BondOrderDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#62f140d7b0a635b39cc3888c68fd0bb891a95118">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/BooleanArrayDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#999220cccf48e26e8f53b3e462b6432c414b45b9">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/BooleanDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#6ec3a1694c1572f213dcb69678fa60c6bf6118a7">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/ChemObjectDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#b2d23bb00ccd05c466b750653141f069dfb4eb85">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/DoubleDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#8113fdaed66dca83ac252db41a95819c374335fd">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/IntegerDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#f5d772fb67360842f7228b80de74f32d26a76235">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/Point2dDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#012e0b5345ad1d709ab4fbfd94e56bfb4cd3c00b">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/Point3dDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#a7f621eee91e2bc54675e5e9bce625564bcafc80">
misc/diff/src/test/java/org/openscience/cdk/tools/diff/tree/StringDifferenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#c933b217ad7ff230ae890f5a340463977c38ae7f">
misc/extra/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#4cf62918d63bea12002455b9a12ebbc871a7a6c3">
misc/extra/src/main/java/org/openscience/cdk/Association.java
</a>
</li>
<li class="file-stats">
<a href="#d3666dfcbd9f8be3091e9994c94faf426eefa8fe">
misc/extra/src/main/java/org/openscience/cdk/PhysicalConstants.java
</a>
</li>
<li class="file-stats">
<a href="#ee41c1c7eba14afab6f032dd782e19eb35dc3ebb">
misc/extra/src/main/java/org/openscience/cdk/Vibration.java
</a>
</li>
<li class="file-stats">
<a href="#03014da2fa9526137fb20ddde1720d9c68af68f6">
misc/extra/src/main/java/org/openscience/cdk/config/XMLIsotopeFactory.java
</a>
</li>
<li class="file-stats">
<a href="#dc2205cbc4d10e0026be1731c5a772d42aa7ad79">
misc/extra/src/main/java/org/openscience/cdk/config/isotopes/IsotopeHandler.java
</a>
</li>
<li class="file-stats">
<a href="#e504813af2493f24bda4ae45b1fd8a066d4b662b">
misc/extra/src/main/java/org/openscience/cdk/config/isotopes/IsotopeReader.java
</a>
</li>
<li class="file-stats">
<a href="#57381fde6b8a78a6e193357f2eb3445267820624">
misc/extra/src/main/java/org/openscience/cdk/exception/IncorrectUseOfCDKCoreClassError.java
</a>
</li>
<li class="file-stats">
<a href="#002a5522999dec3c04333e774f404d9c1a0b57b8">
misc/extra/src/main/java/org/openscience/cdk/geometry/AtomTools.java
</a>
</li>
<li class="file-stats">
<a href="#aa52d82c065168cf65d5871578c7b898ecc81027">
misc/extra/src/main/java/org/openscience/cdk/geometry/IRDFWeightFunction.java
</a>
</li>
<li class="file-stats">
<a href="#944b04f89792075ab50c14f4af493ac79b9785f8">
misc/extra/src/main/java/org/openscience/cdk/geometry/Projector.java
</a>
</li>
<li class="file-stats">
<a href="#2492b7113b8018df5d78654f813a68e838f548fa">
misc/extra/src/main/java/org/openscience/cdk/geometry/RDFCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#837b37f3b0243ff108bf553fefab432643f1ee40">
misc/extra/src/main/java/org/openscience/cdk/geometry/alignment/KabschAlignment.java
</a>
</li>
<li class="file-stats">
<a href="#6080d1f65a3c1c022f4608e9b50fe949afc048e4">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/EquivalentClassPartitioner.java
</a>
</li>
<li class="file-stats">
<a href="#ee3275372243f790581f9d7eec388718d7befe7b">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/GIMatrix.java
</a>
</li>
<li class="file-stats">
<a href="#9631b1ea67ad64735582521146e46e61b03e7d55">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/HuLuIndexTool.java
</a>
</li>
<li class="file-stats">
<a href="#bb1d26b84ab4a9e305b49b55c773dce2cd9d42ce">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/exception/BadMatrixFormatException.java
</a>
</li>
<li class="file-stats">
<a href="#299e2265d6eb834858e9f1d7cdc8544716e3e1e3">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/exception/IndexOutOfBoundsException.java
</a>
</li>
<li class="file-stats">
<a href="#d1aec7ca1c20f2ae98776a3effd48467802ae10e">
misc/extra/src/main/java/org/openscience/cdk/graph/invariant/exception/MatrixNotInvertibleException.java
</a>
</li>
<li class="file-stats">
<a href="#df91b490cf1d2cb23a3f43f2d986e94891add325">
misc/extra/src/main/java/org/openscience/cdk/index/CASNumber.java
</a>
</li>
<li class="file-stats">
<a href="#bf8cd987bda1107cb56f6c66468b0bf565a5d50b">
misc/extra/src/main/java/org/openscience/cdk/io/CrystClustReader.java
</a>
</li>
<li class="file-stats">
<a href="#47f783860e94ca145eea47901f727892d602e1fa">
misc/extra/src/main/java/org/openscience/cdk/io/CrystClustWriter.java
</a>
</li>
<li class="file-stats">
<a href="#4addf74974f7c1885c9102612d2a95d59614d9c1">
misc/extra/src/main/java/org/openscience/cdk/io/GamessReader.java
</a>
</li>
<li class="file-stats">
<a href="#6429e8e6d7d0a11b30570e71c2244e40fe6e5711">
misc/extra/src/main/java/org/openscience/cdk/io/INChIPlainTextReader.java
</a>
</li>
<li class="file-stats">
<a href="#2ea0b32bbc350851d160b002db552529083add64">
misc/extra/src/main/java/org/openscience/cdk/io/INChIReader.java
</a>
</li>
<li class="file-stats">
<a href="#a14a0260560bf32932e2c46aef71961a82ce1d5f">
misc/extra/src/main/java/org/openscience/cdk/io/ShelXWriter.java
</a>
</li>
<li class="file-stats">
<a href="#36498bfbd3768b153754c4ab680c50b46d5d55be">
misc/extra/src/main/java/org/openscience/cdk/io/VASPReader.java
</a>
</li>
<li class="file-stats">
<a href="#17cf8e04f8945a3a600a5f4312d92480910a9fe0">
misc/extra/src/main/java/org/openscience/cdk/io/ZMatrixReader.java
</a>
</li>
<li class="file-stats">
<a href="#4df367b25bcea1b2644d88d1f0b763041dfc9b74">
misc/extra/src/main/java/org/openscience/cdk/io/iterator/IteratingMDLConformerReader.java
</a>
</li>
<li class="file-stats">
<a href="#5fe9208f3bb36c6c4be83b5ccba00a4422f490a8">
misc/extra/src/main/java/org/openscience/cdk/protein/ProteinPocketFinder.java
</a>
</li>
<li class="file-stats">
<a href="#df973c83467590a98b04ccac995b76670d5ddb24">
misc/extra/src/main/java/org/openscience/cdk/reaction/ReactionChain.java
</a>
</li>
<li class="file-stats">
<a href="#57ab95be0f5f16da77a5d30151f1e9659ae230e1">
misc/extra/src/main/java/org/openscience/cdk/templates/saturatedhydrocarbons/IsoAlkanes.java
</a>
</li>
<li class="file-stats">
<a href="#98da9887810ac2ba20477242ad7bccd6fde7ce31">
misc/extra/src/main/java/org/openscience/cdk/tools/AtomTypeTools.java
</a>
</li>
<li class="file-stats">
<a href="#f4e98530bca463e7d266f80109c36a6c60253fb0">
misc/extra/src/main/java/org/openscience/cdk/tools/BremserOneSphereHOSECodePredictor.java
</a>
</li>
<li class="file-stats">
<a href="#e1da3fc7d46d7c4182b310daf283c1a4ba07fb45">
misc/extra/src/main/java/org/openscience/cdk/tools/DataFeaturesTool.java
</a>
</li>
<li class="file-stats">
<a href="#d9e8ff7711dd181d0589cc51f903582304951309">
misc/extra/src/main/java/org/openscience/cdk/tools/GridGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#a7e3de95bbb4f8c28a9ee1bfa2c3f3aeb9cdc0c8">
misc/extra/src/main/java/org/openscience/cdk/tools/HOSECodeAnalyser.java
</a>
</li>
<li class="file-stats">
<a href="#40582b124a39180580767b07f21d05d56163ad9d">
misc/extra/src/main/java/org/openscience/cdk/tools/features/MoleculeFeaturesTool.java
</a>
</li>
<li class="file-stats">
<a href="#5b75bb652a51e7e81f33658d37ef931f88fa3b38">
misc/extra/src/main/java/org/openscience/cdk/validate/AbstractValidator.java
</a>
</li>
<li class="file-stats">
<a href="#a8f97c5d8e9405b072973ce616f79252b74806fd">
misc/extra/src/main/java/org/openscience/cdk/validate/BasicValidator.java
</a>
</li>
<li class="file-stats">
<a href="#9d13d81bd6cc213d443f49127f61b9fab0d3c8e4">
misc/extra/src/main/java/org/openscience/cdk/validate/CDKValidator.java
</a>
</li>
<li class="file-stats">
<a href="#f5ebb479476c07f44df3316d9ebd9c458d2e6c26">
misc/extra/src/main/java/org/openscience/cdk/validate/DictionaryValidator.java
</a>
</li>
<li class="file-stats">
<a href="#50bbac2bfc35ac6bd1373f8803b104a493066d57">
misc/extra/src/main/java/org/openscience/cdk/validate/Geometry3DValidator.java
</a>
</li>
<li class="file-stats">
<a href="#205951883513e23e71a9232e7934c1fc555db3fc">
misc/extra/src/main/java/org/openscience/cdk/validate/IValidator.java
</a>
</li>
<li class="file-stats">
<a href="#2ce524ed555534c09c5ffc2866d5bc9c69b5ae1a">
misc/extra/src/main/java/org/openscience/cdk/validate/ValidationReport.java
</a>
</li>
<li class="file-stats">
<a href="#713070f9dc70b504eac3cd94a7a5422434c6228f">
misc/extra/src/main/java/org/openscience/cdk/validate/ValidationTest.java
</a>
</li>
<li class="file-stats">
<a href="#935fdca29d447a7b2ae24d78c53ccedc38896eed">
misc/extra/src/main/java/org/openscience/cdk/validate/ValidatorEngine.java
</a>
</li>
<li class="file-stats">
<a href="#bf6a2e9c97d1b689b9142e0f7bb5ab64b5e24739">
misc/extra/src/test/java/org/openscience/cdk/AssociationTest.java
</a>
</li>
<li class="file-stats">
<a href="#2bab25b90b2df7cf6688928d86e804ebca4b5a14">
misc/test-extra/src/test/java/org/openscience/cdk/config/isotopes/IsotopeHandlerTest.java
→
misc/extra/src/test/java/org/openscience/cdk/config/isotopes/IsotopeHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d1894f931ebe260f71d48ea6a056b91315c5362a">
misc/test-extra/src/test/java/org/openscience/cdk/config/isotopes/IsotopeReaderTest.java
→
misc/extra/src/test/java/org/openscience/cdk/config/isotopes/IsotopeReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#60207319b48b1bbc0f492de52112487c9af5c7c3">
<span class="new-file">
+
misc/extra/src/test/java/org/openscience/cdk/exception/IncorrectUseOfCDKCoreClassErrorTest.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#3e503bb3dac7183e35d9bd3ecce0fa364f047e54">
misc/test-extra/src/test/java/org/openscience/cdk/index/CASNumberTest.java
→
misc/extra/src/test/java/org/openscience/cdk/index/CASNumberTest.java
</a>
</li>
<li class="file-stats">
<a href="#1a5c1e0d89087ff632aa3ad831a92d7f3b99ea9a">
misc/extra/src/test/java/org/openscience/cdk/io/CrystClustReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0f7b707a9ae2ca9699c0166cee8570e0440c317">
misc/extra/src/test/java/org/openscience/cdk/io/ExtraReaderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#f491d1f88ee84dd9d2cbdd8af9ec3cbdad456f7f">
misc/extra/src/test/java/org/openscience/cdk/io/GamessReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#105d7491bd8a161be47778c045caca60a916d1b1">
misc/extra/src/test/java/org/openscience/cdk/io/INChIPlainTextReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#c9a5ccc67a00e0f4f2932474daceec529ef27618">
misc/extra/src/test/java/org/openscience/cdk/io/INChIReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#8e6c1a9ddd7fd1a1ad46b3fd01e8c58cbdb68a5a">
misc/extra/src/test/java/org/openscience/cdk/io/ShelXWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#5a1c8de763ccd43287c8d9bbb8dd739a4c6d09eb">
misc/extra/src/test/java/org/openscience/cdk/io/VASPReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#345cf34d0138be1dec44566e2573933183217e45">
misc/extra/src/test/java/org/openscience/cdk/io/ZMatrixReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#f73f203d6c77056a611e7df7bdb933e210719c43">
misc/extra/src/test/java/org/openscience/cdk/io/iterator/IteratingMDLConformerReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#e847abe8980c123bf43ca3d4dd528d9717ebff1a">
misc/test-extra/src/test/java/org/openscience/cdk/tools/BremserPredictorTest.java
→
misc/extra/src/test/java/org/openscience/cdk/tools/BremserPredictorTest.java
</a>
</li>
<li class="file-stats">
<a href="#0d490c3496f481e6e1cfdd7570543d130b9ddefe">
misc/test-extra/src/test/java/org/openscience/cdk/tools/HOSECodeAnalyserTest.java
→
misc/extra/src/test/java/org/openscience/cdk/tools/HOSECodeAnalyserTest.java
</a>
</li>
<li class="file-stats">
<a href="#6ef6affd039b14e62b9566cc4de1f6f0c1b814ee">
misc/test-extra/src/test/java/org/openscience/cdk/validate/Geometry3DValidatorTest.java
→
misc/extra/src/test/java/org/openscience/cdk/validate/Geometry3DValidatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#7b068a23b55918b5bdb401825dc4cd7e2870e1c9">
misc/test-extra/src/test/resources/org/openscience/cdk/tools/BremserPredictionTest.mol
→
misc/extra/src/test/resources/org/openscience/cdk/tools/BremserPredictionTest.mol
</a>
</li>
<li class="file-stats">
<a href="#37aa1c422b64e109ba2eb0f90251ea43291a2e70">
misc/test-extra/src/test/resources/org/openscience/cdk/validate/Heptane-TestFF-output.mol
→
misc/extra/src/test/resources/org/openscience/cdk/validate/Heptane-TestFF-output.mol
</a>
</li>
<li class="file-stats">
<a href="#9e63ceda6f87c57741a03c71fbb497ed6f82c401">
misc/log4j/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#a508df4e65dc21048b5d9437bcb4e9848ad65580">
misc/log4j/src/main/java/org/openscience/cdk/tools/Log4jLoggingTool.java
</a>
</li>
<li class="file-stats">
<a href="#8baccc46f9e2944e169eb9cb3f800590270bed17">
misc/log4j/src/test/java/org/openscience/cdk/tools/Log4jLoggingToolDebugTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2744402a4f98956f940cdadb0f5537d79dd16ec">
misc/log4j/src/test/java/org/openscience/cdk/tools/Log4jLoggingToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#b22e90165561e05cd1cda91cb06834bc881f9675">
misc/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#73cb224ccf5ec48c1a87cdb5e867f2d1fe90cc11">
misc/qm/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#6fb595924d9fbcb052626dea899f3a10756701b4">
misc/slf4j/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#0640dd6a7bc5f1666aaa5756c9eba3ebce9d940e">
misc/slf4j/src/main/java/org/openscience/cdk/tools/Slf4jLoggingTool.java
</a>
</li>
<li class="file-stats">
<a href="#8f4cd9c2edd10aa0aa33d915c2394bc96c0b17d0">
misc/slf4j/src/test/java/org/openscience/cdk/tools/Slf4jLoggingToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#751ca3d69c7cca0babdce8c1d9b47366aa95734b">
misc/test-extra/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c9bab5e3bacd8ae9207a4cf59d0709bc3b927df6">
misc/test-extra/src/test/java/org/openscience/cdk/CloneAtomContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#4079a6b7cf6bcaed6209d0f0efdba3cdaea028e2">
misc/test-extra/src/test/java/org/openscience/cdk/MockMolecule.java
</a>
</li>
<li class="file-stats">
<a href="#cc7fae926ad24abbebcfee6fabfe8d5210899c67">
misc/test-extra/src/test/java/org/openscience/cdk/config/XMLIsotopeFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#a22a979e46a943a862e632671afca8684aa39075">
misc/test-extra/src/test/java/org/openscience/cdk/dict/DictionaryTest.java
</a>
</li>
<li class="file-stats">
<a href="#7692390a50ebd08f55ab416814a4708ae02c78f1">
misc/test-extra/src/test/java/org/openscience/cdk/geometry/RDFCalculatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#bff6b07257d264d1088aac498d1dcc2b018b8b87">
misc/test-extra/src/test/java/org/openscience/cdk/geometry/alignment/KabschAlignmentTest.java
</a>
</li>
<li class="file-stats">
<a href="#103f32424fee2e52bf86fa16aa376a41fad6e230">
misc/test-extra/src/test/java/org/openscience/cdk/graph/invariant/EquivalentClassPartitionerTest.java
</a>
</li>
<li class="file-stats">
<a href="#1c0d30de94d2a83559932055bc564ee0837c71ca">
misc/test-extra/src/test/java/org/openscience/cdk/io/random/RandomAccessTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc9e92cbddc96341aa087aa26dc55a39c87ec488">
misc/test-extra/src/test/java/org/openscience/cdk/limitations/tools/SaturationCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#b3dadab35c6b5fb402d308d40d329ec9c708e61e">
misc/test-extra/src/test/java/org/openscience/cdk/reaction/ReactionChainTest.java
</a>
</li>
<li class="file-stats">
<a href="#442292b8a7efeabbe4cc176709b833b1792140ec">
pom.xml
</a>
</li>
<li class="file-stats">
<a href="#88621c84597829f4ee80ccb27c816fb36c0bddb0">
storage/ctab/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#01335cff9f8c7cd806aed518288611b27e7f1ca6">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLRXNReader.java
</a>
</li>
<li class="file-stats">
<a href="#d9c6830fdbf7d1f5d9531357ab157dd5f219eb80">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLRXNV2000Reader.java
</a>
</li>
<li class="file-stats">
<a href="#ad3090244c53bb802651f85374eb57d22fbf42c7">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLRXNV3000Reader.java
</a>
</li>
<li class="file-stats">
<a href="#d028fc83e3060d8d4a06cfe4ca964149277a9535">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLRXNWriter.java
</a>
</li>
<li class="file-stats">
<a href="#88a8ad015e8093c2ecc877d154f7782ca413621b">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLReader.java
</a>
</li>
<li class="file-stats">
<a href="#e9c312e4d45161fb9112543edd533d014132d194">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLV2000Reader.java
</a>
</li>
<li class="file-stats">
<a href="#0bc55429e1973d99695ed7d6a289a90af3cb90f6">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLV2000Writer.java
</a>
</li>
<li class="file-stats">
<a href="#63572132112716a256ff4fd2d3d4777ecce19354">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLV3000Reader.java
</a>
</li>
<li class="file-stats">
<a href="#f4222c9dd930b3b5963082b2990e47eae7e21e16">
storage/ctab/src/main/java/org/openscience/cdk/io/MDLValence.java
</a>
</li>
<li class="file-stats">
<a href="#f81742a997ef56c64ae94d18c0a231028fee3155">
storage/ctab/src/main/java/org/openscience/cdk/io/RGroupQueryReader.java
</a>
</li>
<li class="file-stats">
<a href="#c3411c896f190f8da1a65cc5f3c3bb043f6b355f">
storage/ctab/src/main/java/org/openscience/cdk/io/RGroupQueryWriter.java
</a>
</li>
<li class="file-stats">
<a href="#f016f26858c08230c110e1534469316a3ff898cb">
storage/ctab/src/main/java/org/openscience/cdk/io/RdfileReader.java
</a>
</li>
<li class="file-stats">
<a href="#02958c8379d6ced502ad34bd9a9d5d9eb4d1080a">
storage/ctab/src/main/java/org/openscience/cdk/io/RdfileRecord.java
</a>
</li>
<li class="file-stats">
<a href="#e598f9e40aa892d5551406211ef6fa2720cf1eaf">
storage/ctab/src/main/java/org/openscience/cdk/io/SDFWriter.java
</a>
</li>
<li class="file-stats">
<a href="#e67dcbdee2801294824cfad1733bc0d5dc885ccb">
storage/ctab/src/main/java/org/openscience/cdk/io/iterator/IteratingSDFReader.java
</a>
</li>
<li class="file-stats">
<a href="#6422915ea0169b08eaf3d15fff0994d4bc55a59a">
storage/ctab/src/main/java/org/openscience/cdk/io/random/RandomAccessSDFReader.java
</a>
</li>
<li class="file-stats">
<a href="#1d4b1764144d6d3845e5f6f3941d39d110fe3d19">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLRXNReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#5719da5cbda6803569b055741717188cf86ba4ed">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLRXNV2000ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#7626a14ce9aae9b7595afec03ba63956cd955ef8">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLRXNV3000ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#d265185ee2928af88fedf1c24fcdfcf4708964ac">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLRXNWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#49d5150fdd9dc229142d945933d32828df4961a9">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#31c8f3506324ac1496759017e09760f936ad4662">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV2000AtomBlockTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce4d86aba621b61a778eed9e10016f32462aacab">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV2000BondBlockTest.java
</a>
</li>
<li class="file-stats">
<a href="#dead73e9132b908d872232e2fc2708e6f9cd32c8">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV2000PropertiesBlockTest.java
</a>
</li>
<li class="file-stats">
<a href="#37d4e125f6761ac28515e7952265252c24566d8e">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV2000ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#7ef16153eec242233045edcf67b3f0efdd5a61d3">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV2000WriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#2034546c25831ba41cf46465dfdbcaded56d35df">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLV3000ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#d8a591e0fc2f2608a0e4809485a0c2ca3a2dffc6">
storage/ctab/src/test/java/org/openscience/cdk/io/MDLValenceTest.java
</a>
</li>
<li class="file-stats">
<a href="#b890b9f60bde6ec551bcaecd3be1254db535c9e2">
storage/ctab/src/test/java/org/openscience/cdk/io/RGroupQueryReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#8556f03c006212c11c853076eaf3e5d5ba7607f3">
storage/ctab/src/test/java/org/openscience/cdk/io/RGroupQueryWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#9227d9b80c8e29f06401e1a3050b979b372c1ca7">
storage/ctab/src/test/java/org/openscience/cdk/io/SDFReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#79a8527a12f359adaa7ea250351e34ff5cf8fa84">
storage/ctab/src/test/java/org/openscience/cdk/io/SDFWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#faaeb336057f95b350d388485d01f7ea5d5daec1">
storage/ctab/src/test/java/org/openscience/cdk/io/iterator/IteratingSDFReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#3ebae18127678e4ade1c4196a6f3afcfd2feedbe">
storage/inchi/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#cac4ed3a3a59510c3240acec4dddaff26ba9e1a7">
storage/inchi/src/main/java/org/openscience/cdk/graph/invariant/InChINumbersTools.java
</a>
</li>
<li class="file-stats">
<a href="#c5ad9ae3a5038b13e6534662cca6d92153b67d71">
storage/inchi/src/main/java/org/openscience/cdk/inchi/InChIGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#980d2e965871d3b29e7f88989190c36de771a258">
storage/inchi/src/main/java/org/openscience/cdk/inchi/InChIGeneratorFactory.java
</a>
</li>
<li class="file-stats">
<a href="#e5016a702ea8d40694d6995a2359275cec82e141">
storage/inchi/src/main/java/org/openscience/cdk/inchi/InChIToStructure.java
</a>
</li>
<li class="file-stats">
<a href="#af67c7a6ad5bf59c2e705f094b54620fccf55ea0">
storage/inchi/src/test/java/org/openscience/cdk/graph/invariant/InChINumbersToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#7bd5d4d3e96b1327b2fdbf50fdc1115777c363d9">
storage/inchi/src/test/java/org/openscience/cdk/inchi/InChIGeneratorFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#4074af2f656ca52a1c7d336c375abedc390c46b1">
storage/inchi/src/test/java/org/openscience/cdk/inchi/InChIGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#784fbd780c0d108930c09326b422051f5476dee8">
storage/inchi/src/test/java/org/openscience/cdk/inchi/InChIToStructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#79585b048673b67f3aad2912eb8cc55a2a149143">
storage/inchi/src/test/java/org/openscience/cdk/smiles/AbsoluteSMILESTest.java
</a>
</li>
<li class="file-stats">
<a href="#87dedd9a79fa65db56a30251e333f137ae63588d">
storage/inchi/src/test/java/org/openscience/cdk/smiles/EmptyReactionSmilesGenerationTest.java
</a>
</li>
<li class="file-stats">
<a href="#39e89a687466bfa907820f5a46d6ea49ae883af6">
storage/io/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ea392fa902730af990d8a9fefc3f964a2e470da2">
storage/io/src/main/java/org/openscience/cdk/dict/DictRef.java
</a>
</li>
<li class="file-stats">
<a href="#e1b3ae0f40a2ad35313b0a5c82cb2f3c562cb18f">
storage/io/src/main/java/org/openscience/cdk/geometry/ZMatrixTools.java
</a>
</li>
<li class="file-stats">
<a href="#9a281278a01597c7480d39f6f90629736db2acb1">
storage/io/src/main/java/org/openscience/cdk/io/CDKSourceCodeWriter.java
</a>
</li>
<li class="file-stats">
<a href="#81e9282bf62fb8c2bcb5c1d95e92c0befbcd7002">
storage/io/src/main/java/org/openscience/cdk/io/CIFReader.java
</a>
</li>
<li class="file-stats">
<a href="#a15dac031116e31f03155722150c008dd0d4cccb">
storage/io/src/main/java/org/openscience/cdk/io/CMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#8da8e81533fe1579e39ddafc8e09e8cb6b7e806d">
storage/io/src/main/java/org/openscience/cdk/io/CTXReader.java
</a>
</li>
<li class="file-stats">
<a href="#ffa926e62674ce894a7b3a03521870b6c64fd858">
base/standard/src/main/java/org/openscience/cdk/tools/FormatStringBuffer.java
→
storage/io/src/main/java/org/openscience/cdk/io/FormatStringBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#bb5195ee2ec747b164077f278191c5f8474c18de">
storage/io/src/main/java/org/openscience/cdk/io/Gaussian03Reader.java
</a>
</li>
<li class="file-stats">
<a href="#eb9d0d7052c02416969476a3acaa9d298dcf39e1">
storage/io/src/main/java/org/openscience/cdk/io/Gaussian98Reader.java
</a>
</li>
<li class="file-stats">
<a href="#675ddd76b1c2ff4d7849f04aeb44dd369c07c406">
storage/io/src/main/java/org/openscience/cdk/io/GhemicalMMReader.java
</a>
</li>
<li class="file-stats">
<a href="#73cf1cd0f764d4f106b7cb29969c8a57f8e91205">
storage/io/src/main/java/org/openscience/cdk/io/HINReader.java
</a>
</li>
<li class="file-stats">
<a href="#300f5a8fd854cc0761cd0c72867f791d70400b0c">
storage/io/src/main/java/org/openscience/cdk/io/HINWriter.java
</a>
</li>
<li class="file-stats">
<a href="#b402656fc2ce69eb19f11009035f957ae82714a3">
storage/io/src/main/java/org/openscience/cdk/io/Mol2Reader.java
</a>
</li>
<li class="file-stats">
<a href="#80a8fdd9b193e3d4f9e224fd8622751ef973a07f">
storage/io/src/main/java/org/openscience/cdk/io/Mol2Writer.java
</a>
</li>
<li class="file-stats">
<a href="#316042099916ba65ea36643ac42fcb660e3d10c6">
storage/io/src/main/java/org/openscience/cdk/io/Mopac7Reader.java
</a>
</li>
<li class="file-stats">
<a href="#1570151442871523651e3d4a2835dde8a7c4b7f9">
storage/io/src/main/java/org/openscience/cdk/io/PCCompoundASNReader.java
</a>
</li>
<li class="file-stats">
<a href="#ba12eb3d6dadc74c1b4fcf3339bba656a2f21e42">
storage/io/src/main/java/org/openscience/cdk/io/PCCompoundXMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#415ae37fe0cacefd235072cf8f6f30a8ab5f99a0">
storage/io/src/main/java/org/openscience/cdk/io/PCSubstanceXMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#24d42047faa8dcb8c288960b91138abd239ec432">
storage/io/src/main/java/org/openscience/cdk/io/PMPReader.java
</a>
</li>
<li class="file-stats">
<a href="#ecce4af07c64584ca57f5fc52bf000835586daaa">
storage/io/src/main/java/org/openscience/cdk/io/ReaderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#a35e6a7246e110c0084eb142907e556cbb2013c5">
storage/io/src/main/java/org/openscience/cdk/io/ShelXReader.java
</a>
</li>
<li class="file-stats">
<a href="#34871b9f94b9f826450a11f3a50c69708604bdde">
storage/io/src/main/java/org/openscience/cdk/io/WriterFactory.java
</a>
</li>
<li class="file-stats">
<a href="#4f190fe9579ce37db3e0af3a90a3ffb2fa72be88">
storage/io/src/main/java/org/openscience/cdk/io/XYZReader.java
</a>
</li>
<li class="file-stats">
<a href="#d2764e9e17b2449df110acdc4d9bc58ad316d1f4">
storage/io/src/main/java/org/openscience/cdk/io/XYZWriter.java
</a>
</li>
<li class="file-stats">
<a href="#1754ea5cb79238614d27850de0873c02f6ec3bc1">
storage/io/src/main/java/org/openscience/cdk/io/cml/CDKConvention.java
</a>
</li>
<li class="file-stats">
<a href="#603b3ea593dce7fef02990a0ea748e323ea57823">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLCoreModule.java
</a>
</li>
<li class="file-stats">
<a href="#79b2f235ad860764e785428a33170952d2665c1e">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLErrorHandler.java
</a>
</li>
<li class="file-stats">
<a href="#52ef4ad97f1a4f25db7b57a65ac035a9abc01980">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLHandler.java
</a>
</li>
<li class="file-stats">
<a href="#ace823aa16971c4862379c908f7e04c21c961c75">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLModuleStack.java
</a>
</li>
<li class="file-stats">
<a href="#9210d0632e96a3bfb88ac07ed5d95c50602dd208">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLReactionModule.java
</a>
</li>
<li class="file-stats">
<a href="#45d196dddedbf75df891f596ec7d312806296e3f">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLResolver.java
</a>
</li>
<li class="file-stats">
<a href="#599619e59b5ddc48f5c6e8ec9ee00351c82ab446">
storage/io/src/main/java/org/openscience/cdk/io/cml/CMLStack.java
</a>
</li>
<li class="file-stats">
<a href="#694a19eb1068e679ac7d57c129aae75b8928714d">
storage/io/src/main/java/org/openscience/cdk/io/cml/ICMLConvention.java
</a>
</li>
<li class="file-stats">
<a href="#d64b43e6fea9a8e8ff0ad542129642f5c9652318">
storage/io/src/main/java/org/openscience/cdk/io/cml/ICMLModule.java
</a>
</li>
<li class="file-stats">
<a href="#84f98acf9b73219dd3b57bb273ef69d9abe45e38">
storage/io/src/main/java/org/openscience/cdk/io/cml/JMOLANIMATIONConvention.java
</a>
</li>
<li class="file-stats">
<a href="#480986dee09e5002dd1ba998e8b14f7239d58559">
storage/io/src/main/java/org/openscience/cdk/io/cml/MDLMolConvention.java
</a>
</li>
<li class="file-stats">
<a href="#eff834d52d45a1f09f2ca60665a95babb67bb0af">
storage/io/src/main/java/org/openscience/cdk/io/cml/PDBConvention.java
</a>
</li>
<li class="file-stats">
<a href="#a6c31294e8768d38a38d0a5130973187a555b3a5">
storage/io/src/main/java/org/openscience/cdk/io/cml/PMPConvention.java
</a>
</li>
<li class="file-stats">
<a href="#7ed70d6240faa1eff7b607e84f7d598bb5208562">
storage/io/src/main/java/org/openscience/cdk/io/cml/QSARConvention.java
</a>
</li>
<li class="file-stats">
<a href="#752589651f33bec6eb3b6b935e26129ac14d918b">
storage/io/src/main/java/org/openscience/cdk/io/iterator/IteratingPCCompoundASNReader.java
</a>
</li>
<li class="file-stats">
<a href="#f14f6aa9433163c4dc98934f503f1afea454443c">
storage/io/src/main/java/org/openscience/cdk/io/iterator/IteratingPCCompoundXMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#609fd0eeede40580ae4c065f2b94ef9d3a7ea874">
storage/io/src/main/java/org/openscience/cdk/io/iterator/IteratingPCSubstancesXMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#c4eb475f7eaccf4b8a9d21b016c8c120b6db35cf">
storage/io/src/main/java/org/openscience/cdk/io/iterator/event/DefaultEventChemObjectReader.java
</a>
</li>
<li class="file-stats">
<a href="#16b0badf9a9d002cea10c0318bf54bef3dc0a449">
storage/io/src/main/java/org/openscience/cdk/io/iterator/event/EventCMLHandler.java
</a>
</li>
<li class="file-stats">
<a href="#ff056d51e2561cd81fc07b358eaa09d427beb3c3">
storage/io/src/main/java/org/openscience/cdk/io/iterator/event/EventCMLReader.java
</a>
</li>
<li class="file-stats">
<a href="#88b54c043fc4d98cfdbb6730add3be4a02a8200f">
storage/io/src/main/java/org/openscience/cdk/io/listener/SwingGUIListener.java
</a>
</li>
<li class="file-stats">
<a href="#027d7bb940c623ae5a6d0996b2092ab996252f43">
storage/io/src/main/java/org/openscience/cdk/io/listener/TextGUIListener.java
</a>
</li>
<li class="file-stats">
<a href="#c07fb25f45f2a23c82acc93ef9bb28e714b8614f">
storage/io/src/main/java/org/openscience/cdk/io/program/GaussianInputWriter.java
</a>
</li>
<li class="file-stats">
<a href="#cb925146d36d00a84c1f34d387c9db2a9637279a">
storage/io/src/main/java/org/openscience/cdk/io/program/Mopac7Writer.java
</a>
</li>
<li class="file-stats">
<a href="#6da89f5e279e9a4d4ccc4991c7b838122634cbfd">
storage/io/src/main/java/org/openscience/cdk/io/pubchemxml/PubChemXMLHelper.java
</a>
</li>
<li class="file-stats">
<a href="#c9f8ac1c80aab43ccca48bc64f7a26415988e1a5">
storage/io/src/test/java/org/openscience/cdk/dict/DictRefTest.java
</a>
</li>
<li class="file-stats">
<a href="#0b3b6db77b8ec81e02c97d529ca71179da5bccad">
storage/io/src/test/java/org/openscience/cdk/geometry/ZMatrixToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#d9cb4097b5dfaa9bb61760343d140e8c18ed857b">
storage/io/src/test/java/org/openscience/cdk/io/AbstractReaderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#60ba4aa32f2718675cbccbd6f30dd3170c420459">
storage/io/src/test/java/org/openscience/cdk/io/CDKSourceCodeWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#0480d860a26ea19bcec44f583610cc542ec35b5b">
storage/io/src/test/java/org/openscience/cdk/io/CIFReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#e2334df6c19d7a437f219c3b1587fe7207f5dd41">
storage/io/src/test/java/org/openscience/cdk/io/CMLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#6b1d8832a3b72ac964e98df832644fb1717f6ba0">
storage/io/src/test/java/org/openscience/cdk/io/CTXReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#26a5032068a268f99cf5258184f9a1a35412a949">
storage/io/src/test/java/org/openscience/cdk/io/ChemObjectIOInstantionTests.java
</a>
</li>
<li class="file-stats">
<a href="#9c9197ca953e3b4fe26d9f9262d1b3f96f73261f">
storage/io/src/test/java/org/openscience/cdk/io/ChemObjectIOTest.java
</a>
</li>
<li class="file-stats">
<a href="#7999599d766df15796e5cbd3ed5ad0c0bd8c9a33">
storage/io/src/test/java/org/openscience/cdk/io/ChemObjectReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#69d04074e3c07c22e0d3775c127c10dbcfc1cedb">
storage/io/src/test/java/org/openscience/cdk/io/ChemObjectWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#3cb46fc456c451b4fdb9d2314389371f2fb4fd6d">
storage/io/src/test/java/org/openscience/cdk/io/CustomFormat.java
</a>
</li>
<li class="file-stats">
<a href="#57530326d1bbd03d841212665a68264b2fb77aec">
storage/io/src/test/java/org/openscience/cdk/io/CustomWriter.java
</a>
</li>
<li class="file-stats">
<a href="#01e403b15d916a1aea28e4755e087364c999c797">
base/test-standard/src/test/java/org/openscience/cdk/tools/FormatStringBufferTest.java
→
storage/io/src/test/java/org/openscience/cdk/io/FormatStringBuilderTest.java
</a>
</li>
<li class="file-stats">
<a href="#bf41f82786dd43b95fc303699a264bf4d6fb1a95">
storage/io/src/test/java/org/openscience/cdk/io/Gaussian98ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#a8235f5fc74a7beccbea67edbff6a30c5bc7bc22">
storage/io/src/test/java/org/openscience/cdk/io/GhemicalReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#db0205adb1add9272ded06f7cbc95e263e954b80">
storage/io/src/test/java/org/openscience/cdk/io/HINReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#a128e577f604fd52d26a519ff99d9a4bd85d215d">
storage/io/src/test/java/org/openscience/cdk/io/Mol2ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#3c22c2d795116df4e635153bc33dfc73ac9264c0">
storage/io/src/test/java/org/openscience/cdk/io/Mol2WriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#e6cf7a1d6b3ff367b5ce729b000aac1956a0ac5f">
storage/io/src/test/java/org/openscience/cdk/io/Mopac7ReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#9b75118c362975f1f7d1125b22d89f2b785df143">
storage/io/src/test/java/org/openscience/cdk/io/PCCompoundASNReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#ee357f7f744619d9e040779e488db6ed31a2298f">
storage/io/src/test/java/org/openscience/cdk/io/PCCompoundXMLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#6bd0c8741b79e9e216543daa845fc4d0f82aa7ea">
storage/io/src/test/java/org/openscience/cdk/io/PCSubstanceXMLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#99e39f871e48846232d43b16d7fff5244c73d171">
storage/io/src/test/java/org/openscience/cdk/io/PMPReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#dab99b99334ea9f073e99a4a2628fd584990c222">
storage/io/src/test/java/org/openscience/cdk/io/ReaderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#dfab2402cee895e0b4ce4d0a0abdf9ff65d57013">
storage/io/src/test/java/org/openscience/cdk/io/ShelXReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#9443bf7f8476dd3bd90e307f4f39bd135e997bad">
storage/io/src/test/java/org/openscience/cdk/io/SimpleChemObjectReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#9ecae97ba3999b214399df697d72de118ea19fe5">
storage/io/src/test/java/org/openscience/cdk/io/WriterFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#a175492159469bf97c9fd0e56e88c582eac8bb30">
storage/io/src/test/java/org/openscience/cdk/io/XYZReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#657ae3848986d76467a1f76cc9a316b41f583a99">
storage/io/src/test/java/org/openscience/cdk/io/XYZWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#6c8fe830b32c9e9838b0c64e5ad805a590dcead1">
storage/io/src/test/java/org/openscience/cdk/io/cml/CML23FragmentsTest.java
</a>
</li>
<li class="file-stats">
<a href="#1d0a7c3156e2ae1c1b6b73c2f93409ba855a174b">
storage/io/src/test/java/org/openscience/cdk/io/cml/CML25FragmentsTest.java
</a>
</li>
<li class="file-stats">
<a href="#3e8c9ff8a4b0028a0914b3f98cf8c6a7a463ed64">
storage/io/src/test/java/org/openscience/cdk/io/cml/CMLFragmentsTest.java
</a>
</li>
<li class="file-stats">
<a href="#970db358e3b3949cfec845ce348796d3f69ac1b0">
storage/io/src/test/java/org/openscience/cdk/io/cml/CMLModuleStackTest.java
</a>
</li>
<li class="file-stats">
<a href="#c6fa0af917603cf6ffad6d948ede98872b9bff33">
storage/io/src/test/java/org/openscience/cdk/io/cml/CMLStackTest.java
</a>
</li>
<li class="file-stats">
<a href="#d893c5c22c8753470f7da864399e7c4707b55244">
storage/io/src/test/java/org/openscience/cdk/io/cml/JChemPaintTest.java
</a>
</li>
<li class="file-stats">
<a href="#8fdfe2143cb81068001eb487c703e163aa6045ec">
storage/io/src/test/java/org/openscience/cdk/io/cml/JmolTest.java
</a>
</li>
<li class="file-stats">
<a href="#a5dafff1339b0fb1097a04a4542445ff73b71008">
storage/io/src/test/java/org/openscience/cdk/io/cml/Jumbo46CMLFragmentsTest.java
</a>
</li>
<li class="file-stats">
<a href="#bcd286aa675ae1f031557db19f0bedf0c53cc64a">
storage/io/src/test/java/org/openscience/cdk/io/cml/JumboTest.java
</a>
</li>
<li class="file-stats">
<a href="#1cc5cac84bc327da4a28e47777ec899ff97fad58">
storage/io/src/test/java/org/openscience/cdk/io/iterator/IteratingPCCompoundASNReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#f74f101eb5bf33208f78037d2b7edc02393bc8d5">
storage/io/src/test/java/org/openscience/cdk/io/iterator/IteratingPCCompoundXMLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#591741dfde55592a28113fceb453c5035a66ce3c">
storage/io/src/test/java/org/openscience/cdk/io/iterator/IteratingPCSubstancesXMLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#fe3fb274d77ecb18dbb45ee4a0f24e8d24cd6803">
storage/io/src/test/java/org/openscience/cdk/io/program/GaussianInputWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#7408c8ac9fc7e8a2c11cd00da46c6f7abf6d76b3">
storage/io/src/test/java/org/openscience/cdk/io/program/Mopac7WriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#18175f73c71de8a83cede1ccbceb669bbea38312">
storage/ioformats/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#f2cb70a0fbe48856290b286dceba64c1b7fab854">
storage/ioformats/src/main/java/org/openscience/cdk/io/FormatFactory.java
</a>
</li>
<li class="file-stats">
<a href="#452b64a9de215ca0944fe42fa063c145936540d0">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ABINITFormat.java
</a>
</li>
<li class="file-stats">
<a href="#cd566ba86a5ee9ef58d2f9c7201ba34d1d7c608c">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ADFFormat.java
</a>
</li>
<li class="file-stats">
<a href="#f2f7b73daf59a3ab0bd6c56c4452ce7921521963">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/AbstractResourceFormat.java
</a>
</li>
<li class="file-stats">
<a href="#1918cf6b43a98a782a8d61f865856e6f5a85d289">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Aces2Format.java
</a>
</li>
<li class="file-stats">
<a href="#dd126256a5b9c589b99fb5b4dffa27be7f82081b">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/AlchemyFormat.java
</a>
</li>
<li class="file-stats">
<a href="#8f7b819a77cca2c4c8508b686eb1fbfceaa8f437">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/BGFFormat.java
</a>
</li>
<li class="file-stats">
<a href="#3d131faa5bd5b983c2c5e109470d859fd2d9868f">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/BSFormat.java
</a>
</li>
<li class="file-stats">
<a href="#24a5520a55cd094df2f1db850ea3c06d34ec0fd3">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CACheFormat.java
</a>
</li>
<li class="file-stats">
<a href="#c7006959d355d8ed1dd86c0f9af2bce88488f84b">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CDKOWLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#bd5fd4e3f07125aa203a982c3f3dac0e54ae3de8">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CDKSourceCodeFormat.java
</a>
</li>
<li class="file-stats">
<a href="#31136d44b77a8c4e69e0140892539def810e67e3">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CIFFormat.java
</a>
</li>
<li class="file-stats">
<a href="#0a22fd7bce621345e91e5d703fc9a361abc983cc">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#5e5ab9a5a99d2b0dd19c7d32da590d7440dbc280">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CMLRSSFormat.java
</a>
</li>
<li class="file-stats">
<a href="#e0f8360bc781754f3e227d300968bcf382cea01f">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CRK2DFormat.java
</a>
</li>
<li class="file-stats">
<a href="#2f9e9326af4daeb46083b13eabb5b02c06e09b9e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CRK3DFormat.java
</a>
</li>
<li class="file-stats">
<a href="#d48929e1b19e3f29f700c7069e1954a0aae3fe9a">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CTXFormat.java
</a>
</li>
<li class="file-stats">
<a href="#304b9c46c15eb79d70840c3551ad0177dd63a52e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CacaoCartesianFormat.java
</a>
</li>
<li class="file-stats">
<a href="#14dbc0bdf72fd9ee631aa72ffcec70cb3252c333">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CacaoInternalFormat.java
</a>
</li>
<li class="file-stats">
<a href="#3ea4aa16a3bfb1134bc8efb8aa7c6ba3e1edd27d">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Chem3D_Cartesian_1Format.java
</a>
</li>
<li class="file-stats">
<a href="#ecc97bfc74f2c74e09edd36cee03a94a9390f722">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Chem3D_Cartesian_2Format.java
</a>
</li>
<li class="file-stats">
<a href="#35c556e76d80fb0f93bb8a28c5ccfcb28bb0a31a">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ChemDrawFormat.java
</a>
</li>
<li class="file-stats">
<a href="#7e2e88605d1dc264fa98f56003c5074700518582">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ChemtoolFormat.java
</a>
</li>
<li class="file-stats">
<a href="#9f46eb2877819a8daf88cdf65364b29a601211a6">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/CrystClustFormat.java
</a>
</li>
<li class="file-stats">
<a href="#dc768a433154cf7414c267d5d7454048527cc76e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/DMol3Format.java
</a>
</li>
<li class="file-stats">
<a href="#8fc17ea51f719fe1082f03112e5f953ef696c843">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/DOCK5Format.java
</a>
</li>
<li class="file-stats">
<a href="#ef00580721f07ea64d55f9767e81aa008e61ad28">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/DaltonFormat.java
</a>
</li>
<li class="file-stats">
<a href="#59d344ece97755630e483c87572f42218a7143d4">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/FenskeHall_ZMatrixFormat.java
</a>
</li>
<li class="file-stats">
<a href="#e87ac2e235037069918b8e2d97c016975294e667">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/FingerprintFormat.java
</a>
</li>
<li class="file-stats">
<a href="#b5c83a8ca42cae2d47a809b861e9acf072a03c4d">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/GROMOS96Format.java
</a>
</li>
<li class="file-stats">
<a href="#8130350bdf76dfb67aac606b4ae546c2f92fd7e8">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/GamessFormat.java
</a>
</li>
<li class="file-stats">
<a href="#c76c1d25ae2b118d6d3adc8ed0f4a20913cb13c7">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian03Format.java
</a>
</li>
<li class="file-stats">
<a href="#cc945f2cc67bcc680f0a041876f8899eeb64e140">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian90Format.java
</a>
</li>
<li class="file-stats">
<a href="#8d3a7ff3b75e518e6bbb51880e3421bfb0d13a9e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian92Format.java
</a>
</li>
<li class="file-stats">
<a href="#9839340786cdc624a6b4f22f44a54bec84e0dd15">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian94Format.java
</a>
</li>
<li class="file-stats">
<a href="#7c7bfc04629ef56b66252dece2cb73b8cb05844e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian95Format.java
</a>
</li>
<li class="file-stats">
<a href="#666c9a1d826e23b040488b5a370a7e4ad7bc6671">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Gaussian98Format.java
</a>
</li>
<li class="file-stats">
<a href="#29309bd0d6e17cbd2cd0861849b53480a3eb66a1">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/GaussianInputFormat.java
</a>
</li>
<li class="file-stats">
<a href="#f2f33e48c18275772f8635978a12b62ee181f48b">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/GhemicalMMFormat.java
</a>
</li>
<li class="file-stats">
<a href="#ea184cfb9735ea93ed3a90bbb241ab3d60b37e49">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/GhemicalSPMFormat.java
</a>
</li>
<li class="file-stats">
<a href="#4ff276009dbb4f22c0b2ac438fd5a615cf849f50">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/HINFormat.java
</a>
</li>
<li class="file-stats">
<a href="#f7810ebb5d4d265325b24908bde49f867dbd68e7">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/INChIFormat.java
</a>
</li>
<li class="file-stats">
<a href="#9400b027381a66a671aad788713ddf86c2989d5b">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/INChIPlainTextFormat.java
</a>
</li>
<li class="file-stats">
<a href="#0e78ffbe17ae02bbffd5b0dd19bc19a58f7d7feb">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/JMEFormat.java
</a>
</li>
<li class="file-stats">
<a href="#7fb7f3614748628921366844010fa83f98f3f7b1">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/JaguarFormat.java
</a>
</li>
<li class="file-stats">
<a href="#26119f6e241358fff85527e615144de4f10c2a57">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#10951973525a40b32754a61345ee350222ff3576">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLRXNFormat.java
</a>
</li>
<li class="file-stats">
<a href="#8ae0cf3440e87611257e6e3d66c4599597a57fbb">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLRXNV2000Format.java
</a>
</li>
<li class="file-stats">
<a href="#5c4768d2742beff775e24f89f0788b0daaa4e9bb">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLRXNV3000Format.java
</a>
</li>
<li class="file-stats">
<a href="#1e1f1a5586029bce24278bf6902db44f9f847b45">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLV2000Format.java
</a>
</li>
<li class="file-stats">
<a href="#f9b53fcbf325c7211c9d09e4b400a235772216a9">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MDLV3000Format.java
</a>
</li>
<li class="file-stats">
<a href="#f98aa793a064304f5f4ad1261dae720b257d1889">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MMODFormat.java
</a>
</li>
<li class="file-stats">
<a href="#2c0d69973098448f0328df4697fabd115ec9fe63">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC2002Format.java
</a>
</li>
<li class="file-stats">
<a href="#8355b085d27f9bf1479fe142f68169c68f48c3dc">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC2007Format.java
</a>
</li>
<li class="file-stats">
<a href="#3761080b00f059a02a3058438f48555ece4d117c">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC2009Format.java
</a>
</li>
<li class="file-stats">
<a href="#c781d632091b6a343df32ad8d61099b2de30304c">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC2012Format.java
</a>
</li>
<li class="file-stats">
<a href="#058b77b3d84654160a6d1152d43484a03fda3ffc">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC7Format.java
</a>
</li>
<li class="file-stats">
<a href="#eb1c26b390df1ea022821fd31f0866c950bc1fca">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC7InputFormat.java
</a>
</li>
<li class="file-stats">
<a href="#7d143aa9775122ac4e037b7700493632920657bc">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC93Format.java
</a>
</li>
<li class="file-stats">
<a href="#3f11a874ac6a7c0f878da777b56656997a960028">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MOPAC97Format.java
</a>
</li>
<li class="file-stats">
<a href="#1ee9225da16a47841182bc582e090e6429e753a4">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MPQCFormat.java
</a>
</li>
<li class="file-stats">
<a href="#dcdf33d2a118e2ddb3db1d1db59d8fa687a897a7">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MacroModelFormat.java
</a>
</li>
<li class="file-stats">
<a href="#e6ec60a9ef9132175346fe7bac6037b265493fcb">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/MoSSOutputFormat.java
</a>
</li>
<li class="file-stats">
<a href="#97d4201b03eb6a8faa1a06348415e2c453bef112">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/Mol2Format.java
</a>
</li>
<li class="file-stats">
<a href="#134050150274583942e2526b402a163e902586b3">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/NWChemFormat.java
</a>
</li>
<li class="file-stats">
<a href="#8199c16f685f3416ca5eab15edea6794586a8f64">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PCModelFormat.java
</a>
</li>
<li class="file-stats">
<a href="#c5f9a702432e872f335433ab3bdc7677d203fcd5">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PDBFormat.java
</a>
</li>
<li class="file-stats">
<a href="#482766bc8c2b43e28bb149c271f9d261099ee944">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PDBMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#520664b8c3358ca144e67a60e0ed2a3a55e644ca">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PMPFormat.java
</a>
</li>
<li class="file-stats">
<a href="#ab4715c108c13a2d7e77b04d51e03dd07865ea48">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/POVRayFormat.java
</a>
</li>
<li class="file-stats">
<a href="#107fb97e915444b7ed96577fe7effa48b408011f">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PQSChemFormat.java
</a>
</li>
<li class="file-stats">
<a href="#d75145a944bacd5b5ddd4b776f668f86bf124034">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemASNFormat.java
</a>
</li>
<li class="file-stats">
<a href="#115af8a1eae21f2ad08599193f7d694f04c65f36">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemCompoundXMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#f1749ea4ebf358782e092d65e0ee438ce018989d">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemCompoundsXMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#7cb4fa3e999ac551bcc767074c5ba7c458e7bf93">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemFormat.java
</a>
</li>
<li class="file-stats">
<a href="#6cec88cd1817a46a323cb9c635407ec17bb0e01c">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemSubstanceXMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#d4151ec0d8b52be9507a5f9123a65045f9cfefe6">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemSubstancesASNFormat.java
</a>
</li>
<li class="file-stats">
<a href="#9cc88568c39157d7b3732fde2cc87eb9eb4d5f8e">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/PubChemSubstancesXMLFormat.java
</a>
</li>
<li class="file-stats">
<a href="#16e17a176d6d240a26290617d81131562f552c74">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/QChemFormat.java
</a>
</li>
<li class="file-stats">
<a href="#5ef91f2210c2c46d406896eddc33e9d54bb11a69">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/RGroupQueryFormat.java
</a>
</li>
<li class="file-stats">
<a href="#0d14c96a1884f322d66ece8a93befa1a5d213800">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/RawCopyFormat.java
</a>
</li>
<li class="file-stats">
<a href="#44eebf73225686bbf95bf78b73eb726576a37a75">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SDFFormat.java
</a>
</li>
<li class="file-stats">
<a href="#62416eb936ef4b14cfe7413aae2df1ab48a979f4">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SMARTSFormat.java
</a>
</li>
<li class="file-stats">
<a href="#2ddc705b048149b2702afeba0ef46740d6cc6e3f">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SMILESFIXFormat.java
</a>
</li>
<li class="file-stats">
<a href="#3014993aaad0bbff2db4c38431782b2d06379dca">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SMILESFormat.java
</a>
</li>
<li class="file-stats">
<a href="#df9a9248cee34a20dcfa757f248a82510553782b">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SVGFormat.java
</a>
</li>
<li class="file-stats">
<a href="#f8df0c395534128cf368b2c146a00c26c6820357">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ShelXFormat.java
</a>
</li>
<li class="file-stats">
<a href="#20bd01c0b7366ee997c5917a1da74eb8c600e5c8">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SimpleChemFormatMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#a1184227335699fa0e18021e9cfafade1101d40a">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SpartanFormat.java
</a>
</li>
<li class="file-stats">
<a href="#ae617a96563cc06c9e5ba68bbe1cd8785ed94036">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/SybylDescriptorFormat.java
</a>
</li>
<li class="file-stats">
<a href="#58e8cdb69f3cffde7764f5b0b90c60b267b30dda">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/TinkerMM2Format.java
</a>
</li>
<li class="file-stats">
<a href="#a57c49d75e5f925737adf4a76d7a777408cf345d">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/TinkerXYZFormat.java
</a>
</li>
<li class="file-stats">
<a href="#e2878d60958824a3fba5a2302be9cd4d92b9e0a2">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/TurboMoleFormat.java
</a>
</li>
<li class="file-stats">
<a href="#173981ac22e7912d8beffab82f500941264efdf1">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/UniChemXYZFormat.java
</a>
</li>
<li class="file-stats">
<a href="#c500fd348f8154b8708f6b1ce6898480f8a2ed98">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/VASPFormat.java
</a>
</li>
<li class="file-stats">
<a href="#6487b211b653421427c85143dbfe5ce8058885e5">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ViewmolFormat.java
</a>
</li>
<li class="file-stats">
<a href="#64993fe42dcfa659306dde6460426858771f48dc">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/XEDFormat.java
</a>
</li>
<li class="file-stats">
<a href="#76ceb476719cc18dee28857f865bd5a09cc8781c">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/XYZFormat.java
</a>
</li>
<li class="file-stats">
<a href="#bbeb03a122bfba56d32941236f5fe1ef5d633de0">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/YasaraFormat.java
</a>
</li>
<li class="file-stats">
<a href="#7fd1eb56543425656045028cfb98542d4d4ec718">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ZMatrixFormat.java
</a>
</li>
<li class="file-stats">
<a href="#c107e8e1be925c22f429c1feadc76cb352e36f74">
storage/ioformats/src/main/java/org/openscience/cdk/io/formats/ZindoFormat.java
</a>
</li>
<li class="file-stats">
<a href="#5bae2aac8d228b0e61cb1989c6b791d8946c11d2">
storage/ioformats/src/main/java/org/openscience/cdk/tools/DataFeatures.java
</a>
</li>
<li class="file-stats">
<a href="#5d7a25c123a75fd5396036b40c19139d96db4506">
base/test-core/src/test/java/org/openscience/cdk/tools/DataFeaturesTest.java
→
storage/ioformats/src/main/resources/org/openscience/cdk/tools/DataFeaturesTest.java
</a>
</li>
<li class="file-stats">
<a href="#197930d5ff8b97ab7fe031338b96f2475e61c5aa">
storage/ioformats/src/test/java/org/openscience/cdk/io/FormatFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#2078dd03d57951427aea965a603e56b8b01ff465">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ABINITFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#0e40939ff734b75f38c7a644db46dfb5849acbda">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ADFFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#45b191513117aefb508f533f4c11f525762331c4">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Aces2FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#05f194096f2578eb401b4ce50e3e0af1ccde77c1">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/AlchemyFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#e4714518f4d4c06589227b3309b389b64cea0c4c">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/BGFFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#b3f50aa6e1ca6c424cce12a604346796acd31b7a">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/BSFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#8d9c10992112ed40233b3fa2a44c6ad61a3a066f">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CACheFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#4cf5a84ef69a95bf0e53485ade05a8a39d450198">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CDKOWLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ea10ddca27cb852985c22197e84cc8c65e9c2fc7">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CDKSourceCodeFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#615a3569974f4dd940a254bc6882876ae061e6c2">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CIFFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ef01c5571dc55d2a66c7bce18cae0e6655ec6d24">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#45e5ef6f3cba7eff0aab9c0b61dfbf3d22623fa9">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CMLRSSFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#f8f5ba5e59415269097b00999b42f3b027aa50e6">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CRK2DFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#2bcebaccc3fb9ffde6498cdd95a754d5c2ba5e56">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CRK3DFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#2a8e2ce0f7bf400a650c6852e757a9b846fe7b8e">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CTXFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#163c485a5a06b85d982c0330262dcdda04a8254e">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CacaoCartesianFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#6a494ad90462bab5b7d92bbd46a13ead202de217">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CacaoInternalFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#8bce5aa46094f48ded0c3289452f2819740a6765">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Chem3D_Cartesian_1FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#5439cb1a5fb9c071bfb5c7966b81d369636a0e57">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Chem3D_Cartesian_2FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#9638e0c3b1d703417c8f7634dd081af913326423">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ChemDrawFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3f93846019c00e6ebc3e3bb7e22b5ce7818ede9d">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ChemFormatMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#d92c96ea56646eec9e19cb211703e0913edb34cf">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ChemFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3e0f6adff4e87c27e5fcdb9a2ed1ed95e7b42e0d">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ChemtoolFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#fc7384cd50656eed1e67eb31c0e810b265ada44a">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/CrystClustFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#f87bc20a4a6ac13b1036e1e62425657b6fd59e20">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/DMol3FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#9fefedc6cbb7aff0bf537ed02c5524b0b66dc7d1">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/DOCK5FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#110d5618aa8afb919f885f1f00c503c5f3271917">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/DaltonFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#d1ffb77e4874f297bd686a2385aae66cafb2667e">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/FenskeHall_ZMatrixFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#2a8935beefe92fef5b4046da069b7058c0e838fa">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/FingerprintFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#4c1e5eb6d7aaf9ee1a07616ffc8f1dc6a63cef02">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/GROMOS96FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#63666061e03d6d18afd043b31e41d4427b148716">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/GamessFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#6decb40f11676c7cc7fda988435c7b5021a252c1">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian03FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#19d04d5178564131a5b49a3048669694a1af0278">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian90FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#d2f97f15469b37ecf9c74bb8b5ab464b184ddcd9">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian92FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#70b10ad69b5ac19497617632e3107beaa5e4f6a7">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian94FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#a8dc0fd132a3a298ecb472e47f2f96ac6615b7ff">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian95FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#df5343321fae000651995b4f886a2bbf451e76b2">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Gaussian98FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#6c78f10844ee90c73dd0b81adf23d83134c6d269">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/GaussianInputFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#77876d63010beafbd919a8228c62fa6ba497d009">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/GhemicalMMFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#de144e7d06e2162acbcc4f459bbad5878bb8c52f">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/GhemicalSPMFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#08f6e07c8894180e44ab1d10fcce5484cc37492b">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/HINFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#7d5c058f159f48a8fb680af8b79bed606bd602a6">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/INChIFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#f06e76535cd78475012a55233de9cff3eafcab3e">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/INChIPlainTextFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ec3db3382f1824e1ce84c2b2a7982d4d939dd291">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/JMEFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ef809c7860660c29d253e7d0d48dc52926ecb5b9">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/JaguarFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#e72dad5fc318c917f8d59ccda9f5efa42bfbc2e3">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MDLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#2e5728ed0d4456e1be45becc5e0f9da2c81182af">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MDLRXNFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#2bdc0495c6b010f202caf6df90aa0894198de481">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MDLRXNV3000FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#48ff40645c31a10905dd461b633abc5cf9792717">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MDLV2000FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#dc8b8ae13d6629648ae8b0bdfd250a011b65d628">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MDLV3000FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#7a2ebc436f4c3f38e85650a26880ae7294e34b1c">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MMODFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#86870f69f2fb3d68ae4d74b1b388d5ce56807a7c">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC2002FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#44cea98ce91049f51a90935eaece15f8025de436">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC2007FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#4854938ef70e71c16d285b082b0fc37a38f20083">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC2009FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#7500daef3ffb18292111b1724384023338fb5f42">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC2012FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3910fa2a775f8e810b4bb01ed7dd254bfb9c64b7">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC7FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#b0a388d9b50637789e352c6bc5383927b769d521">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC7InputFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#d703ce4e01e465c49b1d9000cf6bdaccee8ccfce">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC93FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#dc531b3bc5ecc9494bf3f99c43d0f9973536f3d3">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MOPAC97FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#c8433a58a6fd609d42d12dc063c42626c51a0fcf">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MPQCFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#489e5a6348c3562497971bdfb70ae4e51852a14d">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MacroModelFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#1302d3a1405b4190102a592b5b738be9fe6affc8">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/MoSSOutputFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#c8434e6a2de522e1236aff89852fbaaf123bcf02">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/Mol2FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#92c9da498640f6a061cad240f1da3681843d3814">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/NWChemFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#280771217ccea9bf5c4cc8423e9b4d2a16c93450">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PCModelFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#31066c09f5fdef7c4eedcbadb8edba43c3c2eabc">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PDBFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ba50eb57ba7b80df64c03aaa7b187166c0542287">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PDBMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ec3d400d83ac7cf79c0b01f1832bdf806ef30699">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PMPFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#874547cc259f264029cd97e5cbafdd38f2f11011">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/POVRayFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#cd63e6885fa0fd47d21d2fe15c5994e652b9fbd1">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PQSChemFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#1fdfdd99fe720ca70ff0b6d846ae20f830bd4897">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemASNFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#e00d07c31b19eb62adffd337b0cda3331e47e78f">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemCompoundXMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#6410e2ccc70ffbeb3c4cfc72a67d89aae18bee7a">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemCompoundsXMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#4ffb59b7ad280384eadb417d82c1cdc79b5603ee">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#de2e21e3d8fe74f556c31a8d442a3c814fdd6477">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemSubstanceXMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#4d26b6ba0a2f1f835ed2c6e67d1660587209dd5d">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemSubstancesASNFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#03542d07e84cf679929b3e40f5efc394c2ac9624">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/PubChemSubstancesXMLFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#49aa3f84c38c708e9e20c8acbd1a290bae7801e8">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/QChemFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#6265336db575316d67b012dc18ce709716330d04">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/RGroupQueryFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3d92154dcde31d52a662d784fd0e6d8fff3fa123">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/RawCopyFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#48d662989f99ed0a117fe4aa6fc89f5c0d6d6cbe">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ResourceFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#f0f861eacbac47c3c45711b692d774dd76ba20ac">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SDFFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ce8420be60ddfd73ef387dd10a47a923bcff3e76">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SMARTSFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#48db4f4ca68fbee0756725306f9d8b26c48de2d6">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SMILESFIXFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3562a7fa911397d25ebe4347cdfa39aaf4005f31">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SMILESFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#c7207ab1e8edfbf47220921e68b785f18a49d7d6">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SVGFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#922ad3c8fd49321c88472d93cf10fdb7dd103f74">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ShelXFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#ef8e910b7b1bec6956a29b87404346437a866a38">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SpartanFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#98e1c8548a86953f27ae0fedd047cdfc358b349a">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/SybylDescriptorFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#96c68b0314bc5a9f0910b3f65d80fa0d0bb4bd91">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/TinkerMM2FormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#85c5e7c038ed4a84f2af384a27e7ea7057e90344">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/TinkerXYZFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#205f7dac11d37ca3be2f417535e47f5e61d9922a">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/TurboMoleFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#936a8d3073356de5966a7b7f11efd2d714754b62">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/UniChemXYZFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#72eaee5d418c61cc3ac4ddfffe6738ea3deab228">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/VASPFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#e945adb3e117a0efd46c1915f109293321b6a39f">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ViewmolFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#3551716e69ec1ef5a387ec9a71bc3b945a414c93">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/XEDFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#7ecda5c416451506807f2935f3861a49ca6db05c">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/XYZFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#0245ec6c131933a090dbabe9bf2f2dffb9a182e6">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/YasaraFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#a8b3905e25a9a4d3a3f12f73a6c9cba83c02a51c">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ZMatrixFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#bc89ed1e8ccd29f7691c402c300c4f8e3b5e6f34">
storage/ioformats/src/test/java/org/openscience/cdk/io/formats/ZindoFormatTest.java
</a>
</li>
<li class="file-stats">
<a href="#462c7521ee4ad1eb12d11217a9fb21f76011fcc5">
storage/iordf/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#63468aa7ef361b9feca63d504daac00d264b7294">
storage/iordf/src/main/java/org/openscience/cdk/io/rdf/CDKOWLReader.java
</a>
</li>
<li class="file-stats">
<a href="#c451f7d653e03577b1c19aea4a62df5d00703f08">
storage/iordf/src/main/java/org/openscience/cdk/io/rdf/CDKOWLWriter.java
</a>
</li>
<li class="file-stats">
<a href="#cc8bbecf186eb987f9872b334978077c7c8ebd17">
storage/iordf/src/main/java/org/openscience/cdk/libio/jena/CDK.java
</a>
</li>
<li class="file-stats">
<a href="#f858cae9256f97a49022af5f568dbdaba69f1299">
storage/iordf/src/main/java/org/openscience/cdk/libio/jena/Convertor.java
</a>
</li>
<li class="file-stats">
<a href="#01683295d2142861c0c39c28457e2337314d3df6">
storage/iordf/src/test/java/org/openscience/cdk/io/rdf/CDKOWLReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#e29f178550c98af1c6751280a3b5d1d1eb200891">
storage/iordf/src/test/java/org/openscience/cdk/io/rdf/CDKOWLWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#95a9ce85fecaffc2e57822bee47a28c20fa32d89">
storage/iordf/src/test/java/org/openscience/cdk/libio/jena/ConvertorTest.java
</a>
</li>
<li class="file-stats">
<a href="#079c6e2cd3b939d5f34d271e644597749588211f">
storage/jniinchi-support/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#96838fdc7056594f7adec86bfb906b73df04e1e8">
storage/libiocml/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#32a6cc532ec7d55749742ea361133603f0286a0b">
storage/libiocml/src/main/java/org/openscience/cdk/io/CMLWriter.java
</a>
</li>
<li class="file-stats">
<a href="#20f6ef0d14f90882183a56dca3845916dc551dfe">
storage/libiocml/src/main/java/org/openscience/cdk/io/RssWriter.java
</a>
</li>
<li class="file-stats">
<a href="#24b95c7733b318a96c758e08bb89e1fd674fdccf">
storage/libiocml/src/main/java/org/openscience/cdk/io/cml/CustomSerializer.java
</a>
</li>
<li class="file-stats">
<a href="#0e672c9a7eee7829084f8cf3d83e9fa1b6c36346">
storage/libiocml/src/main/java/org/openscience/cdk/libio/cml/Convertor.java
</a>
</li>
<li class="file-stats">
<a href="#1199a9c10091987bcbeb251c62173e6dea3d4190">
storage/libiocml/src/test/java/org/openscience/cdk/io/CMLWriterFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#07b79579dec0de0f6a7c9cdf5f21a47887baec91">
storage/libiocml/src/test/java/org/openscience/cdk/io/MDLCMLRoundtripTest.java
</a>
</li>
<li class="file-stats">
<a href="#39c57715d19383377361a709ac31d6b1b45a252b">
storage/libiocml/src/test/java/org/openscience/cdk/io/cml/CDKRoundTripTest.java
</a>
</li>
<li class="file-stats">
<a href="#da48078a8426bbb8f11a5017ade746cb0ce34bd2">
storage/libiocml/src/test/java/org/openscience/cdk/io/cml/CML2Test.java
</a>
</li>
<li class="file-stats">
<a href="#eaea920a7ba4a1045a705328d52eecc6e2e6ee16">
storage/libiocml/src/test/java/org/openscience/cdk/io/cml/CML2WriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#985d4bc0644270df633f8fb2b09e8e12603f8d8e">
storage/libiocml/src/test/java/org/openscience/cdk/io/cml/CMLRoundTripTest.java
</a>
</li>
<li class="file-stats">
<a href="#d0567b503cbc7d1a75f3b2e8c8622b5e8fa07038">
storage/libiocml/src/test/java/org/openscience/cdk/io/cml/CMLRoundTripTool.java
</a>
</li>
<li class="file-stats">
<a href="#ada37bcbc40c4a9bc5a2c3a419e1ff09a3427450">
storage/libiocml/src/test/java/org/openscience/cdk/libio/cml/ConvertorTest.java
</a>
</li>
<li class="file-stats">
<a href="#be958ca63c6b4f1741d8042c0f9fd55fbbb4b23c">
storage/libiomd/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#4c0a662e4852ce933038e3fb1b4f39e75a31cd15">
storage/libiomd/src/main/java/org/openscience/cdk/io/cml/MDMoleculeConvention.java
</a>
</li>
<li class="file-stats">
<a href="#f11c8fee353db8f62e189e6a285a2813d93685e7">
storage/libiomd/src/main/java/org/openscience/cdk/libio/cml/MDMoleculeCustomizer.java
</a>
</li>
<li class="file-stats">
<a href="#29832d9493214b7a95e2e2c79782c6742d983f3b">
storage/libiomd/src/main/java/org/openscience/cdk/libio/md/ChargeGroup.java
</a>
</li>
<li class="file-stats">
<a href="#8d5855895f16bc6923d70681bbe343b8127af768">
storage/libiomd/src/main/java/org/openscience/cdk/libio/md/MDMolecule.java
</a>
</li>
<li class="file-stats">
<a href="#86629afc95a3bbf9b71e0007bf37a0c066d34593">
storage/libiomd/src/main/java/org/openscience/cdk/libio/md/Residue.java
</a>
</li>
<li class="file-stats">
<a href="#8d499895d4144d9c32cddc340fa71029238e55d2">
storage/libiomd/src/test/java/org/openscience/cdk/libio/md/MDMoleculeTest.java
</a>
</li>
<li class="file-stats">
<a href="#4d36a6e8fa097038143b2b9a2a1a1b6813e976b3">
storage/pdb/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ac366d9a005ccb7a7987a7d3e5c910ac772c5936">
storage/pdb/src/main/java/org/openscience/cdk/EnzymeResidueLocator.java
</a>
</li>
<li class="file-stats">
<a href="#10a3116a0be1d6477059487e65242d2714a2e122">
storage/pdb/src/main/java/org/openscience/cdk/io/PDBReader.java
</a>
</li>
<li class="file-stats">
<a href="#f20f4fdc267399237057acb11302934936679b2c">
storage/pdb/src/main/java/org/openscience/cdk/io/PDBWriter.java
</a>
</li>
<li class="file-stats">
<a href="#f96fc4b73f4d017074ddeedaa4efe232e82fdb60">
storage/pdb/src/main/java/org/openscience/cdk/protein/data/PDBStrand.java
</a>
</li>
<li class="file-stats">
<a href="#c7b16b6b7e50b7f684b784b9fc7bf184a5549298">
storage/pdb/src/main/java/org/openscience/cdk/templates/AminoAcids.java
</a>
</li>
<li class="file-stats">
<a href="#9e57811e9ca5c10cc2d8c22afcdc845a02ec37bd">
storage/pdb/src/main/java/org/openscience/cdk/tools/ProteinBuilderTool.java
</a>
</li>
<li class="file-stats">
<a href="#3db179f09f906aed2f764446bdf8d9d64d53592f">
storage/pdb/src/test/java/org/openscience/cdk/io/PDBReaderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#7265f9eb0310580aa9fcb39a3dc36cf61e650e3f">
storage/pdb/src/test/java/org/openscience/cdk/io/PDBReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#ee9eebe37df55c1c0582b8bf2e58ba050a301ecd">
storage/pdb/src/test/java/org/openscience/cdk/io/PDBWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#96a01f15e80f8923466eb86bca012fceb94eaf69">
storage/pdb/src/test/java/org/openscience/cdk/templates/AminoAcidsTest.java
</a>
</li>
<li class="file-stats">
<a href="#89ad893b268d2a416b8736bdcb2a29f27d36c245">
storage/pdb/src/test/java/org/openscience/cdk/tools/ProteinBuilderToolTest.java
</a>
</li>
<li class="file-stats">
<a href="#2613745d76bb969f09d145a9fa0261f6f7fea1fd">
storage/pdbcml/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#05ffcc6039358d19a6038f249a80db99bedc8aa4">
storage/pdbcml/src/main/java/org/openscience/cdk/libio/cml/PDBAtomCustomizer.java
</a>
</li>
<li class="file-stats">
<a href="#99d9896b4c86effe58e94a0fca2adabeb7450126">
storage/pdbcml/src/test/java/org/openscience/cdk/io/cml/PDBAtomCustomizerTest.java
</a>
</li>
<li class="file-stats">
<a href="#82458fe4abca43b731842614b80e7a4c39e63e1a">
storage/pdbcml/src/test/java/org/openscience/cdk/libio/cml/PDBAtomCustomizerTest.java
</a>
</li>
<li class="file-stats">
<a href="#9e34c5209ff0afe186647ec12396ee06bd064f47">
storage/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#7326e92347fa2452ae3a4a4e6eee67e66c5379dd">
storage/rinchi/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#0de7ea073e5218ee1bf75c993b372c9191452777">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/InChILayers.java
</a>
</li>
<li class="file-stats">
<a href="#7413d541d35d16c23e5f594d4c0599a95f46be36">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/KeyBase26.java
</a>
</li>
<li class="file-stats">
<a href="#1b3c6d85a2133ce2c8049f71120d99abb98c054b">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIComponent.java
</a>
</li>
<li class="file-stats">
<a href="#ce1d28e115faba00ca789344663cecf7b9ca1ad7">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIConstants.java
</a>
</li>
<li class="file-stats">
<a href="#2f42bb85020ecbdda08e2ec608530b8f6f5d9b7d">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIDecomposition.java
</a>
</li>
<li class="file-stats">
<a href="#dbfe8f0a3a63abf9e4eeaeadb466272836c00356">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIException.java
</a>
</li>
<li class="file-stats">
<a href="#7b32e7acc35dcc656a887a2ed88a7a05818cf3c4">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#83f747b2a807a328f90552817da717d78ed20e71">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIHash.java
</a>
</li>
<li class="file-stats">
<a href="#d334873a2876f7fabc319aab3bec068d897587c7">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIOptions.java
</a>
</li>
<li class="file-stats">
<a href="#da293ec4242bd3d443be717046be4bc78067c210">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/RInChIToReaction.java
</a>
</li>
<li class="file-stats">
<a href="#627b701c2b0565f2aa53344bd9ca241b7908fe5f">
storage/rinchi/src/main/java/org/openscience/cdk/rinchi/StatusMessagesOutput.java
</a>
</li>
<li class="file-stats">
<a href="#42f5e014edbe712e726b5875d9200e8c0938e8ca">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/InChILayersTest.java
</a>
</li>
<li class="file-stats">
<a href="#f27b98d600ca6b625736053fbf7dd9baf58806c5">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/KeyBase26Test.java
</a>
</li>
<li class="file-stats">
<a href="#5505e00c2c183cea2f86d16991e3909b4935cc73">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/RInChIDecompositionTest.java
</a>
</li>
<li class="file-stats">
<a href="#9aa83dda62c6cf27e38236cb19a6f099487e65d4">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/RInChIGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca9253c06bfccd6bd7ea750f3c232698ce29d840">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/RInChIHashTest.java
</a>
</li>
<li class="file-stats">
<a href="#3aec6ea7a28f32e1555e1ec8b3deb3da32fc5274">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/RInChIToReactionTest.java
</a>
</li>
<li class="file-stats">
<a href="#677205bb8ecc24f2f29c9b298dccd4db74554f59">
storage/rinchi/src/test/java/org/openscience/cdk/rinchi/StatusMessagesOutputTest.java
</a>
</li>
<li class="file-stats">
<a href="#cde1a5917b9f7d08b9109f51d57d0379c60917cc">
storage/smiles/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c00c947594433bdac5f1b95e870c80bd89f0083c">
storage/smiles/src/main/java/org/openscience/cdk/fingerprint/LingoFingerprinter.java
</a>
</li>
<li class="file-stats">
<a href="#229de3bdac0f65688561b3cd49595640c7a2555a">
storage/smiles/src/main/java/org/openscience/cdk/io/MoSSOutputReader.java
</a>
</li>
<li class="file-stats">
<a href="#0fdee002b23a78ad1abc8c5c6903c31cbbb6ffe2">
storage/smiles/src/main/java/org/openscience/cdk/io/SMILESReader.java
</a>
</li>
<li class="file-stats">
<a href="#e401f29b5a4e74f833fffd2f72269f48f05792d5">
storage/smiles/src/main/java/org/openscience/cdk/io/SMILESWriter.java
</a>
</li>
<li class="file-stats">
<a href="#9169e6502e6fcc3902cf7ac11acdacf8f858d0a4">
storage/smiles/src/main/java/org/openscience/cdk/io/iterator/IteratingSMILESReader.java
</a>
</li>
<li class="file-stats">
<a href="#9fec1c0e2aefe2769908449df428b8edc14cc9a8">
storage/smiles/src/main/java/org/openscience/cdk/smiles/BeamToCDK.java
</a>
</li>
<li class="file-stats">
<a href="#396e629f1f04123829306e1d3121fb8c6245eff8">
storage/smiles/src/main/java/org/openscience/cdk/smiles/CDKToBeam.java
</a>
</li>
<li class="file-stats">
<a href="#8a77df9b935c3b3e3e9965b028120910b1957463">
storage/smiles/src/main/java/org/openscience/cdk/smiles/SmilesGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#4475afde553830b7046a9b867f49726650a986c4">
storage/smiles/src/main/java/org/openscience/cdk/smiles/SmilesParser.java
</a>
</li>
<li class="file-stats">
<a href="#c2b9d76191959de88bc515a53b429a3b5aa26c2d">
storage/smiles/src/test/java/org/openscience/cdk/fingerprint/LingoFingerprinterTest.java
</a>
</li>
<li class="file-stats">
<a href="#bdaea90d84e8a187406a786f704eaaa94d7cb466">
storage/smiles/src/test/java/org/openscience/cdk/io/MoSSOutputReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#1f72e050506072c4a6bc077358b79e95cc226966">
storage/smiles/src/test/java/org/openscience/cdk/io/SMILES2Mol2WriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#b9981f31763af75e6bcee425207ae236fad4628a">
storage/smiles/src/test/java/org/openscience/cdk/io/SMILESReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#e601d2dc0d9343c99b5df88cd0408779a848cfd5">
storage/smiles/src/test/java/org/openscience/cdk/io/SMILESWriterTest.java
</a>
</li>
<li class="file-stats">
<a href="#bf1dac67a09c09ae1c872ac5d993bc471522f63b">
storage/smiles/src/test/java/org/openscience/cdk/io/iterator/IteratingSMILESReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#69a382703500817cf7fd1a2547611df09e87e14e">
storage/smiles/src/test/java/org/openscience/cdk/smiles/BeamToCDKTest.java
</a>
</li>
<li class="file-stats">
<a href="#cb6a26c288a8beb93eef57fca4cada8282f58e91">
storage/smiles/src/test/java/org/openscience/cdk/smiles/CDKToBeamTest.java
</a>
</li>
<li class="file-stats">
<a href="#3a90ca6f4581b45f9c3d6e2c97029e0f6c2fc41b">
storage/smiles/src/test/java/org/openscience/cdk/smiles/SmilesGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#be36a82c955a956dbcdfebb18aa06529704fcea2">
storage/smiles/src/test/java/org/openscience/cdk/smiles/SmilesParserTest.java
</a>
</li>
<li class="file-stats">
<a href="#c7e6efae3cc2975523cfa902ae415a77b6627afb">
tool/builder3d/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c460d258a50098dd1771d5b471ed53b1e94f0aa7">
tool/builder3d/src/main/java/org/openscience/cdk/modeling/builder3d/AtomPlacer3D.java
</a>
</li>
<li class="file-stats">
<a href="#2e275b951dce84c14a2146107faaf88fdacdbbf8">
tool/builder3d/src/main/java/org/openscience/cdk/modeling/builder3d/AtomTetrahedralLigandPlacer3D.java
</a>
</li>
<li class="file-stats">
<a href="#b0da5a5ed440a97bf908fd2f908fd43b7143bb64">
tool/builder3d/src/main/java/org/openscience/cdk/modeling/builder3d/ModelBuilder3D.java
</a>
</li>
<li class="file-stats">
<a href="#2b68dde0ae43132b4cbe909008e82ac02f3fb2c3">
tool/builder3d/src/main/java/org/openscience/cdk/modeling/builder3d/TemplateHandler3D.java
</a>
</li>
<li class="file-stats">
<a href="#c8b2dae9378f84b9c9ac81e20c2cc15643535317">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/AtomPlacer3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#940098517bd56e88877f9f715c696a84476e4bb9">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/AtomTetrahedralLigandPlacer3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#26f945e116acbf340c93f1f98f94195e54a64fa9">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/FurtherAtomPlacer3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#f1eeda67ac71a8b1ee8791c952c22259bff6ab1a">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/FurtherTemplateHandler3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#e88ccf0903c60b8b303bb1496ec137a8df0e8fe5">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/ModelBuilder3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#9c468c1107fd9b8318d3b8fe419311b356e1083c">
tool/builder3d/src/test/java/org/openscience/cdk/modeling/builder3d/TemplateHandler3DTest.java
</a>
</li>
<li class="file-stats">
<a href="#4e377f583089bb58964f5d962db4fdbdb945c79c">
tool/builder3dtools/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#fd9531e767053bf76006b3cd19c12af6a2f82494">
tool/builder3dtools/src/main/java/org/openscience/cdk/modeling/builder3d/TemplateExtractor.java
</a>
</li>
<li class="file-stats">
<a href="#0a867dacde291419280b730fd8573f456f366d6c">
tool/charges/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#c4900a61ce75f425ea30598171bf2724f5060306">
tool/charges/src/main/java/org/openscience/cdk/charges/AtomTypeCharges.java
</a>
</li>
<li class="file-stats">
<a href="#d71cee6bf834691a1dd73c7076a817bfa6f9103f">
tool/charges/src/main/java/org/openscience/cdk/charges/Electronegativity.java
</a>
</li>
<li class="file-stats">
<a href="#9acc80a66bc938833acd38984960378e834375ac">
tool/charges/src/main/java/org/openscience/cdk/charges/GasteigerMarsiliPartialCharges.java
</a>
</li>
<li class="file-stats">
<a href="#64441e0f13b4e8be36e7eff75c19e71e976c27af">
tool/charges/src/main/java/org/openscience/cdk/charges/GasteigerPEPEPartialCharges.java
</a>
</li>
<li class="file-stats">
<a href="#482056ca57ff9ecc0aedfa8e519b8c634c179f35">
tool/charges/src/main/java/org/openscience/cdk/charges/IChargeCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#dc55844468816e2e8a0ea374d55f9450f956848b">
tool/charges/src/main/java/org/openscience/cdk/charges/IElectronicPropertyCalculator.java
</a>
</li>
<li class="file-stats">
<a href="#d2453f2ca3d5186740d0c8898fb8b28928f7268e">
tool/charges/src/main/java/org/openscience/cdk/charges/InductivePartialCharges.java
</a>
</li>
<li class="file-stats">
<a href="#e03a93096266fac46beb8836624d627c9c5d81a9">
tool/charges/src/main/java/org/openscience/cdk/charges/PiElectronegativity.java
</a>
</li>
<li class="file-stats">
<a href="#0a1d4c4ab57e71652c2555d98ebcbe1004c0070b">
tool/charges/src/main/java/org/openscience/cdk/charges/Polarizability.java
</a>
</li>
<li class="file-stats">
<a href="#fee306a79c060fe67ab6a10a80b1df6aa0a41a73">
tool/charges/src/main/java/org/openscience/cdk/charges/StabilizationCharges.java
</a>
</li>
<li class="file-stats">
<a href="#97e33ab2d68dc06a422fd43b64fe2ace16901b2b">
tool/charges/src/test/java/org/openscience/cdk/charges/AtomTypeChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#163fb92d69dc688002846dbe21ea9b97eb6306a0">
tool/charges/src/test/java/org/openscience/cdk/charges/ElectronegativityTest.java
</a>
</li>
<li class="file-stats">
<a href="#2c6d432d695c8c7877deb8a5be6007d52dfd3cb4">
tool/charges/src/test/java/org/openscience/cdk/charges/GasteigerMarsiliPartialChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#789be694a647f1e6e43cdbcd89a6a3984c74e9ee">
tool/charges/src/test/java/org/openscience/cdk/charges/GasteigerPEPEPartialChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#f2c25b37773cc9331c38184bdf13c8695bceb552">
tool/charges/src/test/java/org/openscience/cdk/charges/InductivePartialChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#963160915bc93895857928a44f0249f191e52506">
tool/charges/src/test/java/org/openscience/cdk/charges/PiElectronegativityTest.java
</a>
</li>
<li class="file-stats">
<a href="#4f79501c0cdae0be75a46a8681f19c841a0264f7">
tool/charges/src/test/java/org/openscience/cdk/charges/PolarizabilityTest.java
</a>
</li>
<li class="file-stats">
<a href="#38fcddc6fc80351251040f3bcfb347e5e765aba4">
tool/charges/src/test/java/org/openscience/cdk/charges/StabilizationChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#388d3930da5d3db5cf31be4fceb74e8e90f39743">
tool/forcefield/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#8b45a697818c4154ed9e02a5df5f68ef7f92e71e">
tool/forcefield/src/main/java/org/openscience/cdk/charges/MMFF94PartialCharges.java
</a>
</li>
<li class="file-stats">
<a href="#557d048554b88b7a76985e53f4673379893e4af6">
tool/forcefield/src/main/java/org/openscience/cdk/forcefield/mmff/Mmff.java
</a>
</li>
<li class="file-stats">
<a href="#d09930adda88e2de43322c3ab7c357343779c26b">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/ForceFieldConfigurator.java
</a>
</li>
<li class="file-stats">
<a href="#a7663a6b1e7a0a458d3d37ca3c200ad8378b15b1">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/MM2BasedAtomTypePattern.java
</a>
</li>
<li class="file-stats">
<a href="#45285410e4706c4892ded10f10adca80b81560c0">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/MM2BasedParameterSetReader.java
</a>
</li>
<li class="file-stats">
<a href="#1e82e1fed8da7fc057a94f0a9e19819771856368">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/MMFF94BasedAtomTypePattern.java
</a>
</li>
<li class="file-stats">
<a href="#d3754ed7656d0a34aaa66770561f8cfd02adaa54">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/MMFF94BasedParameterSetReader.java
</a>
</li>
<li class="file-stats">
<a href="#1bdeeda4b4944f24049d574002a486f8f18cce9e">
tool/forcefield/src/main/java/org/openscience/cdk/modeling/builder3d/MMFF94ParametersCall.java
</a>
</li>
<li class="file-stats">
<a href="#82a2ac6b11e65cb7710cf730b4e33d80e82730a0">
tool/forcefield/src/test/java/org/openscience/cdk/charges/MMFF94PartialChargesTest.java
</a>
</li>
<li class="file-stats">
<a href="#8132a3ff03fa8d9eb64874dc581afd3877b24243">
tool/forcefield/src/test/java/org/openscience/cdk/modeling/builder3d/ForceFieldConfiguratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#410df05854585dd1c8d887145d83a80792a8328d">
tool/forcefield/src/test/java/org/openscience/cdk/modeling/builder3d/MMFF94BasedParameterSetReaderTest.java
</a>
</li>
<li class="file-stats">
<a href="#4705bf1852d10dce9deb257025faac85edc678a2">
tool/formula/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#fadcb6105a83a70e6dd26730acf6efd2420a547d">
tool/formula/src/main/java/org/openscience/cdk/formula/FullEnumerationFormulaGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#e3c1f29f393e170d8008133dc681e2b29ee28a5e">
tool/formula/src/main/java/org/openscience/cdk/formula/IsotopeContainer.java
</a>
</li>
<li class="file-stats">
<a href="#46dd4b5f595e626776b29b2224447b075cacf847">
tool/formula/src/main/java/org/openscience/cdk/formula/IsotopePattern.java
</a>
</li>
<li class="file-stats">
<a href="#24e964d96bbea6be6d76e9a332e9c8ab2396a11e">
tool/formula/src/main/java/org/openscience/cdk/formula/IsotopePatternGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#6eece473f7d23d65bf9a312550285fe60d90e5f7">
tool/formula/src/main/java/org/openscience/cdk/formula/IsotopePatternManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#bf1e047663ace554af238e77b186ccc60befa100">
tool/formula/src/main/java/org/openscience/cdk/formula/IsotopePatternSimilarity.java
</a>
</li>
<li class="file-stats">
<a href="#f314876f3bd59391e16ec28c45d0644b4943fc8f">
tool/formula/src/main/java/org/openscience/cdk/formula/MolecularFormulaChecker.java
</a>
</li>
<li class="file-stats">
<a href="#90c3194e7c338d06c3bb0d993f4e1449ca0964c1">
tool/formula/src/main/java/org/openscience/cdk/formula/MolecularFormulaGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#573c970dd8d7fd2c4f265aa3f47802cf4359756c">
tool/formula/src/main/java/org/openscience/cdk/formula/MolecularFormulaRange.java
</a>
</li>
<li class="file-stats">
<a href="#6aa7a280ab0215d272865380466d1e280b7eb3a5">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/ChargeRule.java
</a>
</li>
<li class="file-stats">
<a href="#9cacb9b5fc715d04edea84fadf38fddbd9203f0b">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/ElementRule.java
</a>
</li>
<li class="file-stats">
<a href="#315a8db96a2bd645c513392f5a68cb19417c37d3">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/IRule.java
</a>
</li>
<li class="file-stats">
<a href="#5ebb19549ac8337ccbabaf51b2d4e56de9ff48f6">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/IsotopePatternRule.java
</a>
</li>
<li class="file-stats">
<a href="#085e19cabbfc738da591456478f4faa7ef8b6ea5">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/MMElementRule.java
</a>
</li>
<li class="file-stats">
<a href="#48d0afbcae517a175e4a6a8f3dc472645a8fc16f">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/NitrogenRule.java
</a>
</li>
<li class="file-stats">
<a href="#f06bdfda0629cd85b27c23fb21390b2b60f2b426">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/RDBERule.java
</a>
</li>
<li class="file-stats">
<a href="#d5ad89a251e45aaad79bb653dc063a80e065fc55">
tool/formula/src/main/java/org/openscience/cdk/formula/rules/ToleranceRangeRule.java
</a>
</li>
<li class="file-stats">
<a href="#8de347355de645e73554f3bf0dd1e17f7fca0943">
tool/formula/src/main/java/org/openscience/cdk/tools/manipulator/MolecularFormulaManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#dbc0898fe67b9f8ed872ff52aa72b17271e825a7">
tool/formula/src/main/java/org/openscience/cdk/tools/manipulator/MolecularFormulaRangeManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#6d3297565f84f16b520d0d727f5ccc8e56a2e012">
tool/formula/src/main/java/org/openscience/cdk/tools/manipulator/MolecularFormulaSetManipulator.java
</a>
</li>
<li class="file-stats">
<a href="#73e8ca026e1a76d1587d37b23eefa3081243672a">
tool/formula/src/test/java/org/openscience/cdk/formula/IsotopeContainerTest.java
</a>
</li>
<li class="file-stats">
<a href="#129b667d4f85105f223e22f2076044dfc1751386">
tool/formula/src/test/java/org/openscience/cdk/formula/IsotopePatternGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#db9db8b61d9cf4c13f764c7c8b2eaf494c1af146">
tool/formula/src/test/java/org/openscience/cdk/formula/IsotopePatternManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#e6f43680a00338cfe885d4d6a24f3278cf3abd34">
tool/formula/src/test/java/org/openscience/cdk/formula/IsotopePatternSimilarityTest.java
</a>
</li>
<li class="file-stats">
<a href="#fff89a3a535c9b4c4081a877710c7799813d6a9f">
tool/formula/src/test/java/org/openscience/cdk/formula/IsotopePatternTest.java
</a>
</li>
<li class="file-stats">
<a href="#0e1e1b7ea3b9bb32d0118d421903418aa979dfef">
tool/formula/src/test/java/org/openscience/cdk/formula/MolecularFormulaCheckerTest.java
</a>
</li>
<li class="file-stats">
<a href="#758d906a7009f694d3556bd8b8e7be1eb9b81f7a">
tool/formula/src/test/java/org/openscience/cdk/formula/MolecularFormulaGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#1eb1d563e8ac67485bc92505d9c46be4529f457a">
tool/formula/src/test/java/org/openscience/cdk/formula/MolecularFormulaRangeTest.java
</a>
</li>
<li class="file-stats">
<a href="#44798349ef0c97314cfb6fbd3a768da391015152">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/ChargeRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#89926fcde8ba51ae75ddc06fa573766d9a6afb9d">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/ElementRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#08d13037567de7f67ccaa9fdcf21717dfff15bb0">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/FormulaRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#cb47cadaf8cc7b998629f0d88ed7cd8a59954b0c">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/IsotopePatternRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#9369e7c2a8acd7399ebcaa0f07922a580a6f90a0">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/MMElementRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#1a19dd72b10fe7c3ccaab0335a4e692eb82f8b1c">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/NitrogenRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#9da6defaf8518bb30ba13db8ce20a5001ec555fc">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/RDBERuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#065a59c91ae7dabeeff5bc65ee7775a42b7d8385">
tool/formula/src/test/java/org/openscience/cdk/formula/rules/ToleranceRangeRuleTest.java
</a>
</li>
<li class="file-stats">
<a href="#cb4c575a4bd57ac7669dda9a7dd8a429e444826a">
tool/formula/src/test/java/org/openscience/cdk/tools/manipulator/MolecularFormulaManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4fb898859b90600176621306c0f3f84fe26b2ee9">
tool/formula/src/test/java/org/openscience/cdk/tools/manipulator/MolecularFormulaRangeManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#071ce70570105f4d81febeea80b622f91af9cb98">
tool/formula/src/test/java/org/openscience/cdk/tools/manipulator/MolecularFormulaSetManipulatorTest.java
</a>
</li>
<li class="file-stats">
<a href="#b318937f850d80dc7769a506e32d9384f60115b8">
tool/fragment/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#842e0c87d1cd7f5275c6c73de9a82865040ba6ea">
tool/fragment/src/main/java/org/openscience/cdk/fragment/ExhaustiveFragmenter.java
</a>
</li>
<li class="file-stats">
<a href="#32cd5765ead28964728b9ec600e9221b425cdc10">
tool/fragment/src/main/java/org/openscience/cdk/fragment/FragmentUtils.java
</a>
</li>
<li class="file-stats">
<a href="#2fbbdf036bd236bf8a381617927791c59a9ef2ba">
tool/fragment/src/main/java/org/openscience/cdk/fragment/FunctionalGroupsFinder.java
</a>
</li>
<li class="file-stats">
<a href="#51f972c819fa30063061aa170960bbace7e005eb">
tool/fragment/src/main/java/org/openscience/cdk/fragment/IFragmenter.java
</a>
</li>
<li class="file-stats">
<a href="#75a3add2ca795b7be47c1f86b28f98aefa521d0c">
tool/fragment/src/main/java/org/openscience/cdk/fragment/MurckoFragmenter.java
</a>
</li>
<li class="file-stats">
<a href="#b47e52d2c3afabade8aabe9a40237d271e225444">
tool/fragment/src/test/java/org/openscience/cdk/fragment/ExhaustiveFragmenterTest.java
</a>
</li>
<li class="file-stats">
<a href="#15bf71ac5bd4f768bd04680536be185242f0d1ef">
tool/fragment/src/test/java/org/openscience/cdk/fragment/FragmentUtilsTest.java
</a>
</li>
<li class="file-stats">
<a href="#f7c91f3a189dd5fab1391b1a2e9d4c8263f596b1">
tool/fragment/src/test/java/org/openscience/cdk/fragment/FunctionalGroupsFinderTest.java
</a>
</li>
<li class="file-stats">
<a href="#f57447913ee3c6a030583afa0a047ba9b75d09f7">
tool/fragment/src/test/java/org/openscience/cdk/fragment/MurckoFragmenterTest.java
</a>
</li>
<li class="file-stats">
<a href="#c9ca9070089bf1221c1200dbeda3ece6b247f60a">
tool/group/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#296093f9d155acc4ab0fe7d5de7eb52a76d18b8c">
tool/group/src/main/java/org/openscience/cdk/group/AbstractDiscretePartitionRefiner.java
</a>
</li>
<li class="file-stats">
<a href="#ace5454c4156f9ef32d80f92ad9aebe4a5e95476">
tool/group/src/main/java/org/openscience/cdk/group/AtomContainerDiscretePartitionRefinerImpl.java
</a>
</li>
<li class="file-stats">
<a href="#5ed9c0a11220501c26fbb4a67ecbad39dd6bc05a">
tool/group/src/main/java/org/openscience/cdk/group/AtomDiscretePartitionRefiner.java
</a>
</li>
<li class="file-stats">
<a href="#8d13a026620ff4b2fc1d0fd5bd650ec25caf387e">
tool/group/src/main/java/org/openscience/cdk/group/AtomRefinable.java
</a>
</li>
<li class="file-stats">
<a href="#3137a234fcd50edb8e7c66fe24a41215b90bfaa6">
tool/group/src/main/java/org/openscience/cdk/group/BondDiscretePartitionRefiner.java
</a>
</li>
<li class="file-stats">
<a href="#69adcb1db7b4c5ce0ce96aa178ed71727e79a104">
tool/group/src/main/java/org/openscience/cdk/group/BondRefinable.java
</a>
</li>
<li class="file-stats">
<a href="#bc4cd72a3dc26251a04dafaa7e60ed371fff5fee">
tool/group/src/main/java/org/openscience/cdk/group/EquitablePartitionRefiner.java
</a>
</li>
<li class="file-stats">
<a href="#f93fc981aff29cf6fd085f056584be8471166e32">
tool/group/src/main/java/org/openscience/cdk/group/IntegerInvariant.java
</a>
</li>
<li class="file-stats">
<a href="#c7fb9a56f8ec0010a9e1a33876843d0323fcfdaf">
tool/group/src/main/java/org/openscience/cdk/group/IntegerListInvariant.java
</a>
</li>
<li class="file-stats">
<a href="#24e6ab7281d8f49d17994b99d2d9fb267922247d">
tool/group/src/main/java/org/openscience/cdk/group/Invariant.java
</a>
</li>
<li class="file-stats">
<a href="#38b5fbcbe3e162530542182827e8e8423291273b">
tool/group/src/main/java/org/openscience/cdk/group/Partition.java
</a>
</li>
<li class="file-stats">
<a href="#c5971381416091eb537a8cc2d8992b67e3728c61">
tool/group/src/main/java/org/openscience/cdk/group/Permutation.java
</a>
</li>
<li class="file-stats">
<a href="#9f4a841b50e9954aee701a435a0ddfbdf9d28f2a">
tool/group/src/main/java/org/openscience/cdk/group/PermutationGroup.java
</a>
</li>
<li class="file-stats">
<a href="#05b7663cdb888cf92ae669c488fd265829d293ce">
tool/group/src/main/java/org/openscience/cdk/group/Refinable.java
</a>
</li>
<li class="file-stats">
<a href="#60a88960cfa853fccc09994a690bf869a7ca8ba2">
tool/group/src/test/java/org/openscience/cdk/group/AbstractDiscretePartitionRefinerTest.java
</a>
</li>
<li class="file-stats">
<a href="#1040f7509937cd39b8905f598ea0d05fd68cf181">
tool/group/src/test/java/org/openscience/cdk/group/AtomContainerPrinter.java
</a>
</li>
<li class="file-stats">
<a href="#cb00781b4182bbe9af5869d1264672fa4e9268e1">
tool/group/src/test/java/org/openscience/cdk/group/AtomDiscretePartitionRefinerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a751a171e8a4ab05b7d041e5e9cdc006797f414f">
tool/group/src/test/java/org/openscience/cdk/group/AtomGroupTests.java
</a>
</li>
<li class="file-stats">
<a href="#f3c228c3d92958158e2316eba78dd5c1c949145d">
tool/group/src/test/java/org/openscience/cdk/group/AtomPermutationTests.java
</a>
</li>
<li class="file-stats">
<a href="#05e593ba1478477a5e52c15df4ae6b66cc7e1240">
tool/group/src/test/java/org/openscience/cdk/group/AtomRefinableTest.java
</a>
</li>
<li class="file-stats">
<a href="#e8f043be5b5bf8e437e8600cb122415a2fde4c7f">
tool/group/src/test/java/org/openscience/cdk/group/BondDiscretePartitionRefinerTest.java
</a>
</li>
<li class="file-stats">
<a href="#4abead97d17455c1d774fae1b648ee05729ba083">
tool/group/src/test/java/org/openscience/cdk/group/BondGroupTests.java
</a>
</li>
<li class="file-stats">
<a href="#c94abe77bb9fb63a3f545a4563031156598c5a64">
tool/group/src/test/java/org/openscience/cdk/group/BondRefinableTest.java
</a>
</li>
<li class="file-stats">
<a href="#e8155e4d3e53b1215510f414f648e78637bd9c80">
tool/group/src/test/java/org/openscience/cdk/group/EquitablePartitionRefinerTest.java
</a>
</li>
<li class="file-stats">
<a href="#ca9f6ffcaa6d1ab4fd9b5512e9ebbb05250fdfd1">
tool/group/src/test/java/org/openscience/cdk/group/PartitionTest.java
</a>
</li>
<li class="file-stats">
<a href="#21cbbf893ba2e4c276ff28c4dc963e35739267c6">
tool/group/src/test/java/org/openscience/cdk/group/PermutationGroupTest.java
</a>
</li>
<li class="file-stats">
<a href="#969848276f2c727ff2aed94a200fb2a500d2e715">
tool/group/src/test/java/org/openscience/cdk/group/PermutationTest.java
</a>
</li>
<li class="file-stats">
<a href="#98b73184ad4558ce6ccc86fe5082d54aa1655b16">
tool/hash/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#7f8c761a92e6e5e1e43292b0a4421abfccd1d211">
tool/hash/src/main/java/org/openscience/cdk/hash/AbstractAtomHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#98d22054c79b7ed1a79d33acd726ea059a49900d">
tool/hash/src/main/java/org/openscience/cdk/hash/AbstractHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#0570d50e383687fcc2b73a4c79f03799ddc9c935">
tool/hash/src/main/java/org/openscience/cdk/hash/AllEquivalentCyclicSet.java
</a>
</li>
<li class="file-stats">
<a href="#7002ed582479b2ba29f1790653fbcee48e029bbd">
tool/hash/src/main/java/org/openscience/cdk/hash/AtomSuppression.java
</a>
</li>
<li class="file-stats">
<a href="#1432003176c0b1c8aaaac30bdbc187ba455d018e">
tool/hash/src/main/java/org/openscience/cdk/hash/BasicAtomEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#29486a4c1d61416fb175a7663af53cfb78fbbcbd">
tool/hash/src/main/java/org/openscience/cdk/hash/BasicAtomHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#76f83d3b9ccaf12f7bcc07323e3c5048dd7e18a8">
tool/hash/src/main/java/org/openscience/cdk/hash/BasicMoleculeHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#a87f8c5a10e99c0420407a6a9e7aefff5e8db51f">
tool/hash/src/main/java/org/openscience/cdk/hash/ConjugatedAtomEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#89320499ff79667233fb9064c78ffeb1d078885a">
tool/hash/src/main/java/org/openscience/cdk/hash/EquivalentSetFinder.java
</a>
</li>
<li class="file-stats">
<a href="#28a5dc915d7fa2a65440de4ace4204e02cbe78b0">
tool/hash/src/main/java/org/openscience/cdk/hash/HashGeneratorMaker.java
</a>
</li>
<li class="file-stats">
<a href="#10bac2e2657a483424fe4bbffdb3334ce612b40d">
tool/hash/src/main/java/org/openscience/cdk/hash/MinimumEquivalentCyclicSet.java
</a>
</li>
<li class="file-stats">
<a href="#ea43d223cf824dad097f7c6d4df79506b8d77cfd">
tool/hash/src/main/java/org/openscience/cdk/hash/MinimumEquivalentCyclicSetUnion.java
</a>
</li>
<li class="file-stats">
<a href="#33bc6c52e930b978e3ac123017e2ddd74f5c75f7">
tool/hash/src/main/java/org/openscience/cdk/hash/PerturbedAtomHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#f1ed2633016af24ed3f01c2b231653f92eafdd68">
tool/hash/src/main/java/org/openscience/cdk/hash/Pseudorandom.java
</a>
</li>
<li class="file-stats">
<a href="#79d39f08d28689837fad5621918ff7f3841d2db6">
tool/hash/src/main/java/org/openscience/cdk/hash/SeedGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#608f482a83905548821130c4cd481c89c2008d68">
tool/hash/src/main/java/org/openscience/cdk/hash/Suppressed.java
</a>
</li>
<li class="file-stats">
<a href="#b8af04cba2af92d54137bb3e5407eb22cd47d4b2">
tool/hash/src/main/java/org/openscience/cdk/hash/SuppressedAtomHashGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#7acaad34663bed63e768582cfad518c9efc1dd68">
tool/hash/src/main/java/org/openscience/cdk/hash/Xorshift.java
</a>
</li>
<li class="file-stats">
<a href="#5beb37f9d1b1b261fa53dee592297275e98d90e9">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/BasicPermutationParity.java
</a>
</li>
<li class="file-stats">
<a href="#48bb9c782dd1e9cd03fc8cef4e61ed83e86430a3">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/CombinedPermutationParity.java
</a>
</li>
<li class="file-stats">
<a href="#40790a52316493236ab0879ec1bdc2f933cc4d44">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/DoubleBond2DParity.java
</a>
</li>
<li class="file-stats">
<a href="#f5cb608c65f2a39c7aa06c1b573ca4fa97b8cdf4">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/DoubleBond3DParity.java
</a>
</li>
<li class="file-stats">
<a href="#364deff69f8865324cef22f0b83e77078f7d1c76">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/DoubleBondElementEncoderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#082d37e401606d00335928d03b6a5ebe7bd270b0">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/GeometricCumulativeDoubleBondFactory.java
</a>
</li>
<li class="file-stats">
<a href="#2de22e0f29de8c6a7d4fdd16cba0dd4b54faef2f">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/GeometricDoubleBondEncoderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#7747f1d54390150da67d7c9fcd41b0055c8e9fbb">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/GeometricParity.java
</a>
</li>
<li class="file-stats">
<a href="#133c7d7fecb40c74f73c747e6da0b61ca42ab12f">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/GeometricTetrahedralEncoderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#50be9ccb593accd7f86933b95bf750ea9a7187b9">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/GeometryEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#00bb7680984e4eb4f8ea04f8138b2209a4da1b64">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/MultiStereoEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#05e9446caba1f3e46d052d8543301c196d932933">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/PermutationParity.java
</a>
</li>
<li class="file-stats">
<a href="#06b354b4da0fb293ecc745ee0939315a7dfb11bc">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/StereoEncoder.java
</a>
</li>
<li class="file-stats">
<a href="#1c0a706bec0ea8b4f029420d6918ed81669d9541">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/StereoEncoderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#03206e44c4028d179a7cf08c1d1458035bc2b550">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/Tetrahedral2DParity.java
</a>
</li>
<li class="file-stats">
<a href="#d5e12d2fd1c6f8ab0b01934b500bc3c36afe73e5">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/Tetrahedral3DParity.java
</a>
</li>
<li class="file-stats">
<a href="#611fe47e7223993374a4841346e9c521127b7c5e">
tool/hash/src/main/java/org/openscience/cdk/hash/stereo/TetrahedralElementEncoderFactory.java
</a>
</li>
<li class="file-stats">
<a href="#0606d47e014b905377a829805d630c983ace0c05">
tool/hash/src/test/java/org/openscience/cdk/hash/AbstractHashGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#6ed9c2f5134f8a021b7b86aecc0ff32b4d942e79">
tool/hash/src/test/java/org/openscience/cdk/hash/AllEquivalentCyclicSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#af7ba6856bcaad1653800f09888f6025e86c58d6">
tool/hash/src/test/java/org/openscience/cdk/hash/AtomSuppressionTest.java
</a>
</li>
<li class="file-stats">
<a href="#de36a08f20b7903e72f8cbfa3b9fceb9bd3a23f2">
tool/hash/src/test/java/org/openscience/cdk/hash/BasicAtomEncoderTest.java
</a>
</li>
<li class="file-stats">
<a href="#68357a380745093b58bf19bdc0600de339f3aa44">
tool/hash/src/test/java/org/openscience/cdk/hash/BasicAtomHashGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#67f81203f28b372cad1b72c952fc673f8379dfa7">
tool/hash/src/test/java/org/openscience/cdk/hash/BasicMoleculeHashGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#a2098fcedfc65aa54db2c43e6d377b05be07b4cb">
tool/hash/src/test/java/org/openscience/cdk/hash/ConjugatedAtomEncoderTest.java
</a>
</li>
<li class="file-stats">
<a href="#d18967155cc3233d727f7e46f9044a9cdd9745af">
tool/hash/src/test/java/org/openscience/cdk/hash/HashCodeScenariosTest.java
</a>
</li>
<li class="file-stats">
<a href="#71228d7491853fb5cddeb11b3a38a3959070ccd2">
tool/hash/src/test/java/org/openscience/cdk/hash/HashGeneratorMakerTest.java
</a>
</li>
<li class="file-stats">
<a href="#128ebeb6f3c80a7dc33b34907be4e9e8f2976662">
tool/hash/src/test/java/org/openscience/cdk/hash/MinimumEquivalentCyclicSetTest.java
</a>
</li>
<li class="file-stats">
<a href="#726e112c140252958ff5b93c6dbdd3bc8ed9182b">
tool/hash/src/test/java/org/openscience/cdk/hash/MinimumEquivalentCyclicSetUnionTest.java
</a>
</li>
<li class="file-stats">
<a href="#9bc61704166d1333507cd2179b959404d1b2ca73">
tool/hash/src/test/java/org/openscience/cdk/hash/PerturbedAtomHashGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4ed9e32aaf63603a05932971919f6e301ea70330">
tool/hash/src/test/java/org/openscience/cdk/hash/SeedGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#24e86cf91be25d167b8fc00cf31b044c1d5d3cef">
tool/hash/src/test/java/org/openscience/cdk/hash/SuppressedAtomHashGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#7067465b372ecd33669f10440a2eebba9829cdbf">
tool/hash/src/test/java/org/openscience/cdk/hash/SuppressedTest.java
</a>
</li>
<li class="file-stats">
<a href="#738c625a4c1defcf92992db15c5b2602e9f2b667">
tool/hash/src/test/java/org/openscience/cdk/hash/XorshiftTest.java
</a>
</li>
<li class="file-stats">
<a href="#679a60d8ffcb5fa9e160ce1f1256277caa88bd74">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/BasicPermutationParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#6f8df468d13766eb3f0f86339ac96e30a20ca628">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/CombinedPermutationParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#b454f9bac63be4d8f3b0442f0bce742b178a756f">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/DoubleBond2DParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#d198ed60eeba18cb5852704fb618e8c661abdb05">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/DoubleBond3DParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#1420bfe65e3c58f23f18f3a826d8735d1990c3cc">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/DoubleBondElementEncoderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#fbf6ce7bfb6a3a2f59dfa9f75e6c8ec634477f7c">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/GeometricCumulativeDoubleBondFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#bcafd2ce01d2e8bb9b21ea3edeb81846efb67715">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/GeometricDoubleBondEncoderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#acb1d4e464a648968218a3022ca5498cf1ed0163">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/GeometricParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#c0c5e7c150029f78332a0a5efa1b66e635f790b8">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/GeometricTetrahedralEncoderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#88ca7ab7ecb1e4e740fafb463b8161fb2670fa11">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/GeometryEncoderTest.java
</a>
</li>
<li class="file-stats">
<a href="#2935ddcaded5ff611c2cb1d5179f6d8c54b8ef41">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/MultiStereoEncoderTest.java
</a>
</li>
<li class="file-stats">
<a href="#84984991facfce065a5a9bae75421414981d2b75">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/Tetrahedral2DParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#357f8248045fcf2e387abdc16346b9caf73b0f12">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/Tetrahedral3DParityTest.java
</a>
</li>
<li class="file-stats">
<a href="#0a3d371c63b0a1458345b546c1272274b2adf010">
tool/hash/src/test/java/org/openscience/cdk/hash/stereo/TetrahedralElementEncoderFactoryTest.java
</a>
</li>
<li class="file-stats">
<a href="#19ba19448a19259a0c23abd300f5c4a81f73ad56">
tool/model/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#38573cdadd6ff7204fdf76a7fae864bb61a2edcb">
tool/model/src/main/java/org/openscience/cdk/fingerprint/model/Bayesian.java
</a>
</li>
<li class="file-stats">
<a href="#223a250e80185ed486c24ea659c2bf3c6abab9ae">
tool/model/src/test/java/org/openscience/cdk/fingerprint/model/BayesianTest.java
</a>
</li>
<li class="file-stats">
<a href="#c93ee515bc8308b0f7e772cc6d263528ab0972f3">
tool/pcore/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#e502ba36854e9fccc5797dada1529c4e6787f4c6">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreAngleBond.java
</a>
</li>
<li class="file-stats">
<a href="#27482f80b54c3309a7bec9b013da229851b0c1d0">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreAtom.java
</a>
</li>
<li class="file-stats">
<a href="#ba300e74f0ef15b0c6fd83bd68525efa38130729">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreBond.java
</a>
</li>
<li class="file-stats">
<a href="#aa50187fd328a2b21cc9d9b618f92064512c4555">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#2149ea1e4e0e2b79561fc093f7d5246707999a93">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreQuery.java
</a>
</li>
<li class="file-stats">
<a href="#f034e2205e98704b808602991328a26d4d416a53">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryAngleBond.java
</a>
</li>
<li class="file-stats">
<a href="#d164bb0b6c22445652344145e9e5e37053d65f5a">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryAtom.java
</a>
</li>
<li class="file-stats">
<a href="#a46ffa1f16497ceae32391b4b653c37a74957716">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryBond.java
</a>
</li>
<li class="file-stats">
<a href="#5a2e9546dae5ce880810c5e459ecca9abe82a7bf">
tool/pcore/src/main/java/org/openscience/cdk/pharmacophore/PharmacophoreUtils.java
</a>
</li>
<li class="file-stats">
<a href="#77055d182265412ae7df00f37a131130e5d73e94">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreAngleBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#bd03389560de6ad3d7dcbb316afe7d90e430d5d0">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#8059ded039c4c74b1be58aa082ea29f42e6f2655">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#acdebb73b48d410a5edc86292ca3a2d9cf27a4a5">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#3547bb9783ae21d734d46889dd10c5d3baa37952">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryAngleBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#3df699ba0a99b2056fccf32d579f72f0d7bb2623">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryAtomTest.java
</a>
</li>
<li class="file-stats">
<a href="#a71b6196dd59147db35095ab910e53f9bf645138">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryBondTest.java
</a>
</li>
<li class="file-stats">
<a href="#a075d6aa712925e4c6572a0c5d2b5b16d431323a">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreQueryTest.java
</a>
</li>
<li class="file-stats">
<a href="#41a6d7938a2cca567b606bff872ad4c166949cd8">
tool/pcore/src/test/java/org/openscience/cdk/pharmacophore/PharmacophoreUtilityTest.java
</a>
</li>
<li class="file-stats">
<a href="#87fa44ef7c56c869e2be27559b99728686c0ac62">
tool/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ea2b8959e619cf08601d05c2de28cc0f111ac91f">
tool/sdg/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#6008f04d0a1d8e1e68895c930fb83e25ecfaca03">
tool/sdg/src/main/java/org/openscience/cdk/layout/AtomPlacer.java
</a>
</li>
<li class="file-stats">
<a href="#115649be66e2ca30437c47ebb656487893ba818a">
tool/sdg/src/main/java/org/openscience/cdk/layout/CorrectGeometricConfiguration.java
</a>
</li>
<li class="file-stats">
<a href="#ef0f2962a754049d7b2a165c4f03b4c7dbab8a59">
tool/sdg/src/main/java/org/openscience/cdk/layout/HydrogenPlacer.java
</a>
</li>
<li class="file-stats">
<a href="#b32e084f0aadc917b03441fe1870f215c028527f">
tool/sdg/src/main/java/org/openscience/cdk/layout/NonplanarBonds.java
</a>
</li>
<li class="file-stats">
<a href="#0812ed6f35927b101a541bea9d65d8838f14b708">
tool/sdg/src/main/java/org/openscience/cdk/layout/OverlapResolver.java
</a>
</li>
<li class="file-stats">
<a href="#92d8d92e08174646fd068c148278771d58c299a8">
tool/sdg/src/main/java/org/openscience/cdk/layout/RingPlacer.java
</a>
</li>
<li class="file-stats">
<a href="#312b71d5bdb8dc566c264ba588aaf99571f0a14e">
tool/sdg/src/main/java/org/openscience/cdk/layout/StructureDiagramGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#bca73d2ab4ec1418d3bfd3df1cde07266eb9e7cc">
tool/sdg/src/main/java/org/openscience/cdk/layout/TemplateHandler.java
</a>
</li>
<li class="file-stats">
<a href="#9c748b8ea929501984862e3312bd23ab0372589e">
tool/sdg/src/test/java/org/openscience/cdk/layout/AtomPlacerTest.java
</a>
</li>
<li class="file-stats">
<a href="#9c6268b6e00d66b20d5b40cea64234dc4c751866">
tool/sdg/src/test/java/org/openscience/cdk/layout/CorrectGeometricConfigurationTest.java
</a>
</li>
<li class="file-stats">
<a href="#a4e64c66516f73ff59efe52a87c449759f4683d7">
tool/sdg/src/test/java/org/openscience/cdk/layout/HydrogenPlacerTest.java
</a>
</li>
<li class="file-stats">
<a href="#a7f8bdfc8874f2471fe7b7783f595eba057e1d32">
tool/sdg/src/test/java/org/openscience/cdk/layout/NonPlanarBondsTest.java
</a>
</li>
<li class="file-stats">
<a href="#752fde5b88230755ced5ea8062c2f874251a4759">
tool/sdg/src/test/java/org/openscience/cdk/layout/OverlapResolverTest.java
</a>
</li>
<li class="file-stats">
<a href="#6ce69b4a50a70c8c427255a33c432c45e3fd4d11">
tool/sdg/src/test/java/org/openscience/cdk/layout/StructureDiagramGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#4150daa9b0b02d9d0ed41ec492820cfd23c57b2e">
tool/sdg/src/test/java/org/openscience/cdk/layout/TemplateHandlerTest.java
</a>
</li>
<li class="file-stats">
<a href="#f4697af84a1450dd3cfe88877861abf89f491ac5">
tool/smarts/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#ce83f56fde8affc868ce5e596f4b0cc4a8ede6e7">
tool/smarts/src/main/java/org/openscience/cdk/smarts/Smarts.java
</a>
</li>
<li class="file-stats">
<a href="#28a40ef03ab45da7392c571d72aa55b3d548a0a4">
tool/smarts/src/test/java/org/openscience/cdk/isomorphism/MappingPredicatesTest.java
</a>
</li>
<li class="file-stats">
<a href="#e46d70f53f8d1789928d492b07387e6e9ac39ef4">
tool/smarts/src/test/java/org/openscience/cdk/isomorphism/MappingsTest.java
</a>
</li>
<li class="file-stats">
<a href="#bf039d3d932f1c86825d652abdda2eaf4f22612c">
tool/smarts/src/test/java/org/openscience/cdk/isomorphism/QueryStereoFilterTest.java
</a>
</li>
<li class="file-stats">
<a href="#c22a9302aca504ed32e2bb5eba6ed07b8fc13d66">
tool/smarts/src/test/java/org/openscience/cdk/smarts/ParserTest.java
</a>
</li>
<li class="file-stats">
<a href="#fea9548e3724a27885f6883ba908939a637dfb25">
tool/smarts/src/test/java/org/openscience/cdk/smarts/SmartsPatternTest.java
</a>
</li>
<li class="file-stats">
<a href="#5987409b8902b69c68a764050eb21b15cc8d64f9">
tool/smarts/src/test/java/org/openscience/cdk/smarts/SubstructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#c9ac8ac6fa4d14ecf66f2bc724daa81e446beb35">
tool/smarts/src/test/java/org/openscience/cdk/smarts/UllmannSubstructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#b2c806b9e29eddb4ab7966c000c1da02edbcf695">
tool/smarts/src/test/java/org/openscience/cdk/smarts/VFSubstructureTest.java
</a>
</li>
<li class="file-stats">
<a href="#df48477c4be50f91796199fd43cbbfee84fe4884">
tool/structgen/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#1964d7c0810418c8ef65da88f298fca287e4db78">
tool/structgen/src/main/java/org/openscience/cdk/atomtype/StructGenAtomTypeGuesser.java
</a>
</li>
<li class="file-stats">
<a href="#85142c669f11509e0cf58fdbb9ed63f0c16b1755">
tool/structgen/src/main/java/org/openscience/cdk/atomtype/StructGenMatcher.java
</a>
</li>
<li class="file-stats">
<a href="#1145bc00a4aedd7d0477e9c1b53126ec023f9f2f">
tool/structgen/src/main/java/org/openscience/cdk/structgen/IStructureGenerationListener.java
</a>
</li>
<li class="file-stats">
<a href="#bd1e57d4d84a679439883723b7117442f5a961dd">
tool/structgen/src/main/java/org/openscience/cdk/structgen/MathTools.java
</a>
</li>
<li class="file-stats">
<a href="#839a1da4f759b6b5f0a69f854a78c2ef8ee78cee">
tool/structgen/src/main/java/org/openscience/cdk/structgen/RandomGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#0fa882805085b23b33852def5ae80b3a7142dbdc">
tool/structgen/src/main/java/org/openscience/cdk/structgen/SingleStructureRandomGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#8ffaf03cf8f98b753d4f4d90e33ea5feff3ba4d0">
tool/structgen/src/main/java/org/openscience/cdk/structgen/VicinitySampler.java
</a>
</li>
<li class="file-stats">
<a href="#8e8c349884c1ec33d926bacc4b939bee116892c3">
tool/structgen/src/main/java/org/openscience/cdk/structgen/maygen/BoundaryConditions.java
</a>
</li>
<li class="file-stats">
<a href="#de3b45156888f113f6ef91df9dfff725ac87dfbc">
tool/structgen/src/main/java/org/openscience/cdk/structgen/maygen/Generation.java
</a>
</li>
<li class="file-stats">
<a href="#d5388791c5928c29b7c669e78711467295f8a592">
tool/structgen/src/main/java/org/openscience/cdk/structgen/maygen/HydrogenDistributor.java
</a>
</li>
<li class="file-stats">
<a href="#7a8c37ab895625117aba213df7c6bb8adec549b8">
tool/structgen/src/main/java/org/openscience/cdk/structgen/maygen/Maygen.java
</a>
</li>
<li class="file-stats">
<a href="#83deb59a700f43f2064d5682565a4ab32027a707">
tool/structgen/src/main/java/org/openscience/cdk/structgen/stochastic/PartialFilledStructureMerger.java
</a>
</li>
<li class="file-stats">
<a href="#f34bd5d543f22eb52480d5cbc98806e07a2ad99e">
tool/structgen/src/main/java/org/openscience/cdk/structgen/stochastic/operator/ChemGraph.java
</a>
</li>
<li class="file-stats">
<a href="#7a618fccaedd91d15cfcc02ba8f1deb2d2300986">
tool/structgen/src/main/java/org/openscience/cdk/structgen/stochastic/operator/CrossoverMachine.java
</a>
</li>
<li class="file-stats">
<a href="#fe6220dcdc636852ae30a9cee8b1d5c04b75583c">
tool/structgen/src/test/java/org/openscience/cdk/atomtype/StructGenAtomTypeGuesserTest.java
</a>
</li>
<li class="file-stats">
<a href="#f36605d792255c24c31de38cc0f8720fa51a4544">
tool/structgen/src/test/java/org/openscience/cdk/atomtype/StructGenMatcherTest.java
</a>
</li>
<li class="file-stats">
<a href="#21c2f666109904d290952915c034592b65444b59">
tool/structgen/src/test/java/org/openscience/cdk/structgen/MathToolsTest.java
</a>
</li>
<li class="file-stats">
<a href="#2e3355bb913f8c015258d7170185809e5ca507d1">
tool/structgen/src/test/java/org/openscience/cdk/structgen/RandomStructureGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#29c3696c26b05563ac1e07b0c2f9920c9d953338">
tool/structgen/src/test/java/org/openscience/cdk/structgen/SingleStructureRandomGeneratorTest.java
</a>
</li>
<li class="file-stats">
<a href="#277999797a227fac37fdb278a087fe3f924f63eb">
tool/structgen/src/test/java/org/openscience/cdk/structgen/VicinitySamplerTest.java
</a>
</li>
<li class="file-stats">
<a href="#77a2c62e3b1f10a65026d7927b61afea80597a69">
tool/structgen/src/test/java/org/openscience/cdk/structgen/maygen/BoundaryConditionsTest.java
</a>
</li>
<li class="file-stats">
<a href="#71dd1c6abcfedffce918494ce503f5f45f46544b">
tool/structgen/src/test/java/org/openscience/cdk/structgen/maygen/MaygenTest.java
</a>
</li>
<li class="file-stats">
<a href="#274350a8ec5bcf90c958f6433b6cec9a92366c5e">
tool/structgen/src/test/java/org/openscience/cdk/structgen/stochastic/PartialFilledStructureMergerTest.java
</a>
</li>
<li class="file-stats">
<a href="#d5b5b838e44a6905526f01b53dded2793d0996a8">
tool/structgen/src/test/java/org/openscience/cdk/structgen/stochastic/operator/ChemGraphTest.java
</a>
</li>
<li class="file-stats">
<a href="#d1a6c67f5cc1e8cc8945bdffbb4e398d95284d74">
tool/structgen/src/test/java/org/openscience/cdk/structgen/stochastic/operator/CrossoverMachineTest.java
</a>
</li>
<li class="file-stats">
<a href="#d58be59aca2709d08bdbef2d55e845bccedfa477">
tool/tautomer/pom.xml
</a>
</li>
<li class="file-stats">
<a href="#2796f18eba793e47ee840536accfc64e5ba3ae5b">
tool/tautomer/src/main/java/org/openscience/cdk/tautomers/InChITautomerGenerator.java
</a>
</li>
<li class="file-stats">
<a href="#36b2ad729238067ef4599e1dccfebc9c1c698a3d">
tool/tautomer/src/test/java/org/openscience/cdk/tautomers/InChITautomerGeneratorTest.java
</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/java-team/cdk/-/compare/70cf3a09495ea12cee7eaa5e2e049272a96c7bd2...d184b3c85f7202e2754cac7ad67368ab2c7f7628">View it on GitLab</a>.
<br>
You're receiving this email because of your account on <a target="_blank" rel="noopener noreferrer" href="https://salsa.debian.org">salsa.debian.org</a>. <a href="https://salsa.debian.org/-/profile/notifications" target="_blank" rel="noopener noreferrer" class="mng-notif-link">Manage all notifications</a> · <a href="https://salsa.debian.org/help" target="_blank" rel="noopener noreferrer" class="help-link">Help</a>
</p>
</div>
</body>
</html>