* AWT_seq_protein.cxx: - try to fix neg. branchlengths
10 lines of code changed in 1 file:
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8 lines of code changed in 2 files:
end of test
1 lines of code changed in 1 file:
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2 lines of code changed in 2 files:
Tips and tricks window was removed !!!! Dont panic they are available in Help files :-).
2 lines of code changed in 4 files:
removed
0 lines of code changed in 2 files:
visualization of conservation profiles using GNUPLOT was added
but not finished yet ;-(!
175 lines of code changed in 3 files:
visualization of conservation profiles using GNUPLOT was added
but not finished yet so it works only for me ;-).
2 lines of code changed in 1 file:
1. New feature to maintain tips and tricks that are available in ARB.
2. User can view the tips and tricks that are associated with ARB_NTREE window and
Primary Structure Editor (ARB_EDIT4) Window.
3. User can also add and change tips at his disposal and maintain the same
as local database.
269 lines of code changed in 11 files:
More notes on how to install arb from source
24 lines of code changed in 1 file:
- does several tests to make compiling arb more easy:
- tell sth about config.makefile
- check $ARBHOME and $PATH
- Motif skipped in 'make libs'
66 lines of code changed in 1 file:
now archivates everything needed to make arb
46 lines of code changed in 1 file:
removed linking to DEPOT and PERL5
4 lines of code changed in 1 file:
generates some directories as well
15 lines of code changed in 1 file:
- quick add does no longer set 'best parsimony' to the value
of the state when all marked species are removed
58 lines of code changed in 1 file:
- fixed failed assertion (with edit marked + x relatives)
17 lines of code changed in 1 file:
do not create O
0 lines of code changed in 3 files:
uses mkdir -p to create directories
6 lines of code changed in 1 file:
indented, debugging code
151 lines of code changed in 1 file:
disabled compiler warnings
26 lines of code changed in 2 files:
- uses arb_textedit to edit help files
54 lines of code changed in 15 files:
- if $ARB_TEXTEDIT is undefined, then this script tries to detect a text editor
30 lines of code changed in 1 file:
- fixed a bug that modified the value of ARBHOME in the environment
- when nothing was imported clicking 'suggest names' did not show any error
- when clicking again, ARB crashed (open transaction)
- all stuff printed to console depends on #define
153 lines of code changed in 1 file:
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295 lines of code changed in 1 file:
- removed static variables
- all stuff printed to console depends on #define
- added HELP button
- removed some casts
- fixed some memory leaks
73 lines of code changed in 1 file:
- linked against each other
- corrected OCCURRENCE
14 lines of code changed in 4 files:
Help files for Valid Names section added
121 lines of code changed in 8 files:
changed names of some (non-existing) help files
4 lines of code changed in 1 file:
- added single quote (as '&apostr;')
4 lines of code changed in 1 file:
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3 lines of code changed in 1 file:
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2 lines of code changed in 1 file:
added label for alignment input box
28 lines of code changed in 1 file:
added combine label
10 lines of code changed in 1 file:
- corrected path
- when resolving IUPAC: warn if incorrect alignment type
12 lines of code changed in 1 file:
- added COMBINE mode to configuration extraction
40 lines of code changed in 1 file:
- spelling
1 lines of code changed in 1 file:
- explain COMBINE
2 lines of code changed in 1 file:
- undefined TEST_BASES_TABLE
1 lines of code changed in 1 file:
- set not_found_message=0 after freeing it
- valgrinded
4 lines of code changed in 1 file:
- valgrinded, untabified and indented
143 lines of code changed in 1 file:
- displays error if ED4_get_and_jump_to_species() is called on a species
with w/o data in current alignment
- same for ED4_get_marked_from_menu()
27 lines of code changed in 1 file:
- untabified and indented
- alignment used for pt-server (next-ralative-search) configurable
- store relatives used for alignment in 'used_rels'
- gets more relatives from pt-server (cause when using DNA-Pt-Server
for Protein-Alignment, we may get species w/o protein data)
349 lines of code changed in 1 file:
- removed weird typedefs
11 lines of code changed in 1 file:
- valgrinded
10 lines of code changed in 2 files:
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19 lines of code changed in 2 files:
- renamed variable 'string' to 'str' (really ancient code)
- warns if species has no data (and does skip display of this species)
- skips SAIs that have no data in current alignment
- indented/untabified
143 lines of code changed in 1 file:
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2 lines of code changed in 1 file:
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2 lines of code changed in 2 files:
another test file removed
0 lines of code changed in 1 file:
this was only a test-file
0 lines of code changed in 1 file:
checkcheck
0 lines of code changed in 1 file:
beschreibung
1 lines of code changed in 1 file:
changing..
0 lines of code changed in 1 file:
ein test
1 lines of code changed in 1 file:
*** empty log message ***
2 lines of code changed in 2 files:
bla
0 lines of code changed in 1 file:
*** empty log message ***
9 lines of code changed in 4 files:
* README: - mentioned mac version
1 lines of code changed in 1 file:
ok - no unknown files left :-)
16 lines of code changed in 7 files:
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36 lines of code changed in 2 files:
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103 lines of code changed in 19 files:
*** empty log message ***
15 lines of code changed in 9 files:
ignore ChangeLog
12 lines of code changed in 14 files:
*** empty log message ***
3 lines of code changed in 1 file:
- ignore *.hlp
1 lines of code changed in 1 file:
- added get_button_length()
2 lines of code changed in 2 files:
- fix
1 lines of code changed in 1 file:
- menu fix
2 lines of code changed in 1 file:
- removed probe_design_build_pt_server_choices()
0 lines of code changed in 1 file:
- renamed pd_ptid_to_choice() -> GBS_ptserver_id_to_choice() and moved to library
- removed probe_design_build_pt_server_choices()
5 lines of code changed in 1 file:
- use pop-up-selectionlists for pt-servers
- replaced probe_design_build_pt_server_choices() by awt_create_selection_list_on_pt_servers()
2 lines of code changed in 1 file:
- warning fix
1 lines of code changed in 1 file:
- uncommented unused variables
27 lines of code changed in 1 file:
- some prototypes
40 lines of code changed in 1 file:
- includes mp_proto.hxx
- added MP_cache_sonden2 (as awar callback)
6 lines of code changed in 1 file:
- moved prototypes -> mp_proto.hxx
11 lines of code changed in 1 file:
- renamed pd_ptid_to_choice() -> GBS_ptserver_id_to_choice() and moved to library
- uses awt_create_selection_list_on_pt_servers()
11 lines of code changed in 1 file:
- use awt_create_selection_list_on_pt_servers()
38 lines of code changed in 1 file:
- renamed pd_ptid_to_choice() -> GBS_ptserver_id_to_choice() and moved to library
23 lines of code changed in 1 file:
- uses awt_create_selection_list_on_pt_servers()
- AWAR_PT_SERVER defaults to 0 (not -1)
3 lines of code changed in 1 file:
- added awt_create_selection_list_on_pt_servers()
- untabified/indented
457 lines of code changed in 2 files:
- format fix
1 lines of code changed in 1 file:
- added GBS_ptserver_id_to_choice()
34 lines of code changed in 2 files:
- added AW_window::get_window_id()
11 lines of code changed in 1 file:
- open_default() changed
- specialized AW_root::save_default()
40 lines of code changed in 2 files:
- added AW_save_specific_defaults()
3 lines of code changed in 1 file:
- get_window_title() made const
3 lines of code changed in 1 file:
- added AW_save_specific_defaults()
- window_awar_name is now created from internal window id (not from name).
This fixes:
* different color defaults for different alignments.
* different color defaults for second editor/ntree window
8 lines of code changed in 1 file:
- added ED4_propertyName()
1 lines of code changed in 1 file:
- added 'db_name' to ED4_root
1 lines of code changed in 1 file:
- allows to save different specific properties
- internal window name is now 'ARB_EDIT4'
21 lines of code changed in 1 file:
- tries to open different alignment-dependent properties
- added ED4_propertyName()
47 lines of code changed in 1 file:
some changes to SAI Visualizer
58 lines of code changed in 1 file:
Helix number duplication fixed
12 lines of code changed in 1 file:
Fixed some bugs in Visualise SAI module
12 lines of code changed in 1 file:
- ARB crashed when creating Consensus or Maxfreq SAI (proteins only)
3 lines of code changed in 1 file:
- spelling
2 lines of code changed in 1 file:
- warns if illegal characters were replaced by gaps
1 lines of code changed in 1 file:
* AWT_asciiprint.cxx: - AWT_show_file inserts filename as default title
1 lines of code changed in 1 file:
- fixed a 'devide by zero'
56 lines of code changed in 1 file:
end of testing :)
0 lines of code changed in 1 file:
user 'yadhu' doing some changes
1 lines of code changed in 1 file:
some changes from 'westram'
1 lines of code changed in 1 file:
yadhu again
1 lines of code changed in 1 file:
testing as yadhu
1 lines of code changed in 1 file:
ralf
3 lines of code changed in 1 file:
*** empty log message ***
325 lines of code changed in 4 files:
*** empty log message ***
22 lines of code changed in 1 file:
*** empty log message ***
1 lines of code changed in 1 file:
fixed a memory bug in SAI visualization
* ed4_visualizeSAI.hxx: - changed return type of getSaiColorString() to const
* ED4_visualizeSAI.cxx: - changed return type of getSaiColorString() to const
- getSaiColorString() now returns a pointer to 'start' bytes below color string
331 lines of code changed in 4 files:
* lib/import/*.ift: - commented out DONT_GEN_NAMES
* ad_transpro.cxx: - removed old version of arb_transdna()
* AWTI_import.cxx: - indented
31 lines of code changed in 11 files:
removed test file
0 lines of code changed in 1 file:
ok
0 lines of code changed in 1 file:
hmm
1 lines of code changed in 1 file:
blub
1 lines of code changed in 1 file:
bla
2 lines of code changed in 2 files:
another test
0 lines of code changed in 1 file:
ralf testing
0 lines of code changed in 2 files:
cleaned
0 lines of code changed in 1 file:
* ad_transpro.cxx: - re-aligner asks to increase alignment length
23 lines of code changed in 1 file:
* AWT_codon_table.cxx: - ambiguous_codons had an initialization error
1 lines of code changed in 1 file:
test
0 lines of code changed in 1 file: