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JAL-2325 JAL-1878 update minimum versions of JRE for running/installing on windows and OSX

JAL-2325 JAL-2273 update vms bound to different installers

JAL-2177 Jmol update from: Jmol-14.2.14_2015.06.11 to Jmol-14.6.4_2016.10.26

  1. … 18 more files in changeset.
JAL-2089 patch broken merge to master for Release 2.10.0b1

  1. … 887 more files in changeset.
JAL-2089 Merge branch releases/Release_2_10_Branch to master

  1. … 403 more files in changeset.
JAL-2030 - add servlet-api-3.1.jar to installAnywhere build

JAL-2074 reinstate upgrade to groovy 2.8.4-indy

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JAL-2074 backed out groovy upgrade - back to 1.8.2

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JAL-2074 updated groovy-all to 2.4.6-indy

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Merge branch 'develop' into features/JAL-653_JAL-1766_htslib_refseqsupport

  1. … 8 more files in changeset.
JAL-1894 update year/version in copyright

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JAL-1612 JAL-1439 JAL-1845 OSX Installers set Xdock:name=Jalview and Xdock:icon=<install path>/..icn file in launchAnywhere

JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

  1. … 894 more files in changeset.
JAL-1645 licencing for new files in test and utils

  1. … 80 more files in changeset.
JAL-1844 adding more missing jars - jersey, other json stuff, jsr311 and also jetty (for JAL-1575 JAL-1725)

fix for JAL-1844 add jersey-core,json,client-1.19 to install anywhere config

JAL-1807 merge from JAL-1759jmolUpdate

  1. … 57 more files in changeset.
JAL-1759 merge from develop

  1. … 178 more files in changeset.
JAL-1759 updated Jmol version in nbproject, install anywhere, THIRDPARTYLIBS, (but not yet appletParameters.html)

  1. … 2 more files in changeset.
JAL-892 jnlp, installAnywhere, build, licence references updated to 3.93

  1. … 2 more files in changeset.
JAL-1766 update HTSJDK to Version 1.133

  1. … 3 more files in changeset.
JAL-1766 added a snapshot build of the htsjdk

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Merge branch 'bug/JAL-1643_File-chooser-improvement' into develop



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JAL-1643 added quaqua filechooser and jni libraries to the InstallAnywhere distribution

Merge: 497958b 68dcaa7 (fake synthesised by jbp)

Merge branch 'develop' into JAL-1483_29dev













  1. … 171 more files in changeset.
merge commit

JAL-1602 tweak VM inclusion options

JAL-1602 typo in jsonsimple jar

JAL-1602 add missing jars to install

JAL-1602 upgrade to InstallAnywhere 2014 J17 runtimes