Directory ARBDB2/

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westram 2009-12-30 19:56 Rev.: 6318

* ARBDB
- compiles as C++ (no longer compiled as plain C)
- removed ARBDB2 + ARBDBS
- removed rotten C++-wrappers (ARBDBPP)
- generates special header for perl-interface to reduce dependencies (ad_p_prot.h)
* removed (ARBDB)
- gb_search_enum (merged with GB_TYPES)
* renamed (ARBDB)
- gbs_malloc_copy -> GB_memdup
- gb_search_types -> GB_SEARCH_TYPE + renamed enum-members
* tweaked perl interface
- code in ARBDB is now able to 'die' correctly (see GBP_croak_function)
- compiles as C++
- wrote generic functions for enum <-> string conversion (perl uses strings for enum values)
- added needed conversion functions
- removed handcoded xsubs (now all are generated by arb_proto_2_xsub - nevertheless, it's still possible to define xsubs manually)
- ARB::find and ARB::find_string (3rd parameter needs different values, only one file affected: PERL_SCRIPTS/GENOME/GI.pm - fixed)
- removed all functions using GBQUARK from perl interface
* perl interface generator (arb_proto_2_xsub)
- completely rewritten
- does automatic type conversion (expecting that the needed functions are defined in ARBDB/adperl.c)
* prototype generator
- compiles as C++
- switch -F accept's '!^' as beginning-of-name expression
* removed ARB_EDIT
- moved naligner interface code to EDIT4

0 lines of code changed in 1 file:

• ARBDB2: Makefile (del)

westram 2009-08-14 08:09 Rev.: 6140

* patch from Marek Stopka (see #136)

5 lines of code changed in 1 file:

• ARBDB2: Makefile (+5 -1)

westram 2009-06-05 18:18 Rev.: 6020

* splitted adtools.c into multiple files (no code change)

73 lines of code changed in 1 file:

• ARBDB2: Makefile (+73 -2)

westram 2009-05-24 09:29 Rev.: 5939

* moved non-GUI parts from AWT/AWT_changekey.cxx to ARBDB/adChangeKey.c
* added GBT_convert_changekey
* added 'Convert fields ...' to 'Fields'-menu

thx to Elmar

9 lines of code changed in 1 file:

• ARBDB2: Makefile (+9)

westram 2009-04-16 14:21 Rev.: 5825

* replaced GB_entry/GB_create/GB_search+GB_read_XXX by GBT_read_XXX
* improved error handling in many functions

2 lines of code changed in 1 file:

• ARBDB2: Makefile (+2)

westram 2009-04-09 09:57 Rev.: 5788

* rewrote regular expression code using POSIX extended regular expressions (from glibc)
- removed GBS_regsearch(), cause GBS_regmatch() does no longer return a heap-copy of the match. Instead it returns a pointer to the match and the length of the match.
- added functions for matching with precompiled regexpr (GBS_compile_regexpr,GBS_regmatch_compiled) or precompiled matcher (GBS_compile_matcher, GBS_string_matches_regexp)

0 lines of code changed in 1 file:

• ARBDB2: Makefile (-1)

westram 2009-04-08 09:49 Rev.: 5787

* moved string match/replace related functions from adstring.c to admatch.c

12 lines of code changed in 1 file:

• ARBDB2: Makefile (+12 -4)

westram 2008-12-31 12:27 Rev.: 5709

- made depends for [5708]

60 lines of code changed in 1 file:

• ARBDB2: Makefile (+60)

westram 2008-12-18 16:53 Rev.: 5659

- moved DB access for experiments to ARBDB

5 lines of code changed in 1 file:

• ARBDB2: Makefile (+5)

westram 2008-12-15 12:00 Rev.: 5646

* replaced GB_mergesort() and GBT_quicksort() by GB_sort()
* implemented GB_sort() using qsort(). current qsort is implemented as intronsort, which has mean AND worst case complexity O(N*log N), w/o the memory complexity of mergesort.
* fixed constness of compare function type (hash and array)
* added and using standard comparators (GB_string_comparator, GBS_HCF_sortedByKey)
* fixed/reimplemented several custom comparators

0 lines of code changed in 1 file:

• ARBDB2: Makefile (-2)

westram 2008-10-31 18:21 Rev.: 5564

* ARBDB/adtools.c: - tree reader uses struct TreeReader instead of static variables
- Unescape tree comment when reading newick tree
('\\', '\{' and '\}' are replaced by '\', '[' abd ']')
- now reads any length of comment (comment was restricted to 1024 characters)
* AWT/AWT_imp_exp.cxx: - Escape tree comment

0 lines of code changed in 1 file:

• ARBDB2: Makefile (-1)

westram 2008-05-13 14:42 Rev.: 5292

- depends updated

0 lines of code changed in 1 file:

• ARBDB2: Makefile (-1)

westram 2008-03-11 19:27 Rev.: 5229

- changed linker + compiler commands
- depends updated

3 lines of code changed in 1 file:

• ARBDB2: Makefile (+3 -2)

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

- depends updated

29 lines of code changed in 1 file:

• ARBDB2: Makefile (+29)

westram 2007-09-27 12:51 Rev.: 4868

- added POST_COMPILE where needed

1 lines of code changed in 1 file:

• ARBDB2: Makefile (+1 -1)

westram 2007-07-06 11:47 Rev.: 4704

- depends updated

11 lines of code changed in 1 file:

• ARBDB2: Makefile (+11)

westram 2007-05-30 14:39 Rev.: 4635

- added 'clean'

3 lines of code changed in 1 file:

• ARBDB2: Makefile (+3)

westram 2007-04-18 23:08 Rev.: 4484

- depends updated

11 lines of code changed in 1 file:

• ARBDB2: Makefile (+11)

westram 2005-06-22 09:41 Rev.: 3930

- dependencies were broken

221 lines of code changed in 1 file:

• ARBDB2: Makefile (+221 -63)

artemov 2005-06-21 11:26

*** empty log message ***

63 lines of code changed in 2 files:

• ARBDB2: Makefile (+63 -221)

westram 2005-05-24 17:01 Rev.: 3835

- added $(GB_X) to objects

9 lines of code changed in 1 file:

• ARBDB2: Makefile (+9 -1)

westram 2005-03-17 09:15 Rev.: 3761

- dependencies updated

3 lines of code changed in 1 file:

• ARBDB2: Makefile (+3)

westram 2004-11-18 14:07 Rev.: 3400

- depends updated

1 lines of code changed in 1 file:

• ARBDB2: Makefile (+1)

westram 2004-05-13 12:10 Rev.: 2743

dependencies updated

1 lines of code changed in 1 file:

• ARBDB2: Makefile (+1)

westram 2004-01-23 18:08 Rev.: 2338

fixed and reformatted dependencies (using fix_depends.pl)

208 lines of code changed in 1 file:

• ARBDB2: Makefile (+208 -60)

westram 2003-08-09 13:00 Rev.: 1617

- updated dependencies for all Makefiles
- rewrote dependency generation code. Only real changes
propagate into Makefiles - so it does no longer hurt to
call 'make depends' in ARB directory!

96 lines of code changed in 1 file:

• ARBDB2: Makefile (+96 -80)

westram 2002-10-09 12:21 Rev.: 887

make depend

48 lines of code changed in 1 file:

• ARBDB2: Makefile (+48 -47)

westram 2002-08-23 19:53 Rev.: 866

changed assert macros (see arb_assert.h)

71 lines of code changed in 1 file:

• ARBDB2: Makefile (+71 -353)

westram 2001-01-11 15:58 Rev.: 83

*** empty log message ***

274 lines of code changed in 1 file:

• ARBDB2: Makefile (+274 -389)

meierh 2001-01-11 15:24 Rev.: 80

haralds checkin

389 lines of code changed in 1 file:

• ARBDB2: Makefile (+389 -274)

westram 2001-01-04 15:36 Rev.: 68

Updated dependencies

153 lines of code changed in 1 file:

• ARBDB2: Makefile (+153 -63)

oldcode 2000-11-23 10:41 Rev.: 2

Initial revision

289 lines of code changed in 1 file:

• ARBDB2: Makefile (new 289)