- zoom.bitmap -> pzoom.bitmap
- added classes GEN_map_window and GEN_map_manager to enable multiple views
- many changes to AWARs and their callbacks to enable multiple views
- added lock-toggles behind organism and gene name (in info area) to
allow to lock each of them. This allows multiple views to the same
genome (with different or identical views) or multiple views to different genomes.
- finer granulation for update callbacks
- several window-creators return identical window (GEN_create_options_window,
GEN_create_layout_window)
- removed binding to NTREE canvas (not sure why I needed this 3 years ago)
603 lines of code changed in 1 file:
- multiple calls to GEN_open_nds_window return the identical window
67 lines of code changed in 1 file:
- removed GEN_gene_container_changed_cb
0 lines of code changed in 1 file:
- defined/changed several AWARs into view-local AWARs
- some spelling errors in AWAR-names fixed
- added GEN_window_local_awar_name + GEN_map
18 lines of code changed in 1 file:
- GEN_graphic:
. made more members private
. delete_gen_root made private
. access functions for private members
. removed global variable GEN_GRAPHIC
24 lines of code changed in 1 file:
- added select mode
- GEN_graphic ctor uses initializers
- uses view-local AWARs
- GEN_graphic::check_update fixed (always caused zoom_reset, when organism changed)
- removed GEN_root::check_update_needed
- removed global variable GEN_GRAPHIC
- GEN_graphic::reinit_gen_root sets want_zoom_reset on initial organism selection
- GEN_graphic::set_display_style sets want_zoom_reset
43 lines of code changed in 1 file:
- GEN_root::check_update removed
- GEN_root now has a pointer to GEN_graphic
9 lines of code changed in 1 file:
- GEN_root ctor uses initializers; change_flag has been removed
- GEN_root::reinit_NDS made const
44 lines of code changed in 1 file:
- prototypes changed
2 lines of code changed in 1 file:
- zoom.bitmap -> pzoom.bitmap
17 lines of code changed in 7 files:
ca_probe now supports upper limits for weighted mismatches. Fullnames
are correctly parsed (bugfix).
50 lines of code changed in 2 files:
- inserts even more info into GDE-generated helpfiles
23 lines of code changed in 1 file:
- help files are now also searched in HELP_SOURCE/genhelp
26 lines of code changed in 1 file:
- made destructor of AW_window virtual (to enable RTTI)
1 lines of code changed in 1 file:
removed part of header to make 'BUILD FROM'-line more obvious
2 lines of code changed in 1 file:
*** empty log message ***
5 lines of code changed in 2 files:
correct location and "format"
0 lines of code changed in 1 file:
- inserts a line containing the real source file for generated help files
4 lines of code changed in 1 file:
- rearrangements, 'online help' -> 'embedded help'
38 lines of code changed in 1 file:
added help file for Maus. I don't know on which place I have to add it also.
I hope this work with this single check in. Xml-version not add manually yet.
0 lines of code changed in 1 file:
updated mausdriver.pl command line options to final version in GDE Menu
11 lines of code changed in 1 file:
debug print statements disabled, no global eval for die-exceptions yet
16 lines of code changed in 2 files:
Interface slightly modified:
accession numbers to be looked for, exclude accession numbers
and version numbers can be supplied as quoted list as well as from file.
All filtering functions implemented, log function not yet.
242 lines of code changed in 2 files:
- uses EXIT_FAILURE|EXIT_SUCCESS as exit codes
- less memory printouts
10 lines of code changed in 1 file:
- if PT-server build fails -> don't try to load broken server
- uses EXIT_FAILURE|EXIT_SUCCESS as exit codes
24 lines of code changed in 1 file:
- uses EXIT_FAILURE|EXIT_SUCCESS as exit codes
8 lines of code changed in 3 files:
- exit -> bi_exit
6 lines of code changed in 2 files:
gene_probe -> arb_gene_probe
1 lines of code changed in 1 file:
- gene_probe -> arb_gene_probe
6 lines of code changed in 2 files:
- GBT_create_alignment uses GBT_check_alignment_name
5 lines of code changed in 1 file:
- updated
0 lines of code changed in 1 file:
- made many functions static
- commented out unused functions
- performance optimization for ptnd_build_tprobes:
. increased hash size (10000->50000)
. use real max. length of MARKED species (instead of
max. length of ALL species) to estimate number of
hash elements (=> gene pt server now does design in
10 sec. instead of 20 min.)
. added performance warning
102 lines of code changed in 1 file:
- if gene names list is empty -> ptpd_read_names does not raise error
- cleanup
5 lines of code changed in 1 file:
- re-added correct shebang from Lothar
1 lines of code changed in 1 file:
- cd's to MAUS dir
- fixed two parameter types
6 lines of code changed in 1 file:
- changed error message
1 lines of code changed in 1 file:
- do SIGSEGV if Error
- changed error messages
9 lines of code changed in 2 files:
- added gde_assert
9 lines of code changed in 1 file:
- assert GDE does not exit with error
4 lines of code changed in 1 file:
- crashed when output file was not created
1 lines of code changed in 1 file:
- added AW_detach_information
11 lines of code changed in 1 file:
- NT_detach_information_window uses AW_detach_information
17 lines of code changed in 1 file:
- bugfix in callback parameters of NT_detach_information_window
22 lines of code changed in 2 files:
- minor fix
2 lines of code changed in 1 file:
depends updated
0 lines of code changed in 1 file:
proto updated
1 lines of code changed in 1 file:
- removed unneeded valid names headers
0 lines of code changed in 1 file:
- added some decls from removed headers
- cleanup
17 lines of code changed in 1 file:
- cleanup
69 lines of code changed in 2 files:
removed unnecessary headers (leftover code moved into cxx's)
0 lines of code changed in 2 files:
- spelling
2 lines of code changed in 2 files:
- added MAUS
59 lines of code changed in 1 file:
*** empty log message ***
250 lines of code changed in 2 files:
- unmark genes of ALL species (not only of marked species)
8 lines of code changed in 1 file:
- note about positions ([0..N-1] instead of [1..N])
3 lines of code changed in 1 file:
- GEN_update_GENE_CONTENT writes correct sequence for 'intergene_...'-matches
40 lines of code changed in 1 file:
- pd_get_the_[gene_]names() added a trailing '#' -- removed
- probe design now aborts if it tries to add an unknown species
and never tries to add anything to gene pt servers (too complicated)
- removed multiple return points from probe_design_event()
150 lines of code changed in 1 file:
- added new column 'gpos' (gene relative position)
41 lines of code changed in 1 file:
- get_list_part expects NO trailing '#'
11 lines of code changed in 1 file:
added .depends
5 lines of code changed in 3 files:
- added g_pos to PT_probematch
1 lines of code changed in 1 file:
- does no longer refer columns by number (instead uses name)
- added gene pt_server column description
48 lines of code changed in 1 file:
- generation of xml files now depends on xml.stamp (which is only
touched when converter source changes or 'make clean' is called)
8 lines of code changed in 1 file:
- added xml.stamp
4 lines of code changed in 1 file:
- rewrote target bclean (now cleans complete bin directory and all generated libraries)
- removed some unknwon rm-commands from clean-targets
- added targets 'libclean' and 'relink'
13 lines of code changed in 1 file:
now auto-generated (needed for compilation from arbsrc.tgz)
0 lines of code changed in 2 files:
- excluded .genmenu
1 lines of code changed in 1 file:
- reactivated 'gene server' toggle
0 lines of code changed in 1 file:
- inline functions are no longer included by default
- added flag -i to include inline functions
14 lines of code changed in 1 file:
- added some assertions to detect unhandled errors
- Column map had wrong compare function
14 lines of code changed in 1 file:
- catch some more errors
17 lines of code changed in 1 file:
updated
1 lines of code changed in 1 file:
- cleanup + beautified
- most printouts only in DEBUG version
89 lines of code changed in 1 file:
- PT_start_design() returns more errors to client
11 lines of code changed in 1 file:
- return genome position (instead of gene position)
23 lines of code changed in 1 file:
- fixed a bug in get_list_part (scanned one empty string at end of list)
- added 'error' parameter to ptpd_read_names()
- PT_unknown_names() returns errors to client
- disabled old code
32 lines of code changed in 1 file:
- increased field width for 'DEBUG AWARS'
7 lines of code changed in 1 file:
- clear AWAR_GENE_CONTENT if selected gene is unknown
3 lines of code changed in 1 file:
- creates 'arbsrc.lst' instead of 'file.lst'
- added PROBE_WEB/CLIENT/mymanifest
2 lines of code changed in 1 file:
- added arbsrc.lst
6 lines of code changed in 1 file:
- added mv_if_diff
- added GDE/CLUSTALW/clustalw_help
- added READSEQ helpfiles
- added *.footer + *.header
22 lines of code changed in 1 file:
depends updated
2 lines of code changed in 1 file:
- comment
1 lines of code changed in 1 file:
- removed debugging messages
2 lines of code changed in 1 file:
- made GB_transaction abortable
12 lines of code changed in 2 files:
- transaction warnings changed
2 lines of code changed in 1 file:
- automatically create '.depends' if missing (needed for fresh build)
4 lines of code changed in 1 file:
renamed
0 lines of code changed in 2 files:
- head/foot -> header/footer
2 lines of code changed in 1 file:
- cleanup
3 lines of code changed in 1 file:
- probe_match_event uses strtok_r instead of strtok
- uses ProbeMatchParser to parse matches
292 lines of code changed in 1 file:
- get_column_content() is able to chop spaces
- uses a map to accesss columns
30 lines of code changed in 1 file:
- prototype changes
2 lines of code changed in 1 file:
- more verbose error message
1 lines of code changed in 1 file:
added 'weighted mismatches' option to ca_probe (chipanalyser interface).
149 lines of code changed in 2 files:
- fixed a buffer overflow
29 lines of code changed in 1 file:
cosmetics
1 lines of code changed in 1 file:
- added probe_match_parser.o
- depends updated
9 lines of code changed in 1 file:
- bugfix: crashed when using wrong PT-server (resulting in non-existant species)
- moved match parsing code to probe_match_parser.cxx
121 lines of code changed in 1 file:
- parser for probe match result
294 lines of code changed in 2 files:
'input mask' -> 'user mask'
5 lines of code changed in 2 files:
- added licenses for treepuzzle, molphy + readseq
70 lines of code changed in 1 file:
- Patches from Andreas Tille (debian package)
29 lines of code changed in 1 file:
- a copy of the GPL
350 lines of code changed in 1 file:
molphy license
40 lines of code changed in 1 file:
- added GBS_escape_string / GBS_unescape_string
96 lines of code changed in 2 files:
- escape/unescape color definition strings (ARB crashed when using ';' in color def)
38 lines of code changed in 1 file:
- removed frame; added dots
4 lines of code changed in 1 file:
depends updated
12 lines of code changed in 10 files:
layout changes
25 lines of code changed in 2 files:
- added 'reverse' label
24 lines of code changed in 1 file:
- added aw_create_selection_box_awars()
14 lines of code changed in 1 file:
cleanup
1 lines of code changed in 1 file:
- uses aw_create_selection_box_awars()
10 lines of code changed in 3 files:
- header for global functions
23 lines of code changed in 1 file:
- added WINDOW/aw_global.hxx
1 lines of code changed in 1 file:
- removed unused AWARs
0 lines of code changed in 1 file:
- uses aw_create_selection_box_awars()
- cleanup
10 lines of code changed in 2 files:
- uses aw_create_selection_box_awars()
- removed debug printout from release
5 lines of code changed in 1 file:
- uses aw_create_selection_box_awars()
- spelling
7 lines of code changed in 1 file:
- explicit dependencies from nt_date.h
- updated depends
13 lines of code changed in 1 file:
- uses aw_create_selection_box_awars()
28 lines of code changed in 8 files:
- added 'Reverse' button
- added reverseColorTranslationTable
- bugfix: if config was '.;;;;*;;;;;+' it was read like '.;*;+;;;;;;;'
55 lines of code changed in 1 file:
- uses aw_create_selection_box_awars()
- allow wildcards in import window
- made ift directory ARBHOME relative (filebox no longer does it implicit)
5 lines of code changed in 1 file:
- added leave_wildcards to adawcbstruct
4 lines of code changed in 1 file:
- added some filename related functions
31 lines of code changed in 1 file:
- uses aw_create_selection_box_awars
5 lines of code changed in 1 file:
- uses aw_create_selection_box_cb
18 lines of code changed in 1 file:
- if adawcbstruct.leave_wildcards==true -> leave wildcards and do not search recursive
- fixed bug in awt_create_selection_box_cb (caused directory path to get invalid)
- added AWT_path_in_ARBHOME()
31 lines of code changed in 1 file:
- center label in front of button
- label size calculation is aware of labels containing '\n'
- ignore width of button if given button width is 0 (in which
case the alignment will be corrected afterwards). Button width
0 does not work together with labels!
- other elements that may have labels (e.g. textfield, input_field,sellist)
use new label-size-calculation
216 lines of code changed in 1 file:
- saved again to fix wrong names
3 lines of code changed in 1 file:
changes due to modified button behavior
42 lines of code changed in 4 files:
- cosmetics
38 lines of code changed in 2 files:
- added AW_GC_MAPABLE (tells whether gc is ready to draw)
5 lines of code changed in 1 file:
- removed calculate_label_length
0 lines of code changed in 2 files:
- added ready_to_draw()
4 lines of code changed in 1 file:
- cosmetics + added ready_to_draw()
215 lines of code changed in 1 file:
- added db browser
14 lines of code changed in 2 files:
- more dbbrowser announces (for merge)
3 lines of code changed in 1 file:
- added db browser (2nd window)
9 lines of code changed in 1 file:
- annouces databases to dbbrowser
- create dbbrowser awars
- bug if merge dest was ':' (maybe never occurred)
- MG_start_cb: fixed memory leak by straight control flow
43 lines of code changed in 1 file:
- added db browser
- cosmetics
28 lines of code changed in 1 file:
- label with \n
1 lines of code changed in 1 file:
- create db browser awars
- announce used database to dbbrowser
4 lines of code changed in 1 file:
- awt_create_selection_list_on_scandb restores 'at'-position
(it ignores the rescan button position (see merge window for why)
12 lines of code changed in 1 file:
- changed order of button creation (needed to calculate positions properly)
- removed hard-coded positions (not compatible with diff. font sizes)
20 lines of code changed in 1 file:
- fixed a bug in GB_find_sub_by_quark (when searching for ALL entries,
deleted entries were reported as "missing")
1 lines of code changed in 1 file:
*** empty log message ***
1 lines of code changed in 1 file:
- added 'save' label (for config manager)
53 lines of code changed in 1 file:
- removed some text (some replaced by labels)
18 lines of code changed in 1 file:
- attached some text to lower border
44 lines of code changed in 1 file:
- prototype change
1 lines of code changed in 1 file:
- cast removed
1 lines of code changed in 1 file:
- text -> label
- GEN_is_genom_db -> GEN_is_genome_db
- renamed AWAR_PROBE_USE_GENE_SERVER -> AWAR_PROBE_CREATE_GENE_SERVER
- always checks whether it's a genome DB before making Gene-PT-Server
- replaced inlined awar by AWAR_PD_DESIGN_GENE
- 'Gene probes?' and 'Gene server?' occurs with genome DBs only
- button text in admin window unCAPSed
- save to config
74 lines of code changed in 1 file:
- GEN_is_genom_db -> GEN_is_genome_db
6 lines of code changed in 4 files:
- delete -> free
- added some test code
- GEN_is_genom_db -> GEN_is_genome_db
111 lines of code changed in 1 file:
- changes text of 'DETACH'-button to 'GET' when detaching
22 lines of code changed in 1 file:
- fixed memory leaks
7 lines of code changed in 1 file:
- fixed memory leak
10 lines of code changed in 2 files:
- delete->free
1 lines of code changed in 1 file:
- some words about updating pt-server if working with probes
16 lines of code changed in 1 file:
- GEN_is_genom_db -> GEN_is_genome_db
- hotkey fixes
4 lines of code changed in 1 file:
- hotkey fixes
3 lines of code changed in 1 file:
- comment
- fixed SEGV (occurred with unexpected return value -1)
46 lines of code changed in 1 file:
- rewrote create_button (attachment and labels now work together)
- attached buttons ignore at->highlight()
- detects size of graphical buttons before doing layout
- added get_last_button_widget
- create_toggle (cosmetics)
257 lines of code changed in 1 file:
- added get_last_button_widget (enables client code to change the button text)
2 lines of code changed in 1 file:
- added at_attach() + get_last_button_widget()
- changed prototype of AW_window_message::init
5 lines of code changed in 1 file:
- new parameter for AW_window_message::init
3 lines of code changed in 1 file:
- fixed call to AW_window_message::init
- if an aw_string_selection-window gets minimized or closed,
then behave as if CANCEL has been pressed
29 lines of code changed in 1 file:
- added at_attach() [not working yet]
11 lines of code changed in 1 file:
May 2004 »