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Revision 350 - Directory Listing
Modified Wed Aug 19 16:45:07 2015 UTC (4 years, 7 months ago) by schristley
MPI timing
Revision 349 - Directory Listing
Modified Tue Mar 31 18:33:37 2015 UTC (5 years ago) by schristley
new pairwise ScEM algorithm, tweaks for float precisions errors
Revision 348 - Directory Listing
Modified Fri Mar 20 19:45:20 2015 UTC (5 years ago) by schristley
bounds check, float precision tweak
Revision 347 - Directory Listing
Modified Tue Mar 17 21:06:35 2015 UTC (5 years ago) by schristley
more 3D MPI
Revision 346 - Directory Listing
Modified Mon Mar 16 18:58:49 2015 UTC (5 years ago) by schristley
initial 3D MPI work
Revision 345 - Directory Listing
Modified Mon Mar 16 17:19:47 2015 UTC (5 years ago) by schristley
change readOnlySectorBorder to a flag
Revision 344 - Directory Listing
Modified Tue Mar 3 19:56:46 2015 UTC (5 years, 1 month ago) by schristley
working MPI ScEM code
Revision 343 - Directory Listing
Modified Tue Feb 24 17:34:57 2015 UTC (5 years, 1 month ago) by schristley
MPI init and F1 with gather and scatter
Revision 342 - Directory Listing
Modified Thu Feb 19 17:49:35 2015 UTC (5 years, 1 month ago) by schristley
working gather and MPI communication
Revision 341 - Directory Listing
Modified Thu Feb 12 22:10:36 2015 UTC (5 years, 1 month ago) by schristley
add MPI code generator
Revision 340 - Directory Listing
Modified Wed Feb 11 21:39:45 2015 UTC (5 years, 1 month ago) by schristley
some initial MPI work
Revision 339 - Directory Listing
Modified Fri Feb 6 17:23:19 2015 UTC (5 years, 2 months ago) by schristley
add -initializeFileCompleted
Revision 338 - Directory Listing
Modified Tue Feb 3 22:58:07 2015 UTC (5 years, 2 months ago) by schristley
read only sector border
Revision 337 - Directory Listing
Modified Mon Feb 2 19:29:39 2015 UTC (5 years, 2 months ago) by schristley
sector border
Revision 336 - Directory Listing
Modified Fri Jan 30 20:53:30 2015 UTC (5 years, 2 months ago) by schristley
coordinate translation for MPI
Revision 335 - Directory Listing
Modified Thu Dec 4 18:33:39 2014 UTC (5 years, 4 months ago) by schristley
initial MPI controller
Revision 334 - Directory Listing
Modified Tue Dec 2 18:22:46 2014 UTC (5 years, 4 months ago) by schristley
interface model
Revision 333 - Directory Listing
Modified Tue Dec 2 18:03:02 2014 UTC (5 years, 4 months ago) by schristley
eliminate spaces in filenames
Revision 332 - Directory Listing
Modified Fri Oct 24 18:37:34 2014 UTC (5 years, 5 months ago) by schristley
new sector-based GPU algorithm for ScEM
Revision 331 - Directory Listing
Modified Thu Sep 11 19:45:47 2014 UTC (5 years, 6 months ago) by schristley
url escape not yet available on gnustep
Revision 330 - Directory Listing
Modified Wed Jun 25 18:12:28 2014 UTC (5 years, 9 months ago) by schristley
rework SEM code, add mesh SEM
Revision 329 - Directory Listing
Modified Mon Oct 28 15:51:03 2013 UTC (6 years, 5 months ago) by schristley
sequential read access for sequence files, NCBI Entrez requests
Revision 328 - Directory Listing
Modified Mon Oct 28 15:49:47 2013 UTC (6 years, 5 months ago) by schristley
method to translate 6 frames of nucleotide
Revision 327 - Directory Listing
Modified Mon Oct 28 15:47:23 2013 UTC (6 years, 5 months ago) by schristley
quality score annotation
Revision 326 - Directory Listing
Modified Mon Oct 28 15:46:37 2013 UTC (6 years, 5 months ago) by schristley
fix bugs
Revision 325 - Directory Listing
Modified Thu Oct 17 16:36:54 2013 UTC (6 years, 5 months ago) by schristley
partial iOS port by Koen
Revision 324 - Directory Listing
Modified Fri Sep 6 20:16:47 2013 UTC (6 years, 7 months ago) by schristley
bug fixes
Revision 323 - Directory Listing
Modified Thu Aug 1 14:59:42 2013 UTC (6 years, 8 months ago) by schristley
simulation runs, mapping rules for more biological processes
Revision 322 - Directory Listing
Modified Fri Jun 28 15:19:47 2013 UTC (6 years, 9 months ago) by schristley
fix 64bit NSNotFound bug
Revision 321 - Directory Listing
Modified Fri Jun 28 15:17:55 2013 UTC (6 years, 9 months ago) by schristley
use -1 as NSNotFound could be positive number
Revision 320 - Directory Listing
Modified Fri Jun 28 15:16:24 2013 UTC (6 years, 9 months ago) by schristley
fix 64bit bug
Revision 319 - Directory Listing
Modified Thu Jun 27 19:51:06 2013 UTC (6 years, 9 months ago) by schristley
error prediction
Revision 318 - Directory Listing
Modified Wed Jun 5 22:28:27 2013 UTC (6 years, 10 months ago) by schristley
fill out language operator functionality, generalize xml response, add error handling
Revision 317 - Directory Listing
Modified Wed Jun 5 22:25:14 2013 UTC (6 years, 10 months ago) by schristley
fill out language operator gui, add more error handling
Revision 316 - Directory Listing
Modified Wed May 29 16:39:01 2013 UTC (6 years, 10 months ago) by schristley
rename tool
Revision 315 - Directory Listing
Modified Wed May 29 16:32:12 2013 UTC (6 years, 10 months ago) by schristley
separate biomodel open panel into separate controller, add error checking of server response
Revision 314 - Directory Listing
Modified Thu May 23 16:48:50 2013 UTC (6 years, 10 months ago) by schristley
bring in cappuccino branch
Revision 313 - Directory Listing
Modified Thu May 23 16:46:02 2013 UTC (6 years, 10 months ago) by schristley
reorganize
Revision 312 - Directory Listing
Modified Thu May 23 16:45:22 2013 UTC (6 years, 10 months ago) by schristley
reorganize
Revision 311 - Directory Listing
Modified Thu May 23 16:43:53 2013 UTC (6 years, 10 months ago) by schristley
reorganize
Revision 310 - Directory Listing
Modified Thu May 23 16:41:18 2013 UTC (6 years, 10 months ago) by schristley
progress on cappuccino implementation
Revision 309 - Directory Listing
Modified Thu May 23 16:37:49 2013 UTC (6 years, 10 months ago) by schristley
save old notes
Revision 308 - Directory Listing
Modified Thu May 23 16:37:15 2013 UTC (6 years, 10 months ago) by schristley
delete old files
Revision 307 - Directory Listing
Modified Thu May 23 16:34:16 2013 UTC (6 years, 10 months ago) by schristley
more reorganization
Revision 306 - Directory Listing
Modified Thu May 23 16:17:47 2013 UTC (6 years, 10 months ago) by schristley
reorganize directory structure
Revision 305 - Directory Listing
Modified Thu May 23 16:07:33 2013 UTC (6 years, 10 months ago) by schristley
some earlier cleanup work
Revision 304 - Directory Listing
Modified Thu May 23 16:05:35 2013 UTC (6 years, 10 months ago) by schristley
CMA server files
Revision 303 - Directory Listing
Modified Wed May 22 22:02:29 2013 UTC (6 years, 10 months ago) by schristley
new directory structure
Revision 302 - Directory Listing
Modified Wed May 22 21:58:29 2013 UTC (6 years, 10 months ago) by schristley
new directory structure
Revision 301 - Directory Listing
Modified Wed May 22 21:42:10 2013 UTC (6 years, 10 months ago) by schristley
remove xcode user settings
Revision 300 - Directory Listing
Modified Wed May 22 21:35:01 2013 UTC (6 years, 10 months ago) by schristley
new tools, update db schema
Revision 299 - Directory Listing
Modified Wed May 22 21:01:20 2013 UTC (6 years, 10 months ago) by schristley
fill out functionality
Revision 298 - Directory Listing
Modified Wed May 22 20:35:43 2013 UTC (6 years, 10 months ago) by schristley
summer project by Jono
Revision 297 - Directory Listing
Modified Wed May 22 20:28:38 2013 UTC (6 years, 10 months ago) by schristley
initial CMA native app
Revision 296 - Directory Listing
Modified Fri May 3 15:44:03 2013 UTC (6 years, 11 months ago) by schristley
import Foundation instead of Cocoa
Revision 295 - Directory Listing
Modified Fri May 3 15:42:32 2013 UTC (6 years, 11 months ago) by schristley
clean up use of NSUInteger and other compiler warnings
Revision 294 - Directory Listing
Modified Wed May 1 18:27:50 2013 UTC (6 years, 11 months ago) by schristley
BioPortal REST now requires API key, add Linux preferences directory, use Foundation instead of Cocoa
Revision 293 - Directory Listing
Modified Wed May 1 18:19:40 2013 UTC (6 years, 11 months ago) by schristley
64bit bug fix
Revision 292 - Directory Listing
Modified Tue Apr 23 20:36:09 2013 UTC (6 years, 11 months ago) by schristley
update for GNUstep
Revision 291 - Directory Listing
Modified Tue Apr 23 20:28:25 2013 UTC (6 years, 11 months ago) by schristley
minimum dt
Revision 290 - Directory Listing
Modified Tue Apr 23 19:49:40 2013 UTC (6 years, 11 months ago) by schristley
initial CMA server php
Revision 289 - Directory Listing
Modified Fri Apr 19 16:31:23 2013 UTC (6 years, 11 months ago) by schristley
add support for double precision on GPU
Revision 288 - Directory Listing
Modified Fri Apr 19 16:17:50 2013 UTC (6 years, 11 months ago) by schristley
fix compiler errors
Revision 287 - Directory Listing
Modified Fri Apr 5 15:45:23 2013 UTC (7 years ago) by schristley
glpk for flux balance
Revision 286 - Directory Listing
Modified Wed Apr 3 18:28:49 2013 UTC (7 years ago) by schristley
bug fix, add knockout, initial glpk code
Revision 285 - Directory Listing
Modified Tue Apr 2 22:25:01 2013 UTC (7 years ago) by schristley
error checking
Revision 284 - Directory Listing
Modified Tue Mar 12 01:25:38 2013 UTC (7 years ago) by schristley
Mersenne twister random number generators
Revision 283 - Directory Listing
Modified Fri Mar 8 20:56:55 2013 UTC (7 years, 1 month ago) by schristley
cappuccino-based CMA
Revision 282 - Directory Listing
Modified Tue Mar 5 19:20:02 2013 UTC (7 years, 1 month ago) by schristley
access to data handler, use correct respondsToSelector: method
Revision 281 - Directory Listing
Modified Tue Mar 5 19:18:38 2013 UTC (7 years, 1 month ago) by schristley
bug fix in BCExpressionData, add pretty print for BCDataMatrix
Revision 280 - Directory Listing
Modified Mon Mar 4 21:36:56 2013 UTC (7 years, 1 month ago) by schristley
remove old code, initial support for ReactionStructureMCMC and DiffusionModel, move encodings from Grid2DArray into BioSwarm Model
Revision 279 - Directory Listing
Modified Mon Mar 4 21:31:12 2013 UTC (7 years, 1 month ago) by schristley
row names for expression data
Revision 278 - Directory Listing
Modified Wed Dec 12 22:31:42 2012 UTC (7 years, 3 months ago) by schristley
updates for new model interface
Revision 277 - Directory Listing
Modified Thu Oct 25 20:34:30 2012 UTC (7 years, 5 months ago) by schristley
initial version of CMA website
Revision 276 - Directory Listing
Modified Thu Oct 11 19:48:51 2012 UTC (7 years, 5 months ago) by schristley
set gpu device
Revision 275 - Directory Listing
Modified Wed Oct 3 18:18:29 2012 UTC (7 years, 6 months ago) by schristley
GNUstep fixes
Revision 274 - Directory Listing
Modified Wed Oct 3 18:17:34 2012 UTC (7 years, 6 months ago) by schristley
fix memory leak
Revision 273 - Directory Listing
Modified Wed Oct 3 16:34:13 2012 UTC (7 years, 6 months ago) by schristley
clear event schedule, allow perturbation of parameter
Revision 272 - Directory Listing
Modified Fri Sep 28 16:36:10 2012 UTC (7 years, 6 months ago) by schristley
copy row and column names for matrix copy
Revision 271 - Directory Listing
Modified Fri Sep 28 16:27:09 2012 UTC (7 years, 6 months ago) by schristley
initial MathML support, move data encode and species into generic BioSwarmModel
Revision 270 - Directory Listing
Modified Fri Sep 28 16:23:47 2012 UTC (7 years, 6 months ago) by schristley
fix compare with speciesMap
Revision 269 - Directory Listing
Modified Fri Sep 28 16:20:30 2012 UTC (7 years, 6 months ago) by schristley
add support for range
Revision 268 - Directory Listing
Modified Fri Sep 28 16:18:56 2012 UTC (7 years, 6 months ago) by schristley
fix bug
Revision 267 - Directory Listing
Modified Sat Sep 1 18:39:19 2012 UTC (7 years, 7 months ago) by koen
Need to use correct symbol there...
Revision 266 - Directory Listing
Modified Sat Sep 1 18:13:51 2012 UTC (7 years, 7 months ago) by koen
Adding the 'X' amino acid for 'unknown', and using the '?' amino acid for 'undefined' (e.g. a number). Also add code for selenocysteine.
Revision 265 - Directory Listing
Modified Fri Jul 20 22:11:02 2012 UTC (7 years, 8 months ago) by koen
Updated some deprecated code and some clean up
Revision 264 - Directory Listing
Modified Wed Jul 11 17:10:52 2012 UTC (7 years, 8 months ago) by schristley
cleanup hierarchy API, add simulation events, aggregate population model
Revision 263 - Directory Listing
Modified Mon Jul 2 16:31:34 2012 UTC (7 years, 9 months ago) by schristley
element center forces, povray settings
Revision 262 - Directory Listing
Modified Wed Jun 20 20:12:09 2012 UTC (7 years, 9 months ago) by schristley
multiple model support for ScEM
Revision 261 - Directory Listing
Modified Thu Jun 14 16:00:51 2012 UTC (7 years, 9 months ago) by schristley
support for initialization file, multiple forces between element types in ScEM
Revision 260 - Directory Listing
Modified Wed Jun 6 19:25:27 2012 UTC (7 years, 10 months ago) by schristley
initialization file and update povray code generation
Revision 259 - Directory Listing
Modified Wed May 30 16:32:24 2012 UTC (7 years, 10 months ago) by schristley
update SEM for hierarchical model
Revision 258 - Directory Listing
Modified Wed May 23 21:05:27 2012 UTC (7 years, 10 months ago) by schristley
fixes for hierarchical model
Revision 257 - Directory Listing
Modified Wed May 23 19:14:58 2012 UTC (7 years, 10 months ago) by schristley
MCMC reworked for hierarchical model
Revision 256 - Directory Listing
Modified Wed May 23 15:29:47 2012 UTC (7 years, 10 months ago) by schristley
ES reworked for hierarchical model
Revision 255 - Directory Listing
Modified Fri May 11 19:42:36 2012 UTC (7 years, 10 months ago) by schristley
multiple experiments
Revision 254 - Directory Listing
Modified Wed May 9 17:47:31 2012 UTC (7 years, 11 months ago) by schristley
disable swarm for gnustep
Revision 253 - Directory Listing
Modified Mon May 7 16:12:06 2012 UTC (7 years, 11 months ago) by schristley
record final data
Revision 252 - Directory Listing
Modified Thu May 3 16:46:08 2012 UTC (7 years, 11 months ago) by schristley
add data handler to MCMC
Revision 251 - Directory Listing
Modified Mon Apr 23 20:39:02 2012 UTC (7 years, 11 months ago) by schristley
initial integration with Swarm
Revision 250 - Directory Listing
Modified Fri Mar 16 16:22:48 2012 UTC (8 years ago) by schristley
add 2D ScEM
Revision 249 - Directory Listing
Modified Fri Mar 9 23:12:57 2012 UTC (8 years, 1 month ago) by schristley
prevent double close of file
Revision 248 - Directory Listing
Modified Fri Mar 9 22:38:19 2012 UTC (8 years, 1 month ago) by schristley
fix bug
Revision 247 - Directory Listing
Modified Fri Mar 9 22:31:09 2012 UTC (8 years, 1 month ago) by schristley
put time calculation on GPU
Revision 246 - Directory Listing
Modified Fri Mar 9 15:35:02 2012 UTC (8 years, 1 month ago) by schristley
initial adaptive runge kutta fehlberg
Revision 245 - Directory Listing
Modified Wed Mar 7 20:39:14 2012 UTC (8 years, 1 month ago) by schristley
update subcellular element method
Revision 244 - Directory Listing
Modified Mon Mar 5 16:35:39 2012 UTC (8 years, 1 month ago) by schristley
update for GNUstep
Revision 243 - Directory Listing
Modified Fri Mar 2 21:26:52 2012 UTC (8 years, 1 month ago) by schristley
dynamic reaction rule model
Revision 242 - Directory Listing
Modified Wed Feb 29 21:49:11 2012 UTC (8 years, 1 month ago) by schristley
pass in both start and end time for invoke
Revision 241 - Directory Listing
Modified Wed Feb 29 17:42:32 2012 UTC (8 years, 1 month ago) by schristley
initial data handler support
Revision 240 - Directory Listing
Modified Fri Feb 24 21:21:13 2012 UTC (8 years, 1 month ago) by schristley
initial perturbation support
Revision 239 - Directory Listing
Modified Tue Feb 21 22:47:54 2012 UTC (8 years, 1 month ago) by schristley
modularize RK kernels, change time to actual time versus iterations
Revision 238 - Directory Listing
Modified Wed Feb 15 17:16:54 2012 UTC (8 years, 1 month ago) by schristley
add shared parameters
Revision 237 - Directory Listing
Modified Wed Feb 8 19:42:04 2012 UTC (8 years, 2 months ago) by schristley
better validation of parameter lists
Revision 236 - Directory Listing
Modified Mon Jan 30 18:28:21 2012 UTC (8 years, 2 months ago) by schristley
fix bug
Revision 235 - Directory Listing
Modified Fri Jan 27 20:01:55 2012 UTC (8 years, 2 months ago) by schristley
equilibration warm up runs for evolutionary strategy
Revision 234 - Directory Listing
Modified Fri Jan 27 20:01:04 2012 UTC (8 years, 2 months ago) by schristley
fix method names
Revision 233 - Directory Listing
Modified Fri Jan 20 19:54:55 2012 UTC (8 years, 2 months ago) by schristley
update build on GNUstep
Revision 232 - Directory Listing
Modified Fri Jan 20 19:53:53 2012 UTC (8 years, 2 months ago) by schristley
support for setting GPU device
Revision 231 - Directory Listing
Modified Fri Jan 20 19:46:28 2012 UTC (8 years, 2 months ago) by schristley
flag for initial random
Revision 230 - Directory Listing
Modified Fri Jan 20 19:45:10 2012 UTC (8 years, 2 months ago) by schristley
use newer API
Revision 229 - Directory Listing
Modified Fri Jan 20 19:44:17 2012 UTC (8 years, 2 months ago) by schristley
bug fix
Revision 228 - Directory Listing
Modified Sun Dec 4 13:19:01 2011 UTC (8 years, 4 months ago) by koen
Add new classes to BCAppKit header file
Revision 227 - Directory Listing
Modified Sun Dec 4 13:18:15 2011 UTC (8 years, 4 months ago) by koen
Commit BCEntrezController
Revision 226 - Directory Listing
Modified Tue Oct 25 20:48:01 2011 UTC (8 years, 5 months ago) by schristley
sequential monte carlo
Revision 225 - Directory Listing
Modified Sat Oct 8 19:20:45 2011 UTC (8 years, 6 months ago) by koen
updates
Revision 224 - Directory Listing
Modified Sat Oct 8 19:19:10 2011 UTC (8 years, 6 months ago) by koen
bugfix
Revision 223 - Directory Listing
Modified Sat Oct 8 12:10:44 2011 UTC (8 years, 6 months ago) by koen
spit and polish
Revision 222 - Directory Listing
Modified Sat Oct 8 01:05:15 2011 UTC (8 years, 6 months ago) by koen
added BCEntrezController to the framework
Revision 221 - Directory Listing
Modified Sat Oct 8 01:04:08 2011 UTC (8 years, 6 months ago) by koen
some polishing of the Entrez demo
Revision 220 - Directory Listing
Modified Fri Oct 7 03:59:47 2011 UTC (8 years, 6 months ago) by koen
new demo app Entrez
Revision 219 - Directory Listing
Modified Fri Oct 7 03:55:41 2011 UTC (8 years, 6 months ago) by koen
bug fixes
Revision 218 - Directory Listing
Modified Wed Oct 5 17:06:04 2011 UTC (8 years, 6 months ago) by schristley
BCSequenceID, data matrix and metabolism updates, new gene expression data class
Revision 217 - Directory Listing
Modified Tue Oct 4 23:04:10 2011 UTC (8 years, 6 months ago) by koen
some improvements on BCEntrezController
Revision 216 - Directory Listing
Modified Mon Oct 3 19:11:48 2011 UTC (8 years, 6 months ago) by koen
can now fetch multiple entries at once, and other improvements
Revision 215 - Directory Listing
Modified Mon Oct 3 19:09:55 2011 UTC (8 years, 6 months ago) by koen
accidentily removed
Revision 214 - Directory Listing
Modified Mon Oct 3 19:03:52 2011 UTC (8 years, 6 months ago) by schristley
basic MCMC implementation
Revision 213 - Directory Listing
Modified Sat Oct 1 01:32:06 2011 UTC (8 years, 6 months ago) by koen
fixes
Revision 212 - Directory Listing
Modified Sat Oct 1 01:30:18 2011 UTC (8 years, 6 months ago) by koen
new class to sarch the Entrez database
Revision 211 - Directory Listing
Modified Mon Sep 19 19:11:42 2011 UTC (8 years, 6 months ago) by schristley
rework evolutionary strategy
Revision 210 - Directory Listing
Modified Sun Sep 18 20:40:43 2011 UTC (8 years, 6 months ago) by koen
fix bug in setString that was calling the wrong super method
Revision 209 - Directory Listing
Modified Sun Sep 18 17:20:20 2011 UTC (8 years, 6 months ago) by koen
now using Xcode 4 and 10.6 SDK
Revision 208 - Directory Listing
Modified Thu Sep 8 20:53:05 2011 UTC (8 years, 7 months ago) by schristley
enhancements to reaction rule model
Revision 207 - Directory Listing
Modified Wed Jul 27 21:23:31 2011 UTC (8 years, 8 months ago) by schristley
initial CMA, new ReactionRuleModel, enhance SimulationController
Revision 206 - Directory Listing
Modified Wed Jun 15 17:20:44 2011 UTC (8 years, 9 months ago) by schristley
dynamic structure GPU for ReactionModel
Revision 205 - Directory Listing
Modified Tue Jun 14 21:09:52 2011 UTC (8 years, 9 months ago) by schristley
bring ReactionModel up-to-date, implement gene levels for flux balance
Revision 204 - Directory Listing
Modified Sat Jun 4 17:07:05 2011 UTC (8 years, 10 months ago) by koen
More small updates, see ChangeLog for details.
Revision 203 - Directory Listing
Modified Sat Jun 4 15:27:28 2011 UTC (8 years, 10 months ago) by koen
Fixed more compiler warnings, added accessors to BCSequenceArray
Revision 202 - Directory Listing
Modified Sat Jun 4 15:16:34 2011 UTC (8 years, 10 months ago) by koen
Added accessor for the sequenceArray and description ivars
Revision 201 - Directory Listing
Modified Sat Jun 4 13:24:56 2011 UTC (8 years, 10 months ago) by koen
try again, got errors in the previous attempt
Revision 200 - Directory Listing
Modified Mon May 30 19:58:41 2011 UTC (8 years, 10 months ago) by koen
fix missing bracket and cleaned up code indentations
Revision 199 - Directory Listing
Modified Mon May 30 15:30:38 2011 UTC (8 years, 10 months ago) by koen
Fixed linking for the example applications. They should now run fine with the framework in the trunk, without copying the framework to the /Library
Revision 198 - Directory Listing
Modified Sun May 29 03:45:02 2011 UTC (8 years, 10 months ago) by koen
code cleanup, see ChangeLog for details
Revision 197 - Directory Listing
Modified Sun May 29 02:50:20 2011 UTC (8 years, 10 months ago) by koen

Revision 196 - Directory Listing
Modified Tue Apr 19 03:12:44 2011 UTC (8 years, 11 months ago) by koen
update deprecated message

Revision 195 - Directory Listing
Modified Tue Apr 12 18:03:02 2011 UTC (8 years, 11 months ago) by schristley
add views
Revision 194 - Directory Listing
Modified Tue Apr 12 17:26:09 2011 UTC (8 years, 11 months ago) by schristley
initial version of deChelly for iPad
Revision 193 - Directory Listing
Modified Sat Mar 5 17:25:54 2011 UTC (9 years, 1 month ago) by schristley
add gff parser
Revision 192 - Directory Listing
Modified Tue Mar 1 20:48:29 2011 UTC (9 years, 1 month ago) by schristley
inital version of BioSwarm
Revision 191 - Directory Listing
Modified Mon Feb 21 18:19:33 2011 UTC (9 years, 1 month ago) by schristley
metabolism classes
Revision 190 - Directory Listing
Modified Mon Feb 21 16:04:27 2011 UTC (9 years, 1 month ago) by schristley
1.0-release branch for BioCocoa demos
Revision 189 - Directory Listing
Modified Thu Feb 10 17:37:14 2011 UTC (9 years, 1 month ago) by schristley
initial ontology support
Revision 188 - Directory Listing
Modified Tue Nov 2 15:41:25 2010 UTC (9 years, 5 months ago) by craigbateman

Revision 187 - Directory Listing
Modified Tue Nov 2 15:40:43 2010 UTC (9 years, 5 months ago) by craigbateman
Going to try again, now that I know obj-c a lot better
Revision 186 - Directory Listing
Modified Fri Oct 15 19:49:35 2010 UTC (9 years, 5 months ago) by schristley
add missing file
Revision 185 - Directory Listing
Modified Fri Oct 15 19:20:05 2010 UTC (9 years, 5 months ago) by schristley
remove 64-bit GNUstep hacks, data matrix enhancements
Revision 184 - Directory Listing
Modified Thu Oct 14 19:55:10 2010 UTC (9 years, 5 months ago) by schristley
remove 64-bit hacks for GNUstep
Revision 183 - Directory Listing
Modified Wed Sep 15 20:21:41 2010 UTC (9 years, 6 months ago) by schristley
restructure directories
Revision 182 - Directory Listing
Modified Wed Sep 15 20:21:27 2010 UTC (9 years, 6 months ago) by schristley
restructure directories
Revision 181 - Directory Listing
Modified Wed Sep 15 20:18:16 2010 UTC (9 years, 6 months ago) by schristley
restructure directories
Revision 180 - Directory Listing
Modified Wed Sep 15 20:14:00 2010 UTC (9 years, 6 months ago) by schristley
restructure directories
Revision 179 - Directory Listing
Modified Wed Sep 15 20:09:22 2010 UTC (9 years, 6 months ago) by schristley
initial support for cached sequences
Revision 178 - Directory Listing
Modified Wed Sep 15 19:14:50 2010 UTC (9 years, 6 months ago) by schristley
updates for building documentation
Revision 177 - Directory Listing
Modified Wed Sep 15 15:37:23 2010 UTC (9 years, 6 months ago) by schristley
updates to BCDataMatrix
Revision 176 - Directory Listing
Modified Fri May 7 03:14:18 2010 UTC (9 years, 11 months ago) by schristley
minor fixes
Revision 175 - Directory Listing
Modified Fri May 7 03:00:48 2010 UTC (9 years, 11 months ago) by schristley
new method in BCDataMatrix
Revision 174 - Directory Listing
Modified Fri May 7 02:55:15 2010 UTC (9 years, 11 months ago) by schristley
license update, minor bug fixes for GNUstep
Revision 173 - Directory Listing
Modified Thu Jan 14 22:31:07 2010 UTC (10 years, 2 months ago) by schristley
minor fixes, use standard universal build setting in xcode
Revision 172 - Directory Listing
Modified Mon Sep 21 01:10:02 2009 UTC (10 years, 6 months ago) by schristley
2.2-release branch
Revision 171 - Directory Listing
Modified Sun Sep 20 20:59:59 2009 UTC (10 years, 6 months ago) by schristley
version 2.2.0 information
Revision 170 - Directory Listing
Modified Sun Sep 20 20:12:33 2009 UTC (10 years, 6 months ago) by schristley
add missing GNUstep makefile, start logging changes
Revision 169 - Directory Listing
Modified Sun Sep 6 05:22:59 2009 UTC (10 years, 7 months ago) by craigbateman
Nevermind, when I chocked out this it built w/o errors.  Deleting the branch.

Revision 168 - Directory Listing
Modified Mon Aug 31 09:29:05 2009 UTC (10 years, 7 months ago) by craigbateman
Fix compile errors under snow leopard (OS X 10.6) with xcode 3.2

Revision 167 - Directory Listing
Modified Sat Jul 11 05:43:53 2009 UTC (10 years, 9 months ago) by schristley
update for GNUstep
Revision 166 - Directory Listing
Modified Thu Jul 2 23:13:14 2009 UTC (10 years, 9 months ago) by schristley
change to BSD style license
Revision 165 - Directory Listing
Modified Thu Jul 2 22:09:50 2009 UTC (10 years, 9 months ago) by schristley
comment out debug info, display more info with parse errors
Revision 164 - Directory Listing
Modified Fri Apr 3 07:03:53 2009 UTC (11 years ago) by craigbateman
Setup svn:ignore for user-specific xcode files and post-build folders

Revision 163 - Directory Listing
Modified Fri Apr 3 06:45:19 2009 UTC (11 years ago) by craigbateman
Cleanup compiler warnings & errors for printf statements in 10.5
Revision 162 - Directory Listing
Modified Fri Apr 3 02:42:10 2009 UTC (11 years ago) by craigbateman
Branch to hold BCSequence Class Cluster

Revision 161 - Directory Listing
Modified Thu Nov 13 00:39:43 2008 UTC (11 years, 4 months ago) by schristley
make Documentation a separate target, add BCDataMatrix documentation
Revision 160 - Directory Listing
Modified Sun Nov 2 18:36:45 2008 UTC (11 years, 5 months ago) by schristley
clean up licensing issues
Revision 159 - Directory Listing
Modified Sun Oct 26 22:15:30 2008 UTC (11 years, 5 months ago) by schristley
2.1.1 readme notes
Revision 158 - Directory Listing
Modified Wed Oct 22 01:15:35 2008 UTC (11 years, 5 months ago) by schristley
BCDataMatrix for managing data matrices
Revision 157 - Directory Listing
Modified Wed Oct 15 23:11:15 2008 UTC (11 years, 5 months ago) by schristley
support to read FASTQ format
Revision 156 - Directory Listing
Modified Tue Oct 7 22:11:54 2008 UTC (11 years, 6 months ago) by schristley
initial gene expression classes
Revision 155 - Directory Listing
Modified Mon Oct 6 23:52:40 2008 UTC (11 years, 6 months ago) by schristley
remove old files
Revision 154 - Directory Listing
Modified Mon Oct 6 23:44:15 2008 UTC (11 years, 6 months ago) by schristley
move demo apps out of main framework project
Revision 153 - Directory Listing
Modified Mon Oct 6 22:45:06 2008 UTC (11 years, 6 months ago) by schristley
merge 2.1.0 release changes back to trunk
Revision 152 - Directory Listing
Modified Sun Oct 5 23:15:05 2008 UTC (11 years, 6 months ago) by schristley
version setting for gnustep
Revision 151 - Directory Listing
Modified Sun Oct 5 21:24:00 2008 UTC (11 years, 6 months ago) by schristley
2.1.0 release tag
Revision 150 - Directory Listing
Modified Fri Oct 3 18:42:48 2008 UTC (11 years, 6 months ago) by schristley
simple installation instructions
Revision 149 - Directory Listing
Modified Fri Oct 3 18:39:47 2008 UTC (11 years, 6 months ago) by schristley
update readme, banner image
Revision 148 - Directory Listing
Modified Wed Oct 1 19:48:46 2008 UTC (11 years, 6 months ago) by schristley
2.1-release branch
Revision 147 - Directory Listing
Modified Tue Sep 30 22:05:19 2008 UTC (11 years, 6 months ago) by schristley
build single framework for GNUstep
Revision 146 - Directory Listing
Modified Tue Sep 30 17:48:52 2008 UTC (11 years, 6 months ago) by schristley
fix Cocoa after GNUstep restructure
Revision 145 - Directory Listing
Modified Mon Sep 29 06:27:54 2008 UTC (11 years, 6 months ago) by schristley
top level GNUstep makefile
Revision 144 - Directory Listing
Modified Mon Sep 29 06:24:52 2008 UTC (11 years, 6 months ago) by schristley
convert to BCFoundation
Revision 143 - Directory Listing
Modified Mon Sep 29 06:20:04 2008 UTC (11 years, 6 months ago) by schristley
restructure GNUstep build, separate AppKit and Foundation
Revision 142 - Directory Listing
Modified Mon Sep 22 20:16:14 2008 UTC (11 years, 6 months ago) by schristley
remove unused files, documentation cleanup
Revision 141 - Directory Listing
Modified Wed Aug 13 20:32:01 2008 UTC (11 years, 7 months ago) by schristley
64bit on GNUstep
Revision 140 - Directory Listing
Modified Sat Aug 2 18:26:36 2008 UTC (11 years, 8 months ago) by schristley
implement construct suffix array one sequence at a time
Revision 139 - Directory Listing
Modified Wed Jul 30 19:47:58 2008 UTC (11 years, 8 months ago) by schristley
Add soft masking (lower case letters) to suffix arrays
Revision 138 - Directory Listing
Modified Sat Jul 5 19:58:28 2008 UTC (11 years, 9 months ago) by schristley
eliminate compile warnings, 64bit clean
Revision 137 - Directory Listing
Modified Sat Jul 5 19:53:02 2008 UTC (11 years, 9 months ago) by schristley
eliminate hard-coded SDK settings
Revision 136 - Directory Listing
Modified Tue May 20 15:25:17 2008 UTC (11 years, 10 months ago) by schristley
list of publications related to BioCocoa code
Revision 135 - Directory Listing
Modified Sat May 17 03:24:38 2008 UTC (11 years, 10 months ago) by schristley
eliminate hard-coded SDK and target settings
Revision 134 - Directory Listing
Modified Sat Jan 26 21:37:21 2008 UTC (12 years, 2 months ago) by schristley
handle absolute/relative paths
Revision 133 - Directory Listing
Modified Thu Jan 10 20:20:05 2008 UTC (12 years, 3 months ago) by schristley
re-indent source code
Revision 132 - Directory Listing
Modified Thu Jan 10 19:56:46 2008 UTC (12 years, 3 months ago) by schristley
add trim program
Revision 131 - Directory Listing
Modified Thu Jan 10 19:48:34 2008 UTC (12 years, 3 months ago) by schristley
fix EOF bug
Revision 130 - Directory Listing
Modified Sun Oct 21 13:18:07 2007 UTC (12 years, 5 months ago) by koen
fix license
Revision 129 - Directory Listing
Modified Wed Oct 17 21:05:01 2007 UTC (12 years, 5 months ago) by schristley
implement trim method
Revision 128 - Directory Listing
Modified Wed Oct 17 16:14:45 2007 UTC (12 years, 5 months ago) by schristley
add MCP trim
Revision 127 - Directory Listing
Modified Wed Oct 17 15:38:25 2007 UTC (12 years, 5 months ago) by schristley
parentheses around assignment used as truth value as suggested by compiler
Revision 126 - Directory Listing
Modified Wed Oct 17 15:15:55 2007 UTC (12 years, 5 months ago) by schristley
convert mac file format to unix
Revision 125 - Directory Listing
Modified Wed Oct 17 14:58:26 2007 UTC (12 years, 5 months ago) by schristley
initial GNUstep port
Revision 124 - Directory Listing
Modified Wed Oct 17 14:50:16 2007 UTC (12 years, 5 months ago) by schristley
fix intersect method
Revision 123 - Directory Listing
Modified Fri Oct 12 18:18:04 2007 UTC (12 years, 5 months ago) by schristley
fix incorrect intersect and file duplication check
Revision 122 - Directory Listing
Modified Thu Oct 11 02:04:23 2007 UTC (12 years, 6 months ago) by schristley
remove DEBUG
Revision 121 - Directory Listing
Modified Thu Oct 11 01:09:41 2007 UTC (12 years, 6 months ago) by schristley
mem check for Linux systems
Revision 120 - Directory Listing
Modified Thu Oct 11 01:06:03 2007 UTC (12 years, 6 months ago) by schristley
use Foundation instead of Cocoa header
Revision 119 - Directory Listing
Modified Thu Oct 11 01:01:36 2007 UTC (12 years, 6 months ago) by schristley
GNUstep makefiles
Revision 118 - Directory Listing
Modified Thu Oct 11 00:54:52 2007 UTC (12 years, 6 months ago) by schristley
GNUstep makefile
Revision 117 - Directory Listing
Modified Wed Oct 10 21:30:11 2007 UTC (12 years, 6 months ago) by schristley
add Applications
Revision 116 - Directory Listing
Modified Fri Oct 5 21:06:27 2007 UTC (12 years, 6 months ago) by schristley
remove pragma warnings for GNUstep
Revision 115 - Directory Listing
Modified Fri Oct 5 20:44:50 2007 UTC (12 years, 6 months ago) by schristley
use fseeko and ftello instead
Revision 114 - Directory Listing
Modified Wed Sep 26 15:59:54 2007 UTC (12 years, 6 months ago) by schristley
BCMCP speed optimizations
Revision 113 - Directory Listing
Modified Wed Sep 26 14:14:14 2007 UTC (12 years, 6 months ago) by schristley
implement MCP union
Revision 112 - Directory Listing
Modified Wed Sep 26 01:20:18 2007 UTC (12 years, 6 months ago) by schristley
multiple char read and initial test for BCCachedSequenceFile
Revision 111 - Directory Listing
Modified Tue Sep 25 00:47:46 2007 UTC (12 years, 6 months ago) by schristley
update BCMCP for suffix array bug fixes
Revision 110 - Directory Listing
Modified Tue Sep 25 00:46:38 2007 UTC (12 years, 6 months ago) by schristley
handle missing newline on last line
Revision 109 - Directory Listing
Modified Mon Sep 24 22:21:09 2007 UTC (12 years, 6 months ago) by schristley
additional implementation for BCMCP
Revision 108 - Directory Listing
Modified Mon Sep 24 22:11:32 2007 UTC (12 years, 6 months ago) by schristley
tests for suffix array, fix some suffix array bugs
Revision 107 - Directory Listing
Modified Mon Sep 24 16:29:38 2007 UTC (12 years, 6 months ago) by schristley
enable efficient FASTA reader
Revision 106 - Directory Listing
Modified Mon Sep 24 16:27:39 2007 UTC (12 years, 6 months ago) by schristley
NSData init for BCSequence
Revision 105 - Directory Listing
Modified Mon Sep 24 16:25:52 2007 UTC (12 years, 6 months ago) by schristley
additional sequence reader tests
Revision 104 - Directory Listing
Modified Fri Sep 21 20:47:29 2007 UTC (12 years, 6 months ago) by schristley
add tests for fasta, strider and gck formats
Revision 103 - Directory Listing
Modified Fri Sep 21 01:16:31 2007 UTC (12 years, 6 months ago) by schristley
remove extra data file group
Revision 102 - Directory Listing
Modified Thu Sep 20 19:49:50 2007 UTC (12 years, 6 months ago) by schristley
support for MacVector sequence files
Revision 101 - Directory Listing
Modified Wed Sep 12 20:39:07 2007 UTC (12 years, 6 months ago) by schristley
support for cached sequence files
Revision 100 - Directory Listing
Modified Wed Sep 12 20:19:32 2007 UTC (12 years, 6 months ago) by schristley
initial union and intersect MCP code
Revision 99 - Directory Listing
Modified Sat Sep 8 22:02:47 2007 UTC (12 years, 7 months ago) by schristley
enumeration class, memory checking
Revision 98 - Directory Listing
Modified Sat Sep 8 22:01:40 2007 UTC (12 years, 7 months ago) by schristley
add output routines
Revision 97 - Directory Listing
Modified Mon Aug 13 19:31:07 2007 UTC (12 years, 7 months ago) by schristley
Initial implementation of BCAnalysis, suffix arrays and maximal common prefixes
Revision 96 - Directory Listing
Modified Mon Aug 13 19:27:17 2007 UTC (12 years, 7 months ago) by schristley
faster, memory efficient parse of FASTA files
Revision 95 - Directory Listing
Modified Mon Aug 13 19:24:30 2007 UTC (12 years, 7 months ago) by schristley
initializer of BCSequence with NSData
Revision 94 - Directory Listing
Modified Tue Sep 26 01:15:30 2006 UTC (13 years, 6 months ago) by koen
now builds with BioCocoa 2.0
Revision 93 - Directory Listing
Modified Mon Sep 25 01:05:32 2006 UTC (13 years, 6 months ago) by koen
fix bug in (NSString*)sequenceString - thanks Scott!
Revision 92 - Directory Listing
Modified Sun Aug 13 04:05:56 2006 UTC (13 years, 7 months ago) by koen
fix typo
Revision 91 - Directory Listing
Modified Sat Aug 12 21:06:41 2006 UTC (13 years, 7 months ago) by koen
updated some #defines and const strings
Revision 90 - Directory Listing
Modified Sat Aug 12 15:21:08 2006 UTC (13 years, 7 months ago) by koen
added writeFastaFile method. Not yet tested, though.
Revision 89 - Directory Listing
Modified Sat Aug 12 15:03:08 2006 UTC (13 years, 7 months ago) by koen
temporarily fix some compiler warnings - needs to be worked on
Revision 88 - Directory Listing
Modified Sat Aug 12 14:47:59 2006 UTC (13 years, 7 months ago) by koen
initial import of BCSequenceWriter class
Revision 87 - Directory Listing
Modified Thu Aug 10 01:44:29 2006 UTC (13 years, 8 months ago) by koen
release 2.0
Revision 86 - Directory Listing
Modified Thu Aug 10 01:43:30 2006 UTC (13 years, 8 months ago) by koen
wrong folder....
Revision 85 - Directory Listing
Modified Thu Aug 10 01:42:20 2006 UTC (13 years, 8 months ago) by koen
releasing 2.0
Revision 84 - Directory Listing
Modified Thu Aug 10 01:36:58 2006 UTC (13 years, 8 months ago) by koen
remove files for release 2.0
Revision 83 - Directory Listing
Modified Thu Aug 10 01:32:55 2006 UTC (13 years, 8 months ago) by koen
step 1, copy to branches
Revision 82 - Directory Listing
Modified Thu Aug 10 01:31:22 2006 UTC (13 years, 8 months ago) by koen
grrr, one more time...
Revision 81 - Directory Listing
Modified Thu Aug 10 01:29:40 2006 UTC (13 years, 8 months ago) by koen
release 2.0
Revision 80 - Directory Listing
Modified Fri Aug 4 00:17:14 2006 UTC (13 years, 8 months ago) by koen
2.0 pre-release
Revision 79 - Directory Listing
Modified Thu Aug 3 23:38:59 2006 UTC (13 years, 8 months ago) by koen
start over with 2.0 release preparation
Revision 78 - Directory Listing
Modified Thu Aug 3 01:57:25 2006 UTC (13 years, 8 months ago) by koen
prepare for 2.0 release
Revision 77 - Directory Listing
Modified Thu Aug 3 01:56:28 2006 UTC (13 years, 8 months ago) by koen
prepare for 2.0 release
Revision 76 - Directory Listing
Modified Thu Aug 3 01:25:33 2006 UTC (13 years, 8 months ago) by koen
prepare for 2.0 release
Revision 75 - Directory Listing
Modified Wed Aug 2 10:10:06 2006 UTC (13 years, 8 months ago) by koen
test for svn copy
Revision 74 - Directory Listing
Modified Wed Aug 2 01:51:11 2006 UTC (13 years, 8 months ago) by koen
Upcoming release 2.0
Revision 73 - Directory Listing
Modified Wed Aug 2 01:42:49 2006 UTC (13 years, 8 months ago) by koen
set CFBundleSignature to BioC
Revision 72 - Directory Listing
Modified Wed Aug 2 01:40:46 2006 UTC (13 years, 8 months ago) by koen

Revision 71 - Directory Listing
Modified Sat Jul 29 23:01:20 2006 UTC (13 years, 8 months ago) by koen
fix bug for cases when the sequence has no symbols
Revision 70 - Directory Listing
Modified Sat Jul 22 14:17:20 2006 UTC (13 years, 8 months ago) by koen
more CC license added
Revision 69 - Directory Listing
Modified Sat Jul 22 13:38:17 2006 UTC (13 years, 8 months ago) by koen
add CC license
Revision 68 - Directory Listing
Modified Sat Jul 22 13:38:11 2006 UTC (13 years, 8 months ago) by koen
add CC license
Revision 67 - Directory Listing
Modified Fri Jul 21 21:37:21 2006 UTC (13 years, 8 months ago) by koen
First round of updating the license to Creative Commons
Revision 66 - Directory Listing
Modified Sun Jul 9 15:20:00 2006 UTC (13 years, 9 months ago) by koen
Added settings to make framework universal
Revision 65 - Directory Listing
Modified Sat Jul 8 14:34:53 2006 UTC (13 years, 9 months ago) by koen
incorporate Alex's sliding window code
Revision 64 - Directory Listing
Modified Mon Jul 3 21:40:03 2006 UTC (13 years, 9 months ago) by koen
some code cleanup
Revision 63 - Directory Listing
Modified Mon Jul 3 21:37:24 2006 UTC (13 years, 9 months ago) by koen
some code cleanup
Revision 62 - Directory Listing
Modified Mon Jul 3 21:36:53 2006 UTC (13 years, 9 months ago) by koen
some code cleanup
Revision 61 - Directory Listing
Modified Mon Jul 3 21:34:28 2006 UTC (13 years, 9 months ago) by koen
use class method in subSequenceInRange
Revision 60 - Directory Listing
Modified Sat May 6 15:32:09 2006 UTC (13 years, 11 months ago) by koen
fix #imports
Revision 59 - Directory Listing
Modified Fri May 5 02:13:28 2006 UTC (13 years, 11 months ago) by koen
fix bug for when line is 'XX' and when reading embl file.
Revision 58 - Directory Listing
Modified Fri Apr 28 21:18:26 2006 UTC (13 years, 11 months ago) by koen
fixed bug when passing an empty string to setString:
Revision 57 - Directory Listing
Modified Wed Apr 26 01:17:37 2006 UTC (13 years, 11 months ago) by koen
temp 'hardcoded' fix for symbols per column bug
Revision 56 - Directory Listing
Modified Sun Apr 23 19:59:49 2006 UTC (13 years, 11 months ago) by koen
Added code to init a symbolArray in BCSequenceCodon
Revision 55 - Directory Listing
Modified Sat Apr 22 01:54:44 2006 UTC (13 years, 11 months ago) by koen
Added code to control case of displayed symbols
Revision 54 - Directory Listing
Modified Wed Apr 19 01:33:06 2006 UTC (13 years, 11 months ago) by koen
Fix from Alex for overlay bug. Still need to implement setting the number of symbols per column.
Revision 53 - Directory Listing
Modified Mon Apr 17 23:31:31 2006 UTC (13 years, 11 months ago) by koen
refactoring of reading code
Revision 52 - Directory Listing
Modified Sun Apr 16 14:18:14 2006 UTC (13 years, 11 months ago) by koen
Added hasCaseInsensitiveSuffix, and fixed some compiler warnings
Revision 51 - Directory Listing
Modified Sat Apr 15 18:42:17 2006 UTC (13 years, 11 months ago) by koen
Fix for pasting rich text - problem was in nib-files
Revision 50 - Directory Listing
Modified Sat Apr 15 13:37:01 2006 UTC (13 years, 11 months ago) by koen
fix for reading file
Revision 49 - Directory Listing
Modified Sat Apr 15 13:36:17 2006 UTC (13 years, 11 months ago) by koen
some project cleanup
Revision 48 - Directory Listing
Modified Fri Apr 14 15:05:29 2006 UTC (13 years, 11 months ago) by koen
now commit using svnX
Revision 47 - Directory Listing
Modified Fri Apr 14 01:18:24 2006 UTC (13 years, 11 months ago) by koen
Updated BCSequenceView based on Alex's improved KDTextView. Translation demo now uses delegate method to filter input. Still need to strip rtftext to plaintext, probably using a category in BCUtilStrings.
Revision 46 - Directory Listing
Modified Wed Apr 12 23:17:33 2006 UTC (13 years, 11 months ago) by koen
Fix for STRIDER and GCK formats for intel processors
Revision 45 - Directory Listing
Modified Tue Apr 11 22:48:02 2006 UTC (14 years ago) by koen
Added support for reading exDNA files
Revision 44 - Directory Listing
Modified Tue Apr 11 22:46:54 2006 UTC (14 years ago) by koen
small changes and added support for reading exDNA files in the Translation demo
Revision 43 - Directory Listing
Modified Tue Apr 11 22:13:16 2006 UTC (14 years ago) by koen
added some suggestions from the mailinglist
Revision 42 - Directory Listing
Modified Tue Apr 11 02:24:18 2006 UTC (14 years ago) by koen
simplified code in readPhylipFile
Revision 41 - Directory Listing
Modified Mon Apr 10 08:28:19 2006 UTC (14 years ago) by koen
preparing for more formats
Revision 40 - Directory Listing
Modified Sun Apr 9 03:27:03 2006 UTC (14 years ago) by koen
Added phylip format, and initial setup for msf-format
Revision 39 - Directory Listing
Modified Sat Apr 8 01:16:24 2006 UTC (14 years ago) by koen
Added GDE format
Revision 38 - Directory Listing
Modified Fri Apr 7 02:19:42 2006 UTC (14 years ago) by koen
Added reading pir format, fixed reading clustal format for sequences with leading whitespaces, and some bugfixes
Revision 37 - Directory Listing
Modified Thu Apr 6 01:06:08 2006 UTC (14 years ago) by koen
improved reading clustal files
Revision 36 - Directory Listing
Modified Wed Apr 5 02:03:47 2006 UTC (14 years ago) by koen
change KDTextView to BCSequenceView
Revision 35 - Directory Listing
Modified Wed Apr 5 02:02:57 2006 UTC (14 years ago) by koen
initial import of doc about using subversion
Revision 34 - Directory Listing
Modified Wed Apr 5 01:50:45 2006 UTC (14 years ago) by koen
small fixes
Revision 33 - Directory Listing
Modified Wed Apr 5 01:50:17 2006 UTC (14 years ago) by koen
now displays correct app name
Revision 32 - Directory Listing
Modified Wed Apr 5 01:47:47 2006 UTC (14 years ago) by koen
fix for reading TEXT files, and added clustal reading.
Revision 31 - Directory Listing
Modified Tue Apr 4 22:49:35 2006 UTC (14 years ago) by koen
fix for selection of columns
Revision 30 - Directory Listing
Modified Tue Apr 4 00:58:12 2006 UTC (14 years ago) by koen
Linenumbers fix
Revision 29 - Directory Listing
Modified Fri Mar 31 13:50:40 2006 UTC (14 years ago) by koen
fix typo
Revision 28 - Directory Listing
Modified Sun Mar 26 23:43:40 2006 UTC (14 years ago) by koen
No log message.
Revision 27 - Directory Listing
Modified Sat Mar 25 12:47:46 2006 UTC (14 years ago) by koen
Added Alex's selection code in BCSequenceView
Revision 26 - Directory Listing
Modified Sat Mar 25 02:07:52 2006 UTC (14 years ago) by koen
More use of BioCocoa framework. Now only need to look at the 'Entrez' code
Revision 25 - Directory Listing
Modified Sat Mar 25 01:54:59 2006 UTC (14 years ago) by koen
Moved sequence functions to use BCSequence
Revision 24 - Directory Listing
Modified Sat Mar 25 01:14:29 2006 UTC (14 years ago) by koen
cleanup project after switch to BioCocoa framework

Revision 23 - Directory Listing
Modified Sat Mar 25 01:12:41 2006 UTC (14 years ago) by koen
obsolete
Revision 22 - Directory Listing
Modified Sat Mar 25 00:56:24 2006 UTC (14 years ago) by koen
more nib cleanup
Revision 21 - Directory Listing
Modified Sat Mar 25 00:53:26 2006 UTC (14 years ago) by koen
NIB cleanup
Revision 20 - Directory Listing
Modified Sat Mar 25 00:42:11 2006 UTC (14 years ago) by koen
switch to BCSequenceView

Revision 19 - Directory Listing
Modified Fri Mar 24 02:08:38 2006 UTC (14 years ago) by koen
convert to BCSequenceView
Revision 18 - Directory Listing
Modified Tue Mar 21 23:02:25 2006 UTC (14 years ago) by koen
oops - reverse for trick to commit
Revision 17 - Directory Listing
Modified Tue Mar 21 23:00:34 2006 UTC (14 years ago) by koen
more updates
Revision 16 - Directory Listing
Modified Tue Mar 21 02:50:31 2006 UTC (14 years ago) by koen
make more MVC aware
Revision 15 - Directory Listing
Modified Sat Mar 18 22:03:09 2006 UTC (14 years ago) by koen
added setUnit method
Revision 14 - Directory Listing
Modified Sat Mar 18 22:02:16 2006 UTC (14 years ago) by koen
move structs to header file
Revision 13 - Directory Listing
Modified Sat Mar 18 21:09:03 2006 UTC (14 years ago) by koen
more integration with the sequence view
Revision 12 - Directory Listing
Modified Sat Mar 18 21:08:13 2006 UTC (14 years ago) by koen
more work on strider and gck methods
Revision 11 - Directory Listing
Modified Sat Mar 18 21:06:52 2006 UTC (14 years ago) by koen
added index for svn use
Revision 10 - Directory Listing
Modified Sat Mar 18 15:07:31 2006 UTC (14 years ago) by koen
change format of #define
Revision 9 - Directory Listing
Modified Sat Mar 18 14:27:33 2006 UTC (14 years ago) by koen
No log message.
Revision 8 - Directory Listing
Modified Sat Mar 18 14:25:03 2006 UTC (14 years ago) by koen
Now uses an openPanel to load sequences - also works with strider format
Revision 7 - Directory Listing
Modified Sat Mar 18 14:24:26 2006 UTC (14 years ago) by koen
Added window outlet to the controller object
Revision 6 - Directory Listing
Modified Sat Mar 18 14:23:55 2006 UTC (14 years ago) by koen
use original range in setSelectedRange, the calculated one crashes the app
Revision 5 - Directory Listing
Modified Sat Mar 18 14:23:08 2006 UTC (14 years ago) by koen
fix bug in initWithString that prevented setting the correct sequenceType
Revision 4 - Directory Listing
Modified Sat Mar 18 14:21:14 2006 UTC (14 years ago) by koen
Added count method
Revision 3 - Directory Listing
Modified Fri Mar 10 01:23:50 2006 UTC (14 years, 1 month ago) by koen
initial import of strider and gck formats from Alex's demo project
Revision 2 - Directory Listing
Modified Fri Mar 10 00:44:16 2006 UTC (14 years, 1 month ago) by koen
added line about wiki, just to test svn
Revision 1 - Directory Listing
Added Thu Mar 9 16:56:59 2006 UTC (14 years, 1 month ago) by peterschols
Initial import.