jalview/utils

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Friday 01 Nov 2019
3:21 pm

Ben Soares

JAL-3474 removed all .cvsignore files stored in the repo

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    ./.cvsignore
  2. … 22 more files in changeset.
Tuesday 27 Aug 2019
10:20 pm

Ben Soares

JAL-3210 Barebones gradle/buildship/eclipse. See README

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    ./.cvsignore
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    ./Jalview.iap_xml
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    ./README_IA
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    ./align.gif
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    ./bartonGroup.gif
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    ./jalview.gif
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    ./jalview_buildinstaller.xml
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    ./jalview_fw.png
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    ./mac_logo.icns
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Friday 29 Mar 2019
11:05 am

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-3140 InstallAnywhere updated to intervalstore-v1.0.jar

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    ./Jalview.iap_xml
9:54 am

Jim Procter

JAL-3111 Disable the pubapplet target in build.xml so cruisecontrol build can complete

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    ./Jalview.iap_xml
  2. … 1 more file in changeset.
Thursday 28 Mar 2019
5:34 pm

Jim Procter

JAL-3111 biojava dependencies

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    ./Jalview.iap_xml
5:20 pm

Jim Procter

JAL-3111 fix libquagua dependency paths - needs to be checked on OSX InstallAnywhere

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    ./Jalview.iap_xml
5:20 pm

Jim Procter

JAL-3111 fix jabaws dependency name in IA config

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    ./Jalview.iap_xml
4:59 pm

Jim Procter

JAL-3111 intervalstore library on IA classpath

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    ./Jalview.iap_xml
3:55 pm

Jim Procter

JAL-3111 typo in IA config

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    ./Jalview.iap_xml
3:40 pm

Jim Procter

JAL-3111 update InstallAnywhere dependencies for changed libraries

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    ./Jalview.iap_xml
Wednesday 12 Sep 2018
12:13 pm

Jim Procter

Friday 07 Sep 2018
2:51 pm

Jim Procter

JAL-2988 JAL-2968 renamed patched VAqua5 to VAqua5-patch.jar and documented patch along with instructions for rebuilding the jar

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    ./Jalview.iap_xml
  2. … 5 more files in changeset.
Wednesday 05 Sep 2018
1:57 pm

Jim Procter

JAL-3101 increase default heap size in IA and JNLP generation, and generate a jalview_256MB.jnlp file for backwards compatibility

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    ./Jalview.iap_xml
  2. … 1 more file in changeset.
11:06 am

Jim Procter

JAL-2988 update InstallAnywhere install dependencies for VAqua5

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    ./Jalview.iap_xml
9:01 am

Jim Procter

JAL-3065 - amended commit 4906697ab6e5a79fbce3baae89f7f64178c9a739 to exclude .settings/..groovy Added notes to the instructions, also adjusted the jalviewDesktopRunner test to lookup OS and use ';' or ':' accordingly. All the CommandLineOperations tests failed on my (hastily set up) linux box, so I'm committing and will test on MacOS too.

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    ./README_IA
  2. … 3 more files in changeset.
Tuesday 04 Sep 2018
4:17 pm

Ben Soares

Added notes to the instructions, also adjusted the jalviewDesktopRunner test to lookup OS and use ';' or ':' accordingly. All the CommandLineOperations tests failed on my (hastily set up) linux box, so I'm committing and will test on MacOS too.

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    ./README_IA
  2. … 4 more files in changeset.
Thursday 26 Jul 2018
11:36 am

Jim Procter

should really explain what path to classes is as well as path to lib here

should really explain what path to classes is as well as path to lib here

11:00 am

Jim Procter

have you checked this works on Windows ? If it doesn't we should provide an alternative commandline

have you checked this works on Windows ? If it doesn't we should provide an alternative commandline

10:31 am

Jim Procter

JAL-3065
JAL-3065
Tuesday 17 Jul 2018
12:17 pm

Ben Soares

JAL-3065

Change in all repo documentation advising launching Jalview with the

-Djava.ext.dirs=LIB

option to now use

-classpath="LIB/*:..."

instead. Using the -Djava.ext.dirs= option masks the JRE's own ext dir

which contains the sunjce packages. This manifests as cipher problems

when accessing https resources (in particular https://www.ebi.ac.uk/...

when searching for PDB structures, activated when choosing Sequence->"3D

Structure Data...")

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    ./README_IA
  2. … 4 more files in changeset.
Wednesday 30 May 2018
12:23 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

Update spike branch to latest (HMMSearch file chooser arg)

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    ./Jalview.iap_xml
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    ./jalview_buildinstaller.xml
  3. … 52 more files in changeset.
Friday 11 May 2018
12:29 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-2629 update spike branch to latest

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    ./Jalview.iap_xml
  2. … 64 more files in changeset.
Wednesday 09 May 2018
8:46 pm

Jim Procter

JAL-2931 patch IA paths for new build box

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    ./Jalview.iap_xml
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    ./jalview_buildinstaller.xml
Friday 04 May 2018
1:55 pm

Jim Procter

JAL-2976 typo in installAnywhere build for VAqua dependency

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    ./Jalview.iap_xml
Wednesday 02 May 2018
3:41 pm

Jim Procter

JAL-2976 Vaqua(4) as a dependency

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    ./Jalview.iap_xml
  2. … 3 more files in changeset.
Wednesday 22 Nov 2017
3:36 pm

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-2069 spike updated with latest (FeatureTypeSettings)

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    ./Jalview.iap_xml
  2. … 61 more files in changeset.
Monday 20 Nov 2017
4:17 pm

Jim Procter

JAL-2698 only allow InstallAnywhere launches with version 1.8.* of java - java 9 JVM args not yet working for 2.10.3

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    ./Jalview.iap_xml
2:44 pm

Jim Procter

JAL-2698 patch path for InstallAnywhere build. Webstart and source builds unchanged

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    ./Jalview.iap_xml
Tuesday 03 Oct 2017
11:25 am

gmungoc <g.m.carstairs@dundee.ac.uk>

JAL-2738 copy to spikes/mungo

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    ./Jalview.iap_xml
  2. … 568 more files in changeset.
Tuesday 05 Sep 2017
8:08 am

Jim Procter

JAL-2675 update destination jar name of min-jabaws-client to 2.2

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    ./Jalview.iap_xml