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Merge branch 'develop' into task/JAL-3337_gradle_tasks_sourceDist_and_help2Website
[jalview.git] / THIRDPARTYLIBS
diff --git a/THIRDPARTYLIBS b/THIRDPARTYLIBS
index 40d0f6c..296ae17 100644 (file)
--- a/THIRDPARTYLIBS
+++ b/THIRDPARTYLIBS
@@ -13,6 +13,8 @@ ext.edu.ucsf.rbvi.strucviz2 includes sources originally developed by Scooter Mor
 
 Licensing information for each library is given below:
 
+j8lib:
+
 JGoogleAnalytics_0.3.jar       APL 2.0 License - http://code.google.com/p/jgoogleanalytics/
 Jmol-14.6.4_2016.10.26.jar     GPL/LGPLv2 http://sourceforge.net/projects/jmol/files/
 VARNAv3-93.jar GPL licenced software by K�vin Darty, Alain Denise and Yann Ponty. http://varna.lri.fr
@@ -38,8 +40,6 @@ miglayout-4.0-swing.jar       BSD http://www.migcalendar.com/miglayout/versions/4.0/li
 min-jaba-client.jar
 regex.jar
 saaj.jar
-spring-core-3.0.5.RELEASE.jar : Apache License: jdas runtime dependencies retrieved via maven - TODO: JAL-3035 remove if no longer needed ?
-spring-web-3.0.5.RELEASE.jar : Apache License: jdas runtime dependencies retrieved via maven - TODO: JAL-3035 remove if no longer needed ?
 vamsas-client.jar
 wsdl4j.jar
 xercesImpl.jar
@@ -51,13 +51,19 @@ quaqua: v.8.0 (latest stable) by Randel S Hofer. LGPL and BSD Modified license:
 
 vaqua5-patch: This is a patched version of VAqua v5 (latest stable) by Alan Snyder et al. GPLv3 with Classpath exception, also includes contributions from Quaqua: http://violetlib.org/vaqua/overview.html - see doc/patching-vaqua.txt for patch details, and http://issues.jalview.org/browse/JAL-2988 for details of the bug that the patch addresses.
 
-lib/htsjdk-1.120-SNAPSHOT.jar: (currently not required for 2.10) built from maven master at https://github.com/samtools/htsjdk MIT License to Broad Institute
+lib/htsjdk-2.12.jar: built from maven master at https://github.com/samtools/htsjdk MIT License to Broad Institute
 
 lib/biojava-core-4.1.0.jar LGPLv2.1 - latest license at https://github.com/biojava/biojava/blob/master/LICENSE
 
 lib/biojava-ontology-4.1.0.jar LGPLv2.1 - latest license at https://github.com/biojava/biojava/blob/master/LICENSE
 
 
+Libraries for Test Suite
+
+utils/classgraph-4.1.6.jar: BSD License - allows recovery of classpath for programmatic construction of a Java command line to launch Jalview
+                      version 4.1.6 downloaded from https://mvnrepository.com/artifact/io.github.classgraph/classgraph/4.1.6
+
+
 Additional dependencies
 
 examples/javascript/deployJava.js : http://java.com/js/deployJava.js
@@ -65,3 +71,33 @@ examples/javascript/jquery*.js : BSD license
 examples/javascript/jshashtable-2.1.js : Apache License
 examples/javascript/facebox-1.3.js : MTI License - http://www.opensource.org/licenses/mit-license.php
 
+
+New in j11lib:
+
+FastInfoset.jar        CDDL Version 1.1 - https://javaee.github.io/metro-fi/LICENSE
+getdown-core.jar       Getdown license - https://github.com/threerings/getdown/blob/master/LICENSE
+groovy-*2.5.7.jar      Apache License, Version 2.0 - http://www.apache.org/licenses/LICENSE-2.0.html
+istack-commons-runtime.jar     CDDL Version 1.1 - https://glassfish.java.net/public/CDDL+GPL_1_1.html
+javax.activation-api-1.2.0.jar CDDL/GPLv2+CE - https://github.com/javaee/activation/blob/master/LICENSE.txt
+javax.annotation-api-1.3.2.jar CDDL + GPLv2 with classpath exception - https://github.com/javaee/javax.annotation/blob/master/LICENSE
+javax.jws-api-1.1.jar  CDDL + GPLv2 with classpath exception - https://glassfish.dev.java.net/nonav/public/CDDL+GPL.html
+javax.servlet-api-4.0.1.jar    CDDL + GPLv2 with classpath exception - https://oss.oracle.com/licenses/CDDL+GPL-1.1
+javax.xml.rpc-api-1.1.2.jar    CDDL + GPLv2 with classpath exception - https://oss.oracle.com/licenses/CDDL+GPL-1.1
+javax.xml.soap-api.jar CDDL + GPLv2 with classpath exception - https://github.com/javaee/javax.xml.soap/blob/master/LICENSE
+jaxb-api-2.3.1.jar     CDDL 1.1 + GPL2 w/ CPE - https://oss.oracle.com/licenses/CDDL+GPL-1.1
+jaxb-runtime-2.3.2.jar Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+jaxws-api.jar  CDDL + GPLv2 with classpath exception - https://github.com/javaee/jax-ws-spec/blob/master/LICENSE.md
+jersey-client-1.19.4.jar       CDDL 1.1 + GPL2 w/ CPE - http://glassfish.java.net/public/CDDL+GPL_1_1.html
+jersey-core-1.19.4.jar CDDL 1.1 + GPL2 w/ CPE - http://glassfish.java.net/public/CDDL+GPL_1_1.html
+jersey-json-1.19.4.jar CDDL 1.1 + GPL2 w/ CPE - http://glassfish.java.net/public/CDDL+GPL_1_1.html
+jsr311-api-1.1.1.jar   CDDL License - http://www.opensource.org/licenses/cddl1.php
+mimepull-1.9.11.jar    Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+policy-2.7.6.jar       Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+slf4j-api-1.7.26.jar   MIT License - https://opensource.org/licenses/mit-license.php
+slf4j-log4j12-1.7.26.jar       MIT License - https://opensource.org/licenses/mit-license.php
+stax-ex-1.8.1.jar      Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+stax2-api-4.2.jar      The BSD License - http://www.opensource.org/licenses/bsd-license.php
+streambuffer-1.5.7.jar Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+txw2-2.3.2.jar Eclipse Distribution License - v 1.0 - http://www.eclipse.org/org/documents/edl-v10.php
+wsdl4j-1.6.3.jar       CPL - http://www.opensource.org/licenses/cpl1.0.txt
+