This wiki is powered by MediaWiki, copyright © 2001-2024 Magnus Manske, Brion Vibber, Lee Daniel Crocker, Tim Starling, Erik Möller, Gabriel Wicke, Ævar Arnfjörð Bjarmason, Niklas Laxström, Domas Mituzas, Rob Church, Yuri Astrakhan, Aryeh Gregor, Aaron Schulz, Andrew Garrett, Raimond Spekking, Alexandre Emsenhuber, Siebrand Mazeland, Chad Horohoe, Roan Kattouw, Trevor Parscal, Bryan Tong Minh, Sam Reed, Victor Vasiliev, Rotem Liss, Platonides, Antoine Musso, Timo Tijhof, Daniel Kinzler, Jeroen De Dauw, Brad Jorsch, Bartosz Dziewoński, Ed Sanders, Moriel Schottlender, others and translatewiki.net translators.
MediaWiki is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.
MediaWiki is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received
a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA or
read it online.
Special pages |
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Extension | Version | License | Description | Authors |
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GoPageMaker | 2.0 | GPL-2.0+ | Adds the GO pagemaker functionality. | Daniel Renfro and Jim Hu |
Interwiki | 3.1 20160307 | GPL-2.0-or-later | Adds a special page to view and edit the interwiki table | Stephanie Amanda Stevens, Alexandre Emsenhuber, Robin Pepermans, Siebrand Mazeland, Platonides, Raimond Spekking, Sam Reed, Jack Phoenix, Calimonius the Estrange and others |
Renameuser | – | GPL-2.0-or-later | Adds a special page to rename a user (need renameuser right) | Ævar Arnfjörð Bjarmason and Aaron Schulz |
RestrictiveRights | 0.11 | | change rights so explicit false is dominant | Jim Hu |
User contribution statistics. | 0.2 | | Summary edit stats for EcoliWiki and GONUTS. | Jim Hu |
UserRightsList | 0.54 | | list-based user rights management | Jim Hu |
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Parser hooks |
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Extension | Version | License | Description | Authors |
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AnnotationLinks | 0.3 | GPL-2.0+ | Summarizes GO annotations from a paper on a PMID page | Jim Hu |
Cite | – | GPL-2.0-or-later | Adds <ref[ name=id]> and <references/> tags, for citations | Ævar Arnfjörð Bjarmason, Andrew Garrett, Brion Vibber, Ed Sanders, Marius Hoch, Steve Sanbeg, Trevor Parscal and others |
EmbedVideo | 2.7.3 | MIT | Adds a parser function embedding video from popular sources. | Jim R. Wilson, Andrew Whitworth, Alexia E. Smith and Cameron M. Chunn |
GOfig | 2.0 | GPL-2.0+ | Provides Ancestor chart for GO term using EBI web service | Jim Hu |
InputBox | 0.3.0 | MIT | Allow inclusion of predefined HTML forms | Erik Moeller, Leonardo Pimenta, Rob Church, Trevor Parscal and DaSch |
ParserFunctions | 1.6.0 | GPL-2.0-or-later | Enhance parser with logical functions | Tim Starling, Robert Rohde, Ross McClure and Juraj Simlovic |
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Other |
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Extension | Version | License | Description | Authors |
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AccessionsOnDemand | 0.1 | | Not really a pages on demand - redirects to accessions | Jim Hu <jimhu@tamu.edu> |
Cacao | 2.1 (5505f6c) 16:52, 10 September 2019 | | Handles the CACAO scoring and annotations | Daniel Renfro and Jim Hu |
Category:GO_OnDemand | 0.2 | | Create Category pages with PagesOnDemand mechanism | Jim Hu <jimhu@tamu.edu> |
CirrusSearch | 0.2 (b1fa4bd) 07:47, 20 February 2019 | GPL-2.0-or-later | Elasticsearch-powered search for MediaWiki | Nik Everett, Chad Horohoe, Erik Bernhardson and others |
DataTables | 0.4 | | Datatables jQuery library for MediaWiki | Daniel Renfro (Original Mediawiki Extension), Jim Hu (since 0.2) and Allan Jardine (Javascript library) |
Elastica | 1.3.0.0 (7019d96) 19:49, 13 April 2018 | GPL-2.0-or-later | Base Elasticsearch functionality for other extensions by providing Elastica library | Nik Everett and Chad Horohoe |
ExtendedCategoryPage | 0.41 | | Adds some fancy customizations to the Catgory: page. | Daniel Renfro and Jim Hu (since 0.4) |
Google Analytics Integration | 3.0.1 (210be5d) 15:54, 1 June 2015 | | Inserts Google Universal Analytics (and/or other web analytics) scripts into MediaWiki pages for tracking | Tim Laqua and Davis Mosenkovs |
GOsummary | 0.3 | | Generate summary table and figures for collections of genes annotated to GO in GONUTS | Jim Hu <jimhu@tamu.edu> |
Hu Laboratory Code | 0.5 | | Many classes for making things easier. | Daniel Renfro and Jim Hu |
HuLabREST | 0.1.0 | | ⧼tewikirest-desc⧽ | Jim Hu |
PagesOnDemand | 0.2 | | Provides mechanism for generating wiki articles on demand. | Jim Hu <jimhu@tamu.edu> and Jim Wilson <wilson.jim.r@gmail.com> |
PMID | 0.1 | | Object classes for using National Library of Medicine PubMed database via NCBI EUtils. | Jim Hu <jimhu@tamu.edu> |
PMID_OnDemand | 0.2 | | Uses PagesOnDemand to generate wiki articles about papers indexed in the National Library of Medicine PubMed database on demand. | Jim Hu <jimhu@tamu.edu> and Jim Wilson <wilson.jim.r@gmail.com> |
PreloadOnDemand | 0.1 | | Apply pages on demand to inputbox pages. | Jim Hu <jimhu@tamu.edu> |
ProcessCite | 0.3 | | Modifies Cite citations based on customizable content. | Jim Hu |
ProtectSection | 1.1 | | Allows authorised users to protect parts of a page using the tag <protect> | ThomasV |
TableEdit | 1.4 | | TableEdit adds a forms-based table editor as a special page | Jim Hu (since 0.2) |
TableEdit:go_nr | 0.1 | | Special column type for go annotation completeness | Jim Hu <jimhu@tamu.edu> |
Library | Version | License | Description | Authors |
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composer/installers | 1.6.0 | MIT | A multi-framework Composer library installer | Kyle Robinson Young |
composer/semver | 1.4.2 | MIT | Semver library that offers utilities, version constraint parsing and validation. | Nils Adermann, Jordi Boggiano and Rob Bast |
composer/spdx-licenses | 1.3.0 | MIT | SPDX licenses list and validation library. | Nils Adermann, Jordi Boggiano and Rob Bast |
cssjanus/cssjanus | 1.2.0 | Apache-2.0 | Convert CSS stylesheets between left-to-right and right-to-left. | |
dnoegel/php-xdg-base-dir | 0.1 | MIT | implementation of xdg base directory specification for php | |
doctrine/instantiator | 1.2.0 | MIT | A small, lightweight utility to instantiate objects in PHP without invoking their constructors | Marco Pivetta |
elasticsearch/elasticsearch | 5.3.2 | | | |
hamcrest/hamcrest-php | 2.0.0 | BSD | This is the PHP port of Hamcrest Matchers | |
jakub-onderka/php-console-color | 0.2 | BSD-2-Clause | | Jakub Onderka |
jakub-onderka/php-console-highlighter | 0.3.2 | MIT | | Jakub Onderka |
jakub-onderka/php-parallel-lint | 0.9.2 | BSD-2-Clause | This tool check syntax of PHP files about 20x faster than serial check. | Jakub Onderka |
jetbrains/phpstorm-stubs | dev-master | Apache-2.0 | PHP runtime & extensions header files for PhpStorm | |
justinrainbow/json-schema | 5.2.8 | MIT | A library to validate a json schema. | Bruno Prieto Reis, Justin Rainbow, Igor Wiedler and Robert Schönthal |
liuggio/statsd-php-client | 1.0.18 | MIT | Statsd (Object Oriented) client library for PHP | Giulio De Donato |
mediawiki/mediawiki-codesniffer | 18.0.0 | GPL-2.0-or-later | MediaWiki CodeSniffer Standards | |
monolog/monolog | 1.22.1 | MIT | Sends your logs to files, sockets, inboxes, databases and various web services | Jordi Boggiano |
myclabs/deep-copy | 1.8.1 | MIT | Create deep copies (clones) of your objects | |
nikic/php-parser | 3.1.3 | BSD-3-Clause | A PHP parser written in PHP | Nikita Popov |
nmred/kafka-php | 0.1.5 | BSD-3-Clause | Kafka client for php | |
oojs/oojs-ui | 0.26.4 | MIT | Provides library of common widgets, layouts, and windows. | Timo Tijhof, Bartosz Dziewoński, Ed Sanders, James D. Forrester, Kirsten Menger-Anderson, Rob Moen, Roan Kattouw, Trevor Parscal, Kunal Mehta and Prateek Saxena |
oyejorge/less.php | 1.7.0.14 | Apache-2.0 | PHP port of the Javascript version of LESS http://lesscss.org (Originally maintained by Josh Schmidt) | Matt Agar, Martin Jantošovič and Josh Schmidt |
pear/console_getopt | 1.4.2 | BSD-2-Clause | More info available on: http://pear.php.net/package/Console_Getopt | Greg Beaver, Andrei Zmievski and Stig Bakken |
pear/mail | 1.4.1 | BSD-2-Clause | Class that provides multiple interfaces for sending emails. | Chuck Hagenbuch, Richard Heyes and Aleksander Machniak |
pear/mail_mime | 1.10.2 | BSD-3-clause | Mail_Mime provides classes to create MIME messages | Cipriano Groenendal and Aleksander Machniak |
pear/mail_mime-decode | 1.5.5.2 | BSD-2-Clause | More info available on: http://pear.php.net/package/Mail_mimeDecode | Cipriano Groenendal and Aleksander Machniak |
pear/net_smtp | 1.8.1 | BSD-2-Clause | An implementation of the SMTP protocol | Chuck Hagenbuch and Jon Parise |
pear/net_socket | 1.2.2 | PHP License | More info available on: http://pear.php.net/package/Net_Socket | Chuck Hagenbuch, Aleksander Machniak and Stig Bakken |
pear/pear-core-minimal | 1.10.9 | BSD-3-Clause | Minimal set of PEAR core files to be used as composer dependency | Christian Weiske |
pear/pear_exception | 1.0.0 | BSD-2-Clause | The PEAR Exception base class. | Helgi Thormar and Greg Beaver |
phar-io/manifest | 1.0.1 | BSD-3-Clause | Component for reading phar.io manifest information from a PHP Archive (PHAR) | Arne Blankerts, Sebastian Heuer and Sebastian Bergmann |
phar-io/version | 1.0.1 | BSD-3-Clause | Library for handling version information and constraints | Arne Blankerts, Sebastian Heuer and Sebastian Bergmann |
phpdocumentor/reflection-common | 1.0.1 | MIT | Common reflection classes used by phpdocumentor to reflect the code structure | Jaap van Otterdijk |
phpdocumentor/reflection-docblock | 4.3.0 | MIT | With this component, a library can provide support for annotations via DocBlocks or otherwise retrieve information that is embedded in a DocBlock. | Mike van Riel |
phpdocumentor/type-resolver | 0.4.0 | MIT | | Mike van Riel |
phpspec/prophecy | 1.8.0 | MIT | Highly opinionated mocking framework for PHP 5.3+ | Konstantin Kudryashov and Marcello Duarte |
phpunit/php-code-coverage | 5.3.2 | BSD-3-Clause | Library that provides collection, processing, and rendering functionality for PHP code coverage information. | Sebastian Bergmann |
phpunit/php-file-iterator | 1.4.5 | BSD-3-Clause | FilterIterator implementation that filters files based on a list of suffixes. | Sebastian Bergmann |
phpunit/php-text-template | 1.2.1 | BSD-3-Clause | Simple template engine. | Sebastian Bergmann |
phpunit/php-timer | 1.0.9 | BSD-3-Clause | Utility class for timing | Sebastian Bergmann |
phpunit/php-token-stream | 2.0.2 | BSD-3-Clause | Wrapper around PHP's tokenizer extension. | Sebastian Bergmann |
phpunit/phpunit | 6.5.14 | BSD-3-Clause | The PHP Unit Testing framework. | Sebastian Bergmann |
phpunit/phpunit-mock-objects | 5.0.10 | BSD-3-Clause | Mock Object library for PHPUnit | Sebastian Bergmann |
psr/log | 1.0.2 | MIT | Common interface for logging libraries | PHP-FIG |
psy/psysh | 0.8.11 | MIT | An interactive shell for modern PHP. | Justin Hileman |
ruflin/elastica | 5.3.2 | | | |
sebastian/code-unit-reverse-lookup | 1.0.1 | BSD-3-Clause | Looks up which function or method a line of code belongs to | Sebastian Bergmann |
sebastian/comparator | 2.1.3 | BSD-3-Clause | Provides the functionality to compare PHP values for equality | Jeff Welch, Volker Dusch, Bernhard Schussek and Sebastian Bergmann |
sebastian/diff | 2.0.1 | BSD-3-Clause | Diff implementation | Kore Nordmann and Sebastian Bergmann |
sebastian/environment | 3.1.0 | BSD-3-Clause | Provides functionality to handle HHVM/PHP environments | Sebastian Bergmann |
sebastian/exporter | 3.1.0 | BSD-3-Clause | Provides the functionality to export PHP variables for visualization | Jeff Welch, Volker Dusch, Bernhard Schussek, Sebastian Bergmann and Adam Harvey |
sebastian/global-state | 2.0.0 | BSD-3-Clause | Snapshotting of global state | Sebastian Bergmann |
sebastian/object-enumerator | 3.0.3 | BSD-3-Clause | Traverses array structures and object graphs to enumerate all referenced objects | Sebastian Bergmann |
sebastian/object-reflector | 1.1.1 | BSD-3-Clause | Allows reflection of object attributes, including inherited and non-public ones | Sebastian Bergmann |
sebastian/recursion-context | 3.0.0 | BSD-3-Clause | Provides functionality to recursively process PHP variables | Jeff Welch, Sebastian Bergmann and Adam Harvey |
sebastian/resource-operations | 1.0.0 | BSD-3-Clause | Provides a list of PHP built-in functions that operate on resources | Sebastian Bergmann |
sebastian/version | 2.0.1 | BSD-3-Clause | Library that helps with managing the version number of Git-hosted PHP projects | Sebastian Bergmann |
squizlabs/php_codesniffer | 3.2.3 | BSD-3-Clause | PHP_CodeSniffer tokenizes PHP, JavaScript and CSS files and detects violations of a defined set of coding standards. | Greg Sherwood |
symfony/console | 3.4.24 | MIT | Symfony Console Component | Fabien Potencier and Symfony Community |
symfony/debug | 4.2.5 | MIT | Symfony Debug Component | Fabien Potencier and Symfony Community |
symfony/polyfill-ctype | 1.11.0 | MIT | Symfony polyfill for ctype functions | Symfony Community and Gert de Pagter |
symfony/polyfill-mbstring | 1.11.0 | MIT | Symfony polyfill for the Mbstring extension | Nicolas Grekas and Symfony Community |
symfony/var-dumper | 3.4.24 | MIT | Symfony mechanism for exploring and dumping PHP variables | Nicolas Grekas and Symfony Community |
theseer/tokenizer | 1.1.0 | BSD-3-Clause | A small library for converting tokenized PHP source code into XML and potentially other formats | Arne Blankerts |
webmozart/assert | 1.4.0 | MIT | Assertions to validate method input/output with nice error messages. | Bernhard Schussek |
wikimedia/assert | 0.2.2 | MIT | Provides runtime assertions | Daniel Kinzler |
wikimedia/at-ease | 1.2.0 | GPL-2.0+ | Safe replacement to @ for suppressing warnings. | Tim Starling and MediaWiki developers |
wikimedia/avro | 1.8.0 | Apache-2.0 | A library for using Apache Avro with PHP. | Michael Glaesemann, Andy Wick, Saleem Shafi, A B, Doug Cutting and Tom White |
wikimedia/base-convert | 1.0.1 | GPL-2.0+ | Convert an arbitrarily-long string from one numeric base to another, optionally zero-padding to a minimum column width. | Brion Vibber and Tyler Romeo |
wikimedia/cdb | 1.4.1 | GPL-2.0+ | Constant Database (CDB) wrapper library for PHP. Provides pure-PHP fallback when dba_* functions are absent. | Daniel Kinzler, Tim Starling, Chad Horohoe and Ori Livneh |
wikimedia/cldr-plural-rule-parser | 1.0.0 | GPL-2.0+ | Evaluates plural rules specified in the CLDR project notation. | Tim Starling and Niklas Laxström |
wikimedia/composer-merge-plugin | 1.4.1 | MIT | Composer plugin to merge multiple composer.json files | Bryan Davis |
wikimedia/html-formatter | 1.0.2 | GPL-2.0-or-later | Performs transformations of HTML by wrapping around libxml2 and working around its countless bugs. | MediaWiki contributors |
wikimedia/ip-set | 1.2.0 | GPL-2.0+ | Efficiently match IP addresses against a set of CIDR specifications. | Brandon Black |
wikimedia/lucene-explain-parser | 1.0.0 | Apache 2.0 | Parsing and pretty-printing Lucene explain data | Stanislav Malyshev and Erik Bernhardson |
wikimedia/object-factory | 1.0.0 | GPL-2.0-or-later | Construct objects from configuration instructions | Bryan Davis |
wikimedia/php-session-serializer | 1.0.6 | GPL-2.0-or-later | Provides methods like PHP's session_encode and session_decode that don't mess with $_SESSION | Brad Jorsch |
wikimedia/purtle | 1.0.7 | GPL-2.0-or-later | Fast streaming RDF serializer | Daniel Kinzler, Stanislav Malyshev, C. Scott Ananian and Thiemo Kreuz |
wikimedia/relpath | 2.1.1 | MIT | Compute a relative filepath between two paths. | Ori Livneh |
wikimedia/remex-html | 1.0.3 | MIT | Fast HTML 5 parser | Tim Starling |
wikimedia/running-stat | 1.2.1 | GPL-2.0+ | PHP implementations of online statistical algorithms | Ori Livneh |
wikimedia/scoped-callback | 1.0.0 | GPL-2.0+ | Class for asserting that a callback happens when a dummy object leaves scope | Aaron Schulz |
wikimedia/testing-access-wrapper | 1.0.0 | GPL-2.0+ | A simple helper class to access non-public elements of a class when testing. | Adam Roses Wight, Brad Jorsch and Gergő Tisza |
wikimedia/textcat | 1.2.0 | LGPL-2.1 | PHP port of the TextCat language guesser utility, see http://odur.let.rug.nl/~vannoord/TextCat/. | Stanislav Malyshev and Trey Jones |
wikimedia/timestamp | 1.0.0 | GPL-2.0+ | Creation, parsing, and conversion of timestamps | Tyler Romeo |
wikimedia/utfnormal | 2.0.0 | GPL-2.0-or-later | Contains Unicode normalization routines, including both pure PHP implementations and automatic use of the 'intl' PHP extension when present | Brion Vibber |
wikimedia/wait-condition-loop | 1.0.1 | GPL-2.0+ | Wait loop that reaches a condition or times out | Aaron Schulz |
wikimedia/wrappedstring | 2.3.0 | MIT | Automatically compact sequentially-outputted strings that share a common prefix / suffix pair. | Timo Tijhof |
wmde/hamcrest-html-matchers | 0.1.1 | LGPL-2.1 | Set of Hamcrest matchers for HTML assertrions | Aleksey Bekh-Ivanov |
zordius/lightncandy | 0.23 | MIT | An extremely fast PHP implementation of handlebars ( http://handlebarsjs.com/ ) and mustache ( http://mustache.github.io/ ). | Zordius Chen |
anchorencode, basepagename, basepagenamee, bidi, canonicalurl, canonicalurle, cascadingsources, defaultsort, displaytitle, ev, evl, evp, evt, evu, expr, filepath, formatdate, formatnum, fullpagename, fullpagenamee, fullurl, fullurle, gender, grammar, if, ifeq, iferror, ifexist, ifexpr, int, language, lc, lcfirst, localurl, localurle, namespace, namespacee, namespacenumber, ns, nse, numberingroup, numberofactiveusers, numberofadmins, numberofarticles, numberofedits, numberoffiles, numberofpages, numberofusers, padleft, padright, pageid, pagename, pagenamee, pagesincategory, pagesize, plural, protectionexpiry, protectionlevel, rel2abs, revisionday, revisionday2, revisionid, revisionmonth, revisionmonth1, revisiontimestamp, revisionuser, revisionyear, rootpagename, rootpagenamee, special, speciale, subjectpagename, subjectpagenamee, subjectspace, subjectspacee, subpagename, subpagenamee, switch, tag, talkpagename, talkpagenamee, talkspace, talkspacee, time, timel, titleparts, uc, ucfirst, urlencode and vlink