August 2014 Commit Log

Number of Commits:
58
Number of Active Developers:
2
westram 2014-08-29 12:35 Rev.: 12799


* describe some enhanced macro techniques:
- howto use selected alignment, tree, species, position (instead of hardcoding these values)
* added a perl-module (ali_dnapro) to support macros with custom dna and corresponding protein alignment
* some changes to global catch introduced in [12798]

144 lines of code changed in 3 files:

westram 2014-08-29 09:57 Rev.: 12798


* globally catch exceptions from macro code
- forward via arb_message
- confess to console
- example
{{{
[Action: 'perl '/home/ralf/.arb_prop/macros/_logged.amc' &']
aw_message: 'Macro execution error: bla (see console for details)'
Macro execution error: 'bla' at /home/ralf/ARB-bilbo/ARB.trunk.default/lib//ARB.pm line 32
CORE::GLOBAL::die('bla') called at /home/ralf/ARB-bilbo/ARB.trunk.default/PERL_SCRIPTS/lib/ali_dnapro.pm line 19
ali_dnapro::get_dnapro_alignments() called at /home/ralf/.arb_prop/macros/_logged.amc line 17
}}}

19 lines of code changed in 1 file:

westram 2014-08-29 09:16 Rev.: 12797


* gb_read_bin only increments counter nearly up to filesize
- set counter to 100% afterwards

2 lines of code changed in 1 file:

westram 2014-08-29 08:42 Rev.: 12796


* test counters for all in DEBUG (makes unittests fail)
* update depends

2 lines of code changed in 2 files:

epruesse 2014-08-28 19:32 Rev.: 12795

remove line leftover from "experiments". :-/

0 lines of code changed in 1 file:

epruesse 2014-08-28 19:01 Rev.: 12794

SECURITY: arb_launcher sockets and socketdir must have mode 0700 and 0600

4 lines of code changed in 1 file:

epruesse 2014-08-28 17:50 Rev.: 12793

handle click on abort while loading database

4 lines of code changed in 1 file:

epruesse 2014-08-28 17:37 Rev.: 12792

show progress while loading database

28 lines of code changed in 3 files:

westram 2014-08-28 15:29 Rev.: 12791


* MODIFY DATABASE FIELD of listed ...
- replace safety questions by toggles in parent window (#179)
* Create missing target fields
* Accept conversion errors
- previously always asked to accept conversion errors
- now really checks whether GB_read_as_string returns written value (i.e. writing "4711" to GB_INT is ok)
- updated help

116 lines of code changed in 4 files:

westram 2014-08-28 14:41 Rev.: 12790


* move/rename figs belonging to DB_QUERY

127 lines of code changed in 11 files:

westram 2014-08-28 12:40 Rev.: 12789


* fix #567
- allow to resort DB when called from macros (even if other clients are open)
- AFAIK that will only cause performance problems in worst case

5 lines of code changed in 1 file:

westram 2014-08-28 12:28 Rev.: 12788


- quote filename when starting editor

2 lines of code changed in 1 file:

westram 2014-08-27 11:21 Rev.: 12783


* publish TESTs for which nm 2.24 fails to export source location

15 lines of code changed in 11 files:

westram 2014-08-26 14:47 Rev.: 12779


- fix gtk compilation

3 lines of code changed in 1 file:

westram 2014-08-26 14:22 Rev.: 12777


* DRYed ali- vs sai-selection-lists

110 lines of code changed in 1 file:

westram 2014-08-26 11:52 Rev.: 12776


* local renames

23 lines of code changed in 2 files:

westram 2014-08-26 11:42 Rev.: 12775


* directly call refresh while setting up SAI selections
- remove duplicated instanciation of DB callback (already done by AW_DB_selection)
- remove now unused SAI selection list update cb

1 lines of code changed in 2 files:

westram 2014-08-26 11:38 Rev.: 12774


* directly call refresh on AW_DB_selection to update weights selection for !ColumnStat

8 lines of code changed in 3 files:

westram 2014-08-26 11:35 Rev.: 12773


* use local CB to refresh GDE weights selection lists

13 lines of code changed in 2 files:

westram 2014-08-26 11:27 Rev.: 12772


* use base AW_DB_selection where sufficient

22 lines of code changed in 4 files:

westram 2014-08-26 10:51 Rev.: 12771


- remove duplicated dependency

1 lines of code changed in 2 files:

westram 2014-08-26 10:44 Rev.: 12770


* q&d impl of an alignment selection button (similar to SAI selection button)
* patch has been tested in gtk
* use in realigner window (testing; only4me)

101 lines of code changed in 4 files:

westram 2014-08-25 12:53 Rev.: 12768


* SAI_sellst_spec only used local

44 lines of code changed in 2 files:

westram 2014-08-25 11:30 Rev.: 12767


- pack .svg + .png into source-tarball

1 lines of code changed in 1 file:

epruesse 2014-08-21 18:37 Rev.: 12766

attempt at building an icon for ARB databases

1079 lines of code changed in 2 files:

epruesse 2014-08-14 21:04 Rev.: 12765

- remove executable flag from xml.[ch]xx

0 lines of code changed in 2 files:

westram 2014-08-14 13:23 Rev.: 12764


* merge [12763] from 'gtk_only' into 'trunk'

23 lines of code changed in 2 files:

westram 2014-08-14 11:41 Rev.: 12761


* comment

2 lines of code changed in 1 file:

westram 2014-08-14 11:33 Rev.: 12760


* renames

4 lines of code changed in 1 file:

westram 2014-08-14 11:26 Rev.: 12759


* remove unused code

0 lines of code changed in 2 files:

westram 2014-08-14 11:23 Rev.: 12758


* remove table-admin (unused)

0 lines of code changed in 5 files:

westram 2014-08-14 11:18 Rev.: 12757


* unify selectionlist creator names
* awt_create_selection_list_on_pt_servers
- remove param 'popup', instead split into two function (button and list) as done for SAIs

119 lines of code changed in 32 files:

westram 2014-08-13 12:33 Rev.: 12754


* reintegrates 'alilink' into 'trunk'
- DRYed ali admin(s)
* adds:
- log:branches/alilink@12708:12753

118 lines of code changed in 26 files:

westram 2014-08-12 08:14 Rev.: 12739


- mark random failure

1 lines of code changed in 1 file:

westram 2014-08-09 11:46 Rev.: 12729


* client playback failed wrong assertion (broken by [12459])

1 lines of code changed in 1 file:

westram 2014-08-09 11:45 Rev.: 12728


- autosize load-box action button

1 lines of code changed in 1 file:

westram 2014-08-08 11:09 Rev.: 12723


* full update from child 'stable' into 'trunk'
* adds or marks as unwanted/already merged:
- log:branches/stable@12378:12560,12564:12692,12694:12716,12719:12722

7 lines of code changed in 1 file:

epruesse 2014-08-08 09:44 Rev.: 12719

merge log:branches/stable:12717,12718 to trunk

11 lines of code changed in 2 files:

epruesse 2014-08-08 09:33 Rev.: 12715

add files for desktop integration

11 lines of code changed in 3 files:

westram 2014-08-08 08:34 Rev.: 12713


* TEST_open_socket
- mark random failure
- double delay

2 lines of code changed in 1 file:

westram 2014-08-08 08:26 Rev.: 12712


* no longer print partition detection (rel [12588])

3 lines of code changed in 1 file:

westram 2014-08-07 17:40 Rev.: 12710


- skip unwanted files from release tarball (fixes #584)

2 lines of code changed in 1 file:

westram 2014-08-07 16:33 Rev.: 12709


* button text expanded in [12689]
- did not fit into button
- use new term everywhere
* changed "master tree selection" layout/treehint

26 lines of code changed in 4 files:

westram 2014-08-07 10:41 Rev.: 12706


* reintegrates 'alilink' into 'trunk'
- minor fixes (messages, rare cases)
- refactored some code
* adds:
- log:branches/alilink@12669:12705

507 lines of code changed in 4 files:

epruesse 2014-08-06 17:41 Rev.: 12695

merge log:stable@12693 (clean fix) into trunk

1 lines of code changed in 1 file:

epruesse 2014-08-06 17:37 Rev.: 12692

fix "DEBIAN := 1 #bla" set $(DEBIAN) to "1 " (ARGH!)

2 lines of code changed in 1 file:

epruesse 2014-08-06 14:41 Rev.: 12689

add "COMPRESSION" to "OPTIMIZE" button/title (to make clearer what this is about)

2 lines of code changed in 1 file:

epruesse 2014-08-06 14:20 Rev.: 12687

merge log:branches/stable@12685 to trunk

3 lines of code changed in 1 file:

westram 2014-08-06 13:05 Rev.: 12681


* [12680] fixed osx build (on jenkins). cleanup.

0 lines of code changed in 1 file:

westram 2014-08-06 12:55 Rev.: 12680


* scan compiler version number from detail AND dump. prefer longer version number.

24 lines of code changed in 1 file:

westram 2014-08-06 12:31 Rev.: 12679


* chomp dumped and detailed version
* dump vars to track down osx failure

13 lines of code changed in 1 file:

westram 2014-08-06 12:14 Rev.: 12678


* applied [attachment:"ticket:582:patch-ARB-arb_compiler_version.pl.diff" patch from Ryan Schmidt] to [12603]
- reverts [12604]

17 lines of code changed in 1 file:

westram 2014-08-04 16:25 Rev.: 12667


* reintegrates 'alilink' into 'trunk'
- fixes #419, #145, #563
* adds:
- log:branches/addtest@12468:12472
- log:branches/alilink@12419:12421,12423:12429,12431:12432,12437:12601,12603:12666
- log:branches/oldrealign@12499,12501,12537,12541,12548,12595,12607,12612,12616,12620,12625,12628,12634,12641

3226 lines of code changed in 16 files:

westram 2014-08-04 13:50 Rev.: 12662


* fixes build of GDE/PHYML20130708 (broken by [12660])

7 lines of code changed in 1 file:

westram 2014-08-04 13:45 Rev.: 12661


* fixes target 'depends' (broken by [12659])

15 lines of code changed in 1 file:

epruesse 2014-08-03 14:14 Rev.: 12660

add some files to make clean

8 lines of code changed in 2 files:

epruesse 2014-08-03 09:15 Rev.: 12659

merge Debian patch disabling tools for which Debian packages exist on
DEBIAN=1 build

7 lines of code changed in 1 file:

epruesse 2014-08-01 10:51 Rev.: 12645

remove reference to AW_label (need that term for gtk)

2 lines of code changed in 2 files:

July 2014 »

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