Directory TREEGEN/

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westram 2023-08-05 12:40 Rev.: 19446

* introduce {{{onlyC_flags}}}
- flags used for C compilation only.
- similar to {{{cxxflags}}} (references added).
- pass down onlyC_flags into AxML, CLUSTAL, CLUSTALW, FASTDNAML, FASTTREE, GL, MrBAYES, PHYLIP, PHYML*, RAxML, SINA(unused), SOURCE_TOOLS, SUPPORT, TOOLS, TREEGEN + TREEPUZZLE.
- set flags to {{{-Werror-implicit-function-declaration}}}
* error is only effective in a small part of these modules.
* TODO: need to activate warnings -> will activate the error as well.

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2021-09-15 12:37 Rev.: 18724

* directly use {{{OBJECTS}}}.

3 lines of code changed in 1 file:

• TREEGEN: Makefile (+3 -5)

westram 2021-09-15 12:31 Rev.: 18723

* remove .c rules.
* add .c suffix (in SOURCE_TOOLS).

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -4)

westram 2021-09-15 12:28 Rev.: 18722

* select units using {{{wildcard}}}.

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2017-11-28 18:22 Rev.: 16766

* reintegrates 'gcc' into 'trunk'
- mostly cosmetics changes
* adds: log:branches/gcc@16655,16741:16743,16752:16765

116 lines of code changed in 11 files:

• TREEGEN: base.c (+6 -12), defines.c (+6 -12), frand.c (+6 -12), frand.h (+1 -2), readcfg.c (+22 -44), readcfg.h (+1 -2), rns.c (+53 -106), rns.h (+1 -2), simcfg.c (+10 -20), spreadin.c (+9 -18), spreadin.h (+1 -2)

westram 2016-12-30 12:31 Rev.: 15484

* reintegrates 'warnings' into 'trunk'
- fixes compiler warnings (gcc 5.x)
* adds: log:branches/warnings@15468,15471,15473,15477,15481:15483

3 lines of code changed in 1 file:

• TREEGEN: rns.c (+3 -3)

westram 2015-01-23 14:19 Rev.: 13443

* reintegrates 'vectorize' into 'trunk'
- adds vectorization check for gcc 4.9.x / NDEBUG compile
* adds:
- log:branches/vectorize@13428:13442

2 lines of code changed in 1 file:

• TREEGEN: Makefile (+2 -2)

westram 2013-10-31 14:10 Rev.: 10996

* use cflags before cxxflags

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2013-10-30 16:04 Rev.: 10975

* fixed wrong include variables (CC-CXX-mix). Harmless since includes do not differ atm

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2013-10-30 15:58 Rev.: 10974

* renamed include variables

2 lines of code changed in 1 file:

• TREEGEN: Makefile (+2 -2)

westram 2013-10-29 12:55 Rev.: 10956

* made A_CC and A_CXX consistent
- A_CXX previously contained cxxflags
- cxxflags are now passed down and used separately

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2013-10-29 12:23 Rev.: 10955

- renamed
* ACC -> A_CC
* CPP -> A_CXX (misleading atm, since it contains c++flags)

2 lines of code changed in 1 file:

• TREEGEN: Makefile (+2 -2)

westram 2013-10-29 11:43 Rev.: 10954

- document mechanism used by ARB to export variables to submakefiles
- document most important variables

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

epruesse 2013-04-13 18:23 Rev.: 9899

pass down argc/argv to AW_root::AW_root (for GTK)
GTK will pick its parameters (e.g. --g-fatal-warnings) from argv and
remove them, hence argv must not be const and AW_root() should
be called before command line parsing (if possible).

1 lines of code changed in 1 file:

• TREEGEN: sim.c (+1 -1)

westram 2013-02-13 12:24 Rev.: 9575

- effect of [9574] (comments only)

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2013-02-09 11:16 Rev.: 9516

- reintegrated branch 'cxx11'

8 lines of code changed in 1 file:

• TREEGEN: Makefile (+8)

westram 2011-11-29 09:33 Rev.: 8249

* wrap main for untested (but testable) units
- still untestable
* ptpan (wont change in this branch)
* GENOM (cyclic dependency with GENOM_IMPORT due to Location)
* fix missing lib dependencies
- DIST -> SL/NDS
- STAT -> SL/ITEMS
- AW_NAME -> libAWT (instead of libWINDOW)

1 lines of code changed in 1 file:

• TREEGEN: sim.c (+1 -2)

westram 2011-08-08 00:06 Rev.: 7812

merge from dev [7751] [7752]
* updated many old-style typedefs (typedef struct/enum)

3 lines of code changed in 1 file:

• TREEGEN: base.h (+3 -4)

westram 2011-08-08 00:01 Rev.: 7811

merge from dev [7748] [7749] [7750]
* comments (C->C++ style)
* fixed umlauts in TREEGEN

166 lines of code changed in 14 files:

• TREEGEN: base.c (+6 -9), base.h (+2 -2), defines.c (-18), defines.h (+6 -9), frand.c (+3 -27), frand.h (+8 -8), readcfg.c (+20 -38), readcfg.h (+12 -12), rns.c (+81 -135), rns.h (+13 -17), sim.c (-3), simcfg.c (+4 -18), spreadin.c (+1 -10), spreadin.h (+10 -10)

westram 2010-10-25 17:10 Rev.: 7044

* fixed include wrappers (merges [7006] [7007])
- use gcc-style include-wrappers
- use same convention for local wrappers in TREEGEN as rest of ARB

23 lines of code changed in 8 files:

• TREEGEN: base.h (+3 -3), defines.h (+3 -4), frand.h (+3 -3), readcfg.h (+3 -3), rns.h (+5 -5), sim.c (-6), simcfg.h (+3 -3), spreadin.h (+3 -3)

westram 2010-09-18 16:20 Rev.: 6866

* compiler-messages (merges [6848] [6849] [6850] [6851] [6853] [6855] [6856] [6860] from refactor)
- errors get listed before warnings
- pipe all compilations through postcompile filter
- optionally filter warnings and/or stop at 1st error (controllable by POST_COMPILE in ARB Makefile)
- no warnings for ptpan (too many; version in trunk is outdated)

2 lines of code changed in 1 file:

• TREEGEN: Makefile (+2 -2)

westram 2010-02-17 09:30 Rev.: 6448

- added library dependency declarations

3 lines of code changed in 1 file:

• TREEGEN: needs_libs (new 3)

westram 2010-01-27 09:48 Rev.: 6385

- removed trailing whitespace

15 lines of code changed in 7 files:

• TREEGEN: base.h (+2 -2), defines.h (+3 -3), frand.h (+2 -2), readcfg.h (+2 -2), rns.h (+2 -2), simcfg.h (+2 -2), spreadin.h (+2 -2)

westram 2010-01-27 09:08 Rev.: 6383

- removed void

9 lines of code changed in 6 files:

• TREEGEN: base.c (+1 -1), base.h (+1 -1), frand.c (+2 -2), frand.h (+1 -1), rns.c (+2 -2), rns.h (+2 -2)

westram 2010-01-27 08:05 Rev.: 6381

- fixed includes
- added MBI headers
- removed unused files

2 lines of code changed in 4 files:

• TREEGEN: frand.c (-1), rns.h (-3), sim.c (-6), simcfg.c (+2 -2)

westram 2010-01-21 16:49 Rev.: 6366

* fixed whitespace (scripted)

4 lines of code changed in 4 files:

• TREEGEN: base.h (+1 -1), defines.h (+1 -1), frand.c (+1 -1), rns.c (+1 -1)

westram 2010-01-13 14:41 Rev.: 6347

Moved a lot of dead code to where it belongs: into the depths of SVN.
I didn't care much: If there was no obvious reason (e.g. some coment explaining why it's still there), it has been deleted

11 lines of code changed in 3 files:

• TREEGEN: rns.c (+11 -77), simcfg.c (-2), spreadin.c (-3)

westram 2009-08-14 15:29 Rev.: 6141

* spellchecked all (phew)

1 lines of code changed in 1 file:

• TREEGEN: frand.h (+1 -1)

westram 2008-03-11 19:07 Rev.: 5225

- changed names of linker commands

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2008-02-28 11:18 Rev.: 5129

- depends updated

8 lines of code changed in 1 file:

• TREEGEN: Makefile (+8)

westram 2008-02-28 11:15 Rev.: 5128

- removed my own strange defines

36 lines of code changed in 6 files:

• TREEGEN: base.h (+6 -2), frand.h (+6 -2), readcfg.h (+6 -2), rns.h (+6 -2), simcfg.h (+6 -2), spreadin.h (+6 -2)

westram 2008-02-28 11:15 Rev.: 5127

- __ATTR__XXX instead of __attribute__
- removed my own strange defines

12 lines of code changed in 1 file:

• TREEGEN: defines.h (+12 -16)

westram 2007-05-30 14:34 Rev.: 4634

- proper clean (avoid errors if already cleaned)

1 lines of code changed in 1 file:

• TREEGEN: Makefile (+1 -1)

westram 2006-06-14 13:07 Rev.: 4043

- includes fixed (make depends had problems with)

25 lines of code changed in 13 files:

• TREEGEN: base.c (+1 -4), base.h (+1 -1), defines.c (+2 -7), defines.h (+1 -4), frand.c (+3 -10), frand.h (+1 -1), readcfg.c (+3 -9), readcfg.h (+1 -1), rns.h (+4 -4), simcfg.c (+5 -16), simcfg.h (+1 -1), spreadin.c (+1 -4), spreadin.h (+1 -1)

westram 2006-06-07 16:11 Rev.: 4027

- updated depends

15 lines of code changed in 1 file:

• TREEGEN: Makefile (+15)

westram 2006-01-27 15:06 Rev.: 3998

- depends updated

0 lines of code changed in 1 file:

• TREEGEN: Makefile (-15)

westram 2005-11-04 17:34 Rev.: 3955

- depends updated

15 lines of code changed in 1 file:

• TREEGEN: Makefile (+15)

westram 2005-11-03 18:40 Rev.: 3954

- Erste Anbindung von PGT an ARB

0 lines of code changed in 1 file:

• TREEGEN: Makefile (-15)

westram 2005-06-22 09:42 Rev.: 3935

- depends updated

15 lines of code changed in 1 file:

• TREEGEN: Makefile (+15)

artemov 2005-06-21 11:26

*** empty log message ***

0 lines of code changed in 2 files:

• TREEGEN: Makefile (changed)

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