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jim procter <jprocter@compbio.dundee.ac.uk> in jalview

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450 commits
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  • First commit: 12 February 2012
  • Last commit: 26 February 2014
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Monday 19 Oct 2020
11:59 am

Jim Procter

not related to JAL-3765 ! Actually related to JAL-3675!

not related to JAL-3765 ! Actually related to JAL-3675!

Friday 22 May 2020
11:37 am

Jim Procter

relevant issue is JAL-3626

relevant issue is JAL-3626

Thursday 09 Apr 2020
2:34 pm

Ben Soares

Would be nicer. Currently the getdown-launcher is agnostic of which CHANNEL the Jalview version it's in was created with. This seemed like a quick way to achieve almost the same, but longer term a ...

Would be nicer. Currently the getdown-launcher is agnostic of which CHANNEL the Jalview version it's in was created with.
This seemed like a quick way to achieve almost the same, but longer term a getdown created visibile indicator would be ideal. I'll create an issue.

12:07 pm

Jim Procter

Hi Ben Soares - maybe nicer to have these generated by the getdown launcher in the future ? Worth an issue perhaps ?

Hi Ben Soares - maybe nicer to have these generated by the getdown launcher in the future ? Worth an issue perhaps ?

Wednesday 05 Feb 2020
11:50 am

Jim Procter

Ben Soares reported JAL-3514 about this build

Ben Soares reported JAL-3514 about this build

Friday 01 Feb 2019
2:23 pm

Mungo Carstairs

why are loops in removeAlreadyRetrievedSeqs now backwards?

why are loops in removeAlreadyRetrievedSeqs now backwards?

Wednesday 26 Feb 2014
5:23 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1226' into develop

Options
5:23 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1226' into Release_2_8_1_Branch_i18n

Options
5:22 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1226' into Release_2_8_1_Branch

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5:22 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

fix for JAL-1226

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    • +16
    /src/jalview/gui/Finder.java
4:21 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-686' into Release_2_8_1_Branch_i18n

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4:20 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-686' into develop

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    • +23
    /src/jalview/io/FastaFile.java
4:20 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-686' into Release_2_8_1_Branch

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4:19 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1457 refactoring to explore why '-' appear in annotation rows (see AlignmentAnnotation.padGaps)

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    • -23
    • +19
    /src/jalview/io/FastaFile.java
4:14 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

fix for JAL-686 - don't trim spaces before creating annotation

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    • -4
    • +4
    /src/jalview/io/FastaFile.java
Tuesday 25 Feb 2014
4:50 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'Release_2_8_1_Branch' into Release_2_8_1_Branch_i18n

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4:49 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1454_patch' into develop

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4:49 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1454_patch' into Release_2_8_1_Branch

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4:48 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1355 typo in key

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    • -1
    • +1
    /src/jalview/jbgui/GPCAPanel.java
4:44 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1454_patch' into Release_2_8_1_Branch

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4:44 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1454 catch exceptions during calculation and report any warnings in the PCA 'Output values...' dump.

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    • +20
    /src/jalview/analysis/PCA.java
4:43 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1454 increase max for tqli iterations and throw exception rather than call System.exit()

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    • -10
    • +14
    /src/jalview/math/Matrix.java
Friday 21 Feb 2014
4:28 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1364_patch' into develop

Options
4:28 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'JAL-1364_patch' into Release_2_8_1_Branch

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4:27 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

patch for JAL-1449 - continuance of JAL-1364 - check bounds of gapMap - not the VIENNA results

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    • -2
    • +6
    /src/jalview/ws/jws2/RNAalifoldClient.java
3:08 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'Release_2_8_1_Branch' into Release_2_8_1_Branch_i18n

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3:07 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'pathc_JAL-1354' into develop

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    • -1
    • +1
    /src/jalview/jbgui/GAlignFrame.java
3:07 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

Merge branch 'pathc_JAL-1354' into Release_2_8_1_Branch

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3:06 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1448 reinstate non-locale sensitive code for reading/writing last read date from RSS and Jalview preferences

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    • -2
    • +3
    /src/jalview/bin/Cache.java
    • -1
    • +1
    /src/jalview/gui/BlogReader.java
2:44 pm

Jim Procter <jprocter@compbio.dundee.ac.uk>

JAL-1354 typo

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    • -1
    • +1
    /src/jalview/jbgui/GAlignFrame.java