Directory GDE/

Directory Created:
2000-11-23 10:41
Total Files:
2
Deleted Files:
0
Lines of Code:
145

[root]/GDE
        directory in repo AxML (5 files, 5977 lines)
        directory in repo CLUSTAL (13 files, 4954 lines)
        directory in repo CLUSTALW (33 files, 21348 lines)
        Folder removed from repo CORE (0 files, 0 lines)
        directory in repo FASTDNAML (7 files, 6447 lines)
        directory in repo FASTTREE (3 files, 10124 lines)
        Folder removed from repo HGL_SRC (0 files, 0 lines)
        Folder removed from repo LOOPTOOL (0 files, 0 lines)
        directory in repo MAFFT (1 files, 55 lines)
            Folder removed from repo mafft-7.053-without-extensions (0 files, 0 lines)
                Folder removed from repo core (0 files, 0 lines)
                Folder removed from repo scripts (0 files, 0 lines)
            directory in repo mafft-7.055-with-extensions (4 files, 309 lines)
                directory in repo core (90 files, 75630 lines)
                directory in repo extensions (3 files, 72 lines)
                    directory in repo mxscarna_src (21 files, 6911 lines)
                        directory in repo probconsRNA (20 files, 7594 lines)
                        directory in repo vienna (6 files, 11842 lines)
        Folder removed from repo MOLPHY (0 files, 0 lines)
            Folder removed from repo doc (0 files, 0 lines)
            Folder removed from repo utl (0 files, 0 lines)
        directory in repo MUSCLE (1 files, 38 lines)
            directory in repo src (190 files, 34747 lines)
                directory in repo unused (3 files, 548 lines)
        directory in repo MrBAYES (1 files, 45 lines)
            directory in repo mrbayes_3.2.1 (31 files, 114639 lines)
        directory in repo PHYLIP (66 files, 71352 lines)
            directory in repo doc (42 files, 21478 lines)
        directory in repo PHYML (22 files, 15180 lines)
        directory in repo PHYML20130708 (2 files, 64 lines)
            directory in repo phyml (18 files, 22760 lines)
                Folder removed from repo bin (0 files, 0 lines)
                directory in repo doc (17 files, 24532 lines)
                directory in repo examples (5 files, 1255 lines)
                    directory in repo lg4x (5 files, 142 lines)
                directory in repo src (68 files, 78797 lines)
        directory in repo PROBCONS (1 files, 23 lines)
            directory in repo probcons (17 files, 6323 lines)
        directory in repo RAxML (31 files, 72525 lines)
        directory in repo RAxML8 (5 files, 698 lines)
        directory in repo SATIVA (5 files, 493 lines)
            directory in repo sativa (3 files, 1494 lines)
                directory in repo epac (8 files, 2380 lines)
                    directory in repo ete2 (1 files, 185 lines)
        directory in repo SUPPORT (10 files, 2584 lines)
        directory in repo TREEPUZZLE (6 files, 854 lines)
            Folder removed from repo data (0 files, 0 lines)
            directory in repo doc (3 files, 1653 lines)
            directory in repo src (18 files, 17676 lines)

Lines of Code

GDE/ Lines of Code

Developers

Author Changes Lines of Code Lines per Change
Totals 59 (100.0%) 330 (100.0%) 5.5
westram 44 (74.6%) 253 (76.7%) 5.7
oldcode 1 (1.7%) 49 (14.8%) 49.0
epruesse 3 (5.1%) 13 (3.9%) 4.3
aboeckma 7 (11.9%) 7 (2.1%) 1.0
jobb 1 (1.7%) 4 (1.2%) 4.0
yadhu 1 (1.7%) 3 (0.9%) 3.0
artemov 2 (3.4%) 1 (0.3%) 0.5

Most Recent Commits

westram 2017-08-09 13:59 Rev.: 16223


* reintegrates 'cover' into 'trunk'
- fixes compilation with COVERAGE
* ARB perl module failed to load (since [13739])
* linking executables broken (apparently since [14038])
* adds: log:branches/cover@16213:16222

4 lines of code changed in 1 file:

  • GDE: Makefile (+4)
epruesse 2017-03-22 20:19 Rev.: 15656

Allow skipping individual tool builds

Tools built and distributed with ARB can be skipped if their folder name
is found within ARB_BUILD_SKIP_PKGS.

4 lines of code changed in 1 file:

  • GDE: Makefile (+4)
westram 2016-12-30 12:17 Rev.: 15483


* partial merge from 'warnings' into 'trunk'
- no spam from GDE (filter compiler warnings, do not request vectorizer info)
- remove leftover occurrences of {{{grep -P}}} (harmless for OSX; only used for targets 'tags' and 'ut')
* adds: log:branches/warnings@15469:15470,15472,15474:15475,15479:15480

8 lines of code changed in 1 file:

  • GDE: Makefile (+8 -1)
westram 2015-04-10 13:13 Rev.: 13704


* add config-managers to all GDE windows
- automatically handles any 'arg' defined in .menu files (if argtype != 'filename')
- changed layout (of all 3 gde .figs) to allow to place button for config-manager
- added warnings to gde_menus.hlp (which changes affect configs)

6 lines of code changed in 1 file:

  • GDE: README (+6 -1)
westram 2014-10-17 11:59 Rev.: 13069


* reintegrates 'sativa' into 'trunk'
- adds experimental version of SATIVA
* adds:
- log:branches/sativa@12886:13068

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
westram 2014-08-04 13:45 Rev.: 12661


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

15 lines of code changed in 1 file:

  • GDE: Makefile (+15 -11)
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:

  • GDE: Makefile (+7 -7)
epruesse 2014-07-15 16:25 Rev.: 12508

initial add of RAxML 8

2 lines of code changed in 1 file:

  • GDE: Makefile (+2)
westram 2014-03-19 13:00 Rev.: 11821


* prepare !MrBayes-32bit compilation
- pass down ARB_64 into submakefiles
- generate dependencies in !MrBayes Makefile (fixes missing dependency from config.h)
- pass ARB_64 and DARWIN to gcc and use them to define flags in config.h:
* ARB_64 -> SSE_ENABLED + _64BIT
* ARB_DARWIN -> MAC_VERSION (UNIX_VERSION otherwise)
* let 32bit-compile fail for now

3 lines of code changed in 1 file:

  • GDE: Makefile (+3 -3)
westram 2014-03-18 15:21 Rev.: 11805


* export 'LINUX' and 'REDHAT' to submakefiles
* use ifeq instead of ifdef (completes [11804])

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2014-01-10 14:01 Rev.: 11461


* get rid of boring warnings in PROBCONS, MrBAYES and FASTTREE

5 lines of code changed in 1 file:

  • GDE: Makefile (+5)
westram 2013-08-23 12:30 Rev.: 10479


* async GDE build
- pass down make flags (esp. -j) into subdirectories
- enclose subbuilds in $(SEP) as in main ARB Makefile (showing enter/exit timestamp for each subdir)
- mafft: build/clean core+extensions async
- mrbayes:
* define proper rules to make target 'mb' work with -j (no idea why that is needed)
* do not clear MAKEFLAGS in caller Makefile
- speedup for 'build' (on 8 cores)
* after GDE clean: 60s -> 30s
* after MrBAYES clean: 44s -> 17s

7 lines of code changed in 1 file:

  • GDE: Makefile (+7 -4)
aboeckma 2013-08-15 11:48 Rev.: 10456

Added rudimentary fasttree menu (need to know which options to use)

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
aboeckma 2013-08-07 13:47 Rev.: 10416

Added mr bayes (no menu yet)

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
aboeckma 2013-08-06 10:41 Rev.: 10408

Moved PROBCONS to NO_DEPENDS section.

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
aboeckma 2013-08-02 10:15 Rev.: 10406

svn ignore probcons files

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
aboeckma 2013-08-01 14:18 Rev.: 10393

build muscle as part of gde

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
westram 2013-07-23 16:53 Rev.: 10347


* moved MAFFT to dependency-free GDE targets (fixes target 'depends')

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
aboeckma 2013-07-23 13:04 Rev.: 10343

Added mafft

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
westram 2013-07-19 16:53 Rev.: 10312


- allow subdirs w/o dependencies in GDE

11 lines of code changed in 1 file:

  • GDE: Makefile (+11 -8)
aboeckma 2013-07-19 14:02 Rev.: 10307

added most recent version of phyml

1 lines of code changed in 1 file:

  • GDE: Makefile (+1)
westram 2013-02-13 12:24 Rev.: 9575


- effect of [9574] (comments only)

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2013-02-13 12:23 Rev.: 9574


- show from where dependencies are updated

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2012-04-21 11:38 Rev.: 8641


* fixed warnings
- possible uninitialized variables
- DEBUG-mode variables
- ISLAND_HOPPING/Makefile: disabled warnings (i wont touch that module, except for removal)

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2011-11-10 10:30 Rev.: 8205


merge from stable_5.0 [8203]
* removed molphy (protml)

0 lines of code changed in 1 file:

  • GDE: Makefile (-3)
westram 2011-04-16 13:35 Rev.: 7428


* 'make clean up' generated wrong dependencies (merged from dev [7427])

5 lines of code changed in 1 file:

  • GDE: Makefile (+5 -2)
westram 2011-02-09 09:23 Rev.: 7131


- removed leftover doc-refs to xview

0 lines of code changed in 1 file:

  • GDE: Makefile (-10)
westram 2010-09-09 21:40 Rev.: 6816


* unit-test improvements (merged [6757] [6758] [6759] [6760] [6761] [6762] [6764] [6791] [6795] [6798] [6799] [6800] [6801] [6802] [6809] [6810])
* moved file compare to test_unit.h
* fake report for skipped tests
* added templates for char compare
* perform minihexdump
* flush output
* added
- {{{TEST_ASSERT_FILES_EQUAL__BROKEN}}}
- {{{TEST_ASSERT_ZERO_OR_SHOW_ERRNO}}}
* create a fake.patch if there are no changes
* all code affecting assertions in UNIT_TESTS-mode went to test_global.h
- overwrites arb_assert()
* undefine UNIT_TESTS for GDE submakefiles (foreign code there)
* arb_test::FlushedOutput::errorf raises assertion itself
* test against I/O errors
* moved test code
- into class StaticCode: class w/o functionality, only holds global static code.
- assertfailmsg -> GlobalTestData
* refactored message printing
* unit-tester switches to run directory itself
- eliminates path hack for valgrind
* control leak-check by variable
* added global test-environment (does nothing yet)

9 lines of code changed in 1 file:

  • GDE: Makefile (+9 -5)
westram 2009-04-29 12:20 Rev.: 5872


* Changed variable transfer to sub-makefiles
- most variables are now exported via environment (using SOURCE_TOOLS/export2sub or AISC/export2sub)
- only variables that contain different values for different sub-makefile-calls are passed by cl (e.g. cflags, MAIN)
- changed flavour of exported variables (recursively expanded -> simply expanded variables). Please use VAR := VALUE in Makefiles (not VAR = VALUE). See http://www.gnu.org/software/make/manual/html_node/Flavors.html#Flavors for details
* removed/fixed all undefined variables in Makefiles (using 'make --warn-undefined-variables')
* changed names of compile-logs generated in GDE subdir
* added target 'xmlin' (broken, print warning)

2 lines of code changed in 1 file:

  • GDE: Makefile (+2 -22)
westram 2009-04-19 18:36 Rev.: 5829


* included some patches for OSX (thx to Matt Cottrell)
* added global switch LINK_STATIC
* added script which checks for tools needed to compile ARB
* typo CCPLIB->CPPLIB

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2008-03-11 19:10 Rev.: 5226

- removed CORE (last part using xview)

10 lines of code changed in 1 file:

  • GDE: Makefile (+10 -19)
westram 2008-03-03 17:42 Rev.: 5192

- renamed MODULE defines (_ARB -> IN_ARB)

1 lines of code changed in 1 file:

  • GDE: Makefile (+1 -1)
westram 2008-03-02 16:09 Rev.: 5180

- fixed warning suppression for GDE subdirs

30 lines of code changed in 1 file:

  • GDE: Makefile (+30 -15)
westram 2008-03-01 11:13 Rev.: 5167

- removed marker line from 'clean'

0 lines of code changed in 1 file:

  • GDE: Makefile (-1)
westram 2008-03-01 09:27 Rev.: 5165

- log wasn't removed in case of error

2 lines of code changed in 1 file:

  • GDE: Makefile (+2 -2)
westram 2007-05-30 14:42 Rev.: 4636

- forward 'clean' to subdirs

10 lines of code changed in 1 file:

  • GDE: Makefile (+10 -1)
westram 2007-05-23 16:51 Rev.: 4603

- new target 'proto' (makes proto in subdir CORE)

3 lines of code changed in 1 file:

  • GDE: Makefile (+3)
westram 2006-06-26 09:52 Rev.: 4080

*** empty log message ***

6 lines of code changed in 1 file:

  • GDE: README (+6 -1)
westram 2006-06-26 09:37 Rev.: 4077

*** empty log message ***

5 lines of code changed in 1 file:

  • GDE: README (new 5)
westram 2006-06-23 12:36 Rev.: 4074

- calls PHYML submakefile

4 lines of code changed in 1 file:

  • GDE: Makefile (+4 -1)

(18 more)

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