*** empty log message ***
15 lines of code changed in 1 file:
cronjob for probe-library
0 lines of code changed in 1 file:
depends updated
1 lines of code changed in 1 file:
remade
1 lines of code changed in 1 file:
changed extern decl for aisc_add_destroy_callback
11 lines of code changed in 1 file:
make proto promotes extern "C"
1 lines of code changed in 1 file:
- debugging messages
- reduced sleep values when waiting for PT- or NAME-server
- added arb_wait_for_server()
- removed unused variable servercntrl_started
44 lines of code changed in 1 file:
- prototype fix
- removed servercntrl_started
1 lines of code changed in 1 file:
- crashed when headline was selected in probe list (on open)
- added assert for calls to strtok
- added class ProbeMatchParser
- in the post-match-region, the SAI was displayed with the
wrong offset, if the match contained gaps in sequence (fixed).
handles special case when post-match-region is empty.
- in the pre-match-region, the SAI was displayed at the wrong
offset when that region contained less than 9 bases
- changed internal encoding of SAI color translation (now uses '0'-'9' for
configured characters and '0'-1 for all others)
- changed x/y stepping (it has used ascent instead of width).
- painting is aligned (display failed completely if probe font size was smaller
than foreground font size, now it always uses the max. size of BOTH used fonts)
- added paintProbeInfo() to paint probe string (properly aligned to x/y)
- draw vertical line showing match region
- display SAI content for all positions (not only configured ones)
276 lines of code changed in 1 file:
- added sai_assert()
- store several AWARs in properties
- removed unused AWAR
- better protection for saiProbeData
43 lines of code changed in 1 file:
- prototype change
1 lines of code changed in 1 file:
- show 'Gene server' only if its a genome db
- fix call to arb_start_server (sleep as well)
- changed data transfer to SAI visualisation
- crashed fix (when using Auto-Match from probe design w/o opening probe match before)
- probe match event refreshes ARB_NTREE-window
- probe/SAI refreshed when matches change (changed location of callback)
- added MATCH-button to probe design result window
57 lines of code changed in 1 file:
- added parameter to PT server admin
1 lines of code changed in 1 file:
*** empty log message ***
11 lines of code changed in 1 file:
- added match button
2 lines of code changed in 1 file:
remade
38 lines of code changed in 4 files:
- const fixes
3 lines of code changed in 1 file:
cosmetics
1 lines of code changed in 1 file:
- promotion added
4 lines of code changed in 2 files:
- to update prototypes (for manual use)
28 lines of code changed in 1 file:
depends
0 lines of code changed in 1 file:
- optional promotion of code from .c -> .h
148 lines of code changed in 1 file:
- removed (not necessary)
0 lines of code changed in 1 file:
- gene-pt-server deactivated until it's fixed
6 lines of code changed in 1 file:
- removed 'Sequence quality' and 'chimere' from release version
- hotkey fix
20 lines of code changed in 1 file:
- hotkey fix
1 lines of code changed in 1 file:
- removed warning about undefined ARB_WORKDIR etc.
- filter inserted directory links against duplicates
40 lines of code changed in 1 file:
- separated Phylogeny menu into several sub-menus
- added 'Modify branches' submenu
- order changes to "Tree" menu
- renamed some help files
35 lines of code changed in 1 file:
- spelling
24 lines of code changed in 2 files:
- updated
4 lines of code changed in 1 file:
- added AP_tree::reset_branchlengths, bootstrap2branchlen, branchlen2bootstrap, bootstrap2branchlen
12 lines of code changed in 1 file:
- added NT_reset_branchlengths + NT_move_boot_branch + NT_scale_tree
63 lines of code changed in 1 file:
- added AP_tree::reset_branchlengths, scale_branchlengths, branchlen2bootstrap, bootstrap2branchlen
47 lines of code changed in 1 file:
- added new parameters needed for rate variation
25 lines of code changed in 1 file:
- resets branchlengths to 0.1 if values were interpreted as bootstrap values
3 lines of code changed in 1 file:
- added lead tester :)
1 lines of code changed in 1 file:
- help for 'Remove bootstraps'
23 lines of code changed in 1 file:
- help for 'Scale branchlengths'
27 lines of code changed in 1 file:
- help for 'Reset branchlengths'
23 lines of code changed in 1 file:
- help for 'Justify branchlengths'
26 lines of code changed in 1 file:
- help for bootstrap-branchlength-transfer
28 lines of code changed in 1 file:
genome importer "embl" imports "order"
1 lines of code changed in 1 file:
- sorted phylogeny menu into several sub-menus
11 lines of code changed in 1 file:
- added new parameters needed for rate variation
18 lines of code changed in 1 file:
- disabled some options because they cause distance programs to crash
3 lines of code changed in 1 file:
- spelling
2 lines of code changed in 1 file:
- CVS version was broken (filesystem error)
48 lines of code changed in 1 file:
new icons
6 lines of code changed in 2 files:
*** empty log message ***
7 lines of code changed in 1 file:
- layout fixed
- new button markers
31 lines of code changed in 1 file:
- defined write_...- and rewrite_...-functions as macros
29 lines of code changed in 1 file:
- added rewrite versions to class AW_awar (rewrite = write+touch)
8 lines of code changed in 1 file:
- checks whether target is uptodate (used to avoid unnecessary linking)
82 lines of code changed in 1 file:
- link applications only if necessary
28 lines of code changed in 1 file:
- fixed tree admin behavior (need some further implementation)
75 lines of code changed in 1 file:
- Link NTREE.a only if necessary
7 lines of code changed in 1 file:
- added symbolic browser commands
- added "goto_valid_node"
- works correct when path to non-container specified
- added link to parent container
- added history
- when switching database, previously used path is restored
- added sorting
442 lines of code changed in 1 file:
- avoid linking of applications if not necessary
102 lines of code changed in 1 file:
dependencies updated
9 lines of code changed in 5 files:
- simply ignores all arguments
4 lines of code changed in 1 file:
- call GB_install_error_handler
- made many functions static
- removed debug printout
49 lines of code changed in 1 file:
- renamed some GB_getenv...() functions
- show system call
3 lines of code changed in 1 file:
- spelling
2 lines of code changed in 2 files:
- automatically announce property database to browser
- spelling
4 lines of code changed in 1 file:
- removed create_help_entry + macro_message_cb
2 lines of code changed in 1 file:
- menu item for db browser
- awars for db browser
- cleaned up save windows
14 lines of code changed in 1 file:
- cleanup
0 lines of code changed in 1 file:
- fixed writing order of AWAR_DB_PATH and AWAR_DB"directory"
- announce main DB to browser
23 lines of code changed in 1 file:
redesigned
32 lines of code changed in 1 file:
window for db browser
27 lines of code changed in 1 file:
- changed user name detection
25 lines of code changed in 8 files:
- added REARRANGE parameter to comment
1 lines of code changed in 1 file:
- warning fix
9 lines of code changed in 1 file:
- renamed some GB_getenv...() functions
- show system call
2 lines of code changed in 1 file:
- renamed some GB_getenv...() functions
6 lines of code changed in 1 file:
- added database browser interface
- added AWT_is_link()
7 lines of code changed in 1 file:
- added AWT_db_browser.o
9 lines of code changed in 1 file:
cleanup
0 lines of code changed in 1 file:
- replaced stat by lstat (stat cannot detect symbolic links)
- added special file browser entries: 'hide-subdirs' and 'sort'
- fixed several bugs in file browser (had problems with links)
134 lines of code changed in 1 file:
- database browser
502 lines of code changed in 1 file:
*** empty log message ***
7 lines of code changed in 2 files:
- rewrote GB_internal_error (uses gb_error_handler)
31 lines of code changed in 1 file:
- renamed some GB_getenv...() functions
- added GB_is_executablefile()
- added GB_find_executable()
- do some checks in GB_getenv..() functions (check whether is executable or is directory)
- print info at system()-call with GB_information()
- treats empty environment variables as "not defined"
206 lines of code changed in 1 file:
- updated
14 lines of code changed in 1 file:
- note
1 lines of code changed in 1 file:
- uses AWAR_ERROR_MESSAGES
- increased scrollback size in message window from 50 to 500
- splitted aw_insert_message_in_tmp_message into 2 functions
- skip refresh of list while receiving new messages
- prints clock instead of counter in front of messages
- several functions made static
- cleanups
- removed write_with_success_or_exit
103 lines of code changed in 1 file:
- prints error message if wrong argument etc. to aw_message
- changed position where several messages are sent
11 lines of code changed in 1 file:
- if \n is used in shell script it is unencoded
now arb_message scans and replaces these \n's
16 lines of code changed in 1 file:
- added info message about fixed protml crash
3 lines of code changed in 1 file:
- redefined ARBMACROHOME to ~/.arb_prop/arb_macros
- added ARBMACRO (defaults to $ARBHOME/lib/macros)
- always shows used $ARBHOME
22 lines of code changed in 1 file:
- DOCU change
- commented sections
- formatted interface
- commented-out functions: MATCHLIST/INFO_HEADER und MATCHLIST/INFO
181 lines of code changed in 1 file:
updated
0 lines of code changed in 1 file:
- GBS_strclose changed
- cleanup
8 lines of code changed in 1 file:
- cosmetics
1 lines of code changed in 1 file:
- replaced get_match_info and get_match_hinfo by formatting versions
- detect_format_props() scans column widths for output
- added cat_...() for easy formatting
- GBS_strclose changed
182 lines of code changed in 1 file:
- hotkey fix
- uses AWAR_ERROR_MESSAGES
- fixed message handling in NT_show_message
20 lines of code changed in 1 file:
- fixed PRG=name in tree comment (contained 'xterm -e')
4 lines of code changed in 1 file:
- fixed a typo causing failure when using amino acids
1 lines of code changed in 1 file:
- call $DISPLAY_FUNC only if treefile exists
1 lines of code changed in 1 file:
- if 'star decomposition' and 'rearrangement' were used together
protml crashed, because of undefined vectors and matrixes
12 lines of code changed in 1 file:
- assertion macro
24 lines of code changed in 1 file:
- added assertions (avoiding to create empty ?vector, ?matrix and ?cube)
46 lines of code changed in 1 file:
- beautified
- added 'pwdx' to adawcbstruct
74 lines of code changed in 1 file:
- use additional default directory (ARBMACRO) in macro selection box
1 lines of code changed in 1 file:
- awt_create_selection_box_cb: tweaked soft links
- added PT_SERVER_HOME to awt_get_base_directory
- awt_create_selection_box allows multiple directories in parameter pwd
75 lines of code changed in 1 file:
GBS_strclose changed
51 lines of code changed in 33 files:
- GBT_message() never appends to AWAR "tmp/message", always overwrites.
Needed because messages were duplicated.
- uses AWAR_ERROR_MESSAGES
- GBT_message checks for NULL msg
- GBS_strclose changed
18 lines of code changed in 1 file:
- removed (ignored) parameter 'optimize' from GBS_strclose
- GBS_fread_string changed
12 lines of code changed in 1 file:
- added support for 'ARBMACRO'
- GBS_strclose changed
14 lines of code changed in 1 file:
updated
2 lines of code changed in 1 file:
- GBS_strclose changed
11 lines of code changed in 4 files: