jalview

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Commits this week: 4
Total Committers: 73
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Commits this week: 4

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Monday 15 Aug
12:29 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4059 update Jmol and JSmol to 15.2.69 - revised Jalview classes interating with Jmol API to handle double precision structure data

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    /j11lib/Jmol-15.2.69-NOLOG4J.jar
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    /j11lib/Jmol-NO_LOG4J-14.31.53.jar
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    /src/jalview/ext/jmol/JalviewJmolBinding.java
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    /src/jalview/ext/jmol/JmolParser.java
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    /src/mc_view/AppletPDBCanvas.java
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    /src/mc_view/Atom.java
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    /utils/jalviewjs/libjs/jmol-app.zip
12:03 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-3059 upgrade Jmol from 14.31.53 to 15.2.69 (double precision) - required patches to structure data related classes and Jmol API implementors for float->double

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    /src/jalview/ext/jmol/JalviewJmolBinding.java
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    /src/jalview/ext/jmol/JmolParser.java
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    /src/mc_view/AppletPDBCanvas.java
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    /src/mc_view/Atom.java
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    /src/mc_view/MCMatrix.java
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    /src/mc_view/PDBCanvas.java
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    /test/jalview/ext/jmol/JmolViewerTest.java
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Wednesday 10 Aug
10:30 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-3059 bump version and Upgrade swingjs to 3.3.1

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10:30 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4059 bump version and Upgrade swingjs to 3.3.1

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Monday 08 Aug
6:49 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'develop' into releases/Release_2_11_2_Branch

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6:48 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4046 release on 9th August 2022

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    /help/markdown/releases/release-2_11_2_4.md
6:31 pm

Jim Procter

6:28 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'develop' into releases/Release_2_11_2_Branch

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6:28 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4046 JAL-3993 imports reformatting

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    /src/jalview/gui/SliderPanel.java
6:27 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4046 JAL-3993 patch for 2.11.2.4 release

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    /src/jalview/gui/SliderPanel.java
6:09 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4046 release notes for JAL-3991

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    /help/markdown/releases/release-2_11_2_4.md
6:01 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'task/JAL-3991_check_actual_JAVA_VERSION_against_build_properties_in_application_startup' into develop

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    /src/jalview/bin/Cache.java
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    /src/jalview/gui/Desktop.java
5:54 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'develop' into releases/Release_2_11_2_Branch

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5:50 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4046 release notes for JAL-4014 - gecos colourschemes

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    /help/markdown/releases/release-2_11_2_4.md
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5:16 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'improvement/JAL-4014_gecos_colour_schemes' into develop

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5:07 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'develop' into releases/Release_2_11_2_Branch

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5:06 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4056 documented in release notes for JAL-4043

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4:46 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'patch/JAL-4036_uniprot_fts_legacy_endpoint' into develop

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    /resources/lang/Messages.properties
4:42 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'develop' into releases/Release_2_11_2_Branch

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4:42 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4043 what’s new, updated help images and release notes for JAL-4034 (3d beacons button)

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4:17 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4034 show the loading spinner when switching between tabs

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    /src/jalview/gui/StructureChooser.java
2:47 pm

Jim Procter <j.procter@dundee.ac.uk>

Merge branch 'features/JAL-4034_improve_3dbeacons_button_and_ux' into develop

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Monday 01 Aug
11:32 am

Ben Soares

JAL-4056 fixed tl;dr section of doc/building.md

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    /doc/building.md
Friday 29 Jul
11:36 am

Jim Procter <j.procter@dundee.ac.uk>

JAL-4055 quick patch to see how Jalview looks as a free-floating multiwindowed app rather than a Desktop contained app

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    /src/jalview/gui/Desktop.java
Thursday 28 Jul
6:05 pm

Jim Procter <j.procter@dundee.ac.uk>

JAL-4048 feature group filter

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    /src/jalview/viewmodel/seqfeatures/IdColumns.java
Tuesday 26 Jul
6:01 pm

Ben Soares

JAL-4036 Fixed the virus_host_id query field

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    /resources/fts/uniprot_data_columns-2022.txt
6:01 pm

Ben Soares

JAL-4036 Added text to help about different number and date range acceptable formats

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    /help/help/html/features/uniprotsequencefetcher.html
Monday 25 Jul
5:09 pm

Ben Soares

JAL-4036 updated help about new UniProt API

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11:00 am

Ben Soares

JAL-4036 moved a comment block

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    /src/jalview/fts/service/uniprot/UniProtFTSRestClient.java
10:57 am

Ben Soares

JAL-4034 button looks better also on other OSes with the 0 vertical insets

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