Timeline



Oct 9, 2007:

10:08 PM Ticket #118 (Overhaul of configure.ac) closed by Peter
fixed: (In [957]) Generation of documentation is disabled if software is …
10:07 PM Changeset [957] by Peter
Generation of documentation is disabled if software is missing. For …
5:53 PM Ticket #271 (NBC trains incorrectly when have total zero weight for a feature) created by Peter
When there is no data for a feature m is set to 0 and sigma is set to …
4:09 PM Ticket #270 (Support for different methods to aggregate classifiers in EnsembleBuilder) created by Markus Ringnér
In EnsembleBuilder? it is hard-coded that the prediction for each …
3:03 PM Changeset [956] by Markus Ringnér
Bug fixing
6:57 AM Changeset [955] by Jari Häkkinen
Addresses #118. Removing CFLAGS variable since we are not using C directly.
6:32 AM Changeset [954] by Jari Häkkinen
Addresses #118.
6:25 AM Changeset [953] by Jari Häkkinen
Addresses #118.
6:16 AM Changeset [952] by Jari Häkkinen
Addresses #118. Moved AC_LANG macro call to an early position.
5:54 AM Changeset [951] by Jari Häkkinen
Addresses #118. Adding gsl.m4 as suggested by Peter since configure …
1:16 AM Ticket #269 (MultiClassSVM) created by Peter
I think this is a missing feature. A MultiClassSVM is simply a …
1:09 AM Changeset [950] by Peter
SVM::make_classifier is now throwing if KernelLookup? is not passed.
1:00 AM Ticket #268 (SupervisedClassifier should return void) created by Peter
When SVM::train fails false is returned and a warning message is …
12:27 AM Changeset [949] by Peter
fixing bug in AveragerWeighted? so actually weights are used when …

Oct 8, 2007:

4:29 PM yat-0.3.1.tar.gz.MD5 attached to DownloadPage by Jari Häkkinen
4:28 PM yat-0.3.1.tar.gz attached to DownloadPage by Jari Häkkinen
4:28 PM DownloadPage edited by Jari Häkkinen
(diff)
4:06 PM Changeset [948] by Markus Ringnér
Adding support and checks for intended lookups in classifiers
2:40 PM WikiStart edited by Markus Ringnér
(diff)
8:42 AM DownloadPage edited by Peter
(diff)
5:35 AM WikiStart edited by Peter
removing redundant info - it is on DownloadPage (diff)
5:00 AM DownloadPage edited by Peter
(diff)
3:56 AM Ticket #226 (Create how to release document) closed by Peter
fixed: ReleaseProcedure page was created
3:54 AM ReleaseProcedure edited by Peter
(diff)
3:53 AM ReleaseProcedure edited by Peter
(diff)
3:49 AM ReleaseProcedure edited by Peter
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3:40 AM ReleaseProcedure edited by Peter
(diff)
3:35 AM ReleaseProcedure edited by Peter
(diff)
3:33 AM ReleaseProcedure edited by Peter
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3:31 AM ReleaseProcedure edited by Peter
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3:24 AM ReleaseProcedure edited by Peter
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3:23 AM ReleaseProcedure edited by Peter
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2:58 AM ReleaseProcedure edited by Peter
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2:17 AM ReleaseProcedure edited by Peter
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2:01 AM ReleaseProcedure created by Peter
1:45 AM WikiStart edited by Peter
(diff)
12:51 AM Changeset [947] by Peter
removing [] in AC_INIT in command
12:27 AM DownloadPage edited by Peter
(diff)
12:26 AM DownloadPage created by Peter
12:22 AM WikiStart edited by Peter
(diff)

Oct 7, 2007:

11:46 PM Changeset [946] by Peter
setting CFLAGS variable
11:39 PM Changeset [945] by Peter
move down waning about missing docs program. Also fixed a typo.
11:10 PM Changeset [944] by Peter
added test for presence for doxygen, latex, dvipdfm, and latex2html. …
10:02 PM Changeset [943] by Peter
removing variables not needed and modified AM_INIT_AUTOMAKE to modern form
9:03 PM Changeset [942] by Peter
testing that GSL version is >= 1.6
8:49 PM Changeset [941] by Peter
shaping up configure.ac. Replaced AC_CHECK_LIB with AC_SEARCH_LIBS …
8:27 PM Changeset [940] by Peter
fixing problem to find gsl in configure. I suspect the problem was …
6:22 PM Changeset [939] by Jari Häkkinen
Test to see if we should replace current matrix/vector with MTL4.

Oct 6, 2007:

1:24 AM Ticket #264 (Score in InputRanker) closed by Peter
fixed: (In [938]) Well Score is an abstract interface class so const& will …
1:24 AM Changeset [938] by Peter
improving constness correctness
1:15 AM Ticket #210 (Distance should take DataLookupWeighted1D) closed by Peter
wontfix: Distance has been replaced by template functions (see ticket:250)
1:11 AM Changeset [937] by Peter
changing name of IteratorTraits? to iterator_traits
1:02 AM Changeset [936] by Peter
reimplementing yat_assert as a throwing function
12:50 AM Ticket #267 (iterator for 2D Lookups) created by Peter
related to ticket:256 ticket:263 ticket:306 Instead of using …

Oct 5, 2007:

11:31 PM Changeset [935] by Peter
fixing doxygen problem
11:27 PM Changeset [934] by Peter
fixing bug when range is one value only
11:18 PM Ticket #265 (median should work on iterators (rather than std::vector)) closed by Peter
fixed: (In [932])
11:15 PM Changeset [933] by Peter
mad function now takes iterators
11:03 PM Changeset [932] by Peter
median and percentile functions now take iterators rather than vectors
10:58 PM Ticket #266 (what is statistics::add in utility.h doing?) created by Peter
needs ticket:292 Is these functions needed? Could we translate them …
10:03 PM Ticket #265 (median should work on iterators (rather than std::vector)) created by Peter
median is a special case of percentile and consequently percentile …
5:51 PM Ticket #249 (Euclidean returns squared value) closed by Markus Ringnér
fixed
5:43 PM Ticket #250 (The new vector_distance structure should replace the old Distance ...) closed by Markus Ringnér
fixed: The old Distance structure is removed in [931].
5:42 PM Changeset [931] by Markus Ringnér
Working on ticket:259. Removed old Distance see ticket:250

Oct 4, 2007:

3:30 PM Changeset [930] by Markus Ringnér
Fixed support for MatrixLookup? in NCC. See ticket:259
12:20 AM Changeset [929] by Peter
grammar
12:16 AM Ticket #264 (Score in InputRanker) created by Peter
InputRanker? is taking a Score& but every function in Score is const. …

Oct 3, 2007:

11:09 PM Ticket #263 (matrix and iterators) created by Peter
related to ticket:256 and ticket:267 I would like to have three types …
6:59 PM Changeset [928] by Peter
removing some includes not needed
6:58 PM Changeset [927] by Peter
modifying weighted euclidean
8:11 AM Changeset [926] by Markus Ringnér
Fixing minor mistakes so things gets installed with make install
12:22 AM Ticket #262 (Add section on Distance in weighted statistics document) created by Peter

Oct 2, 2007:

11:24 PM Ticket #199 (NNI should use Euclidean) closed by Peter
wontfix: NNI works fine. No reason to change it.
4:02 PM Changeset [925] by Markus Ringnér
NCC and IGP have been changed to templates on Distance
11:47 AM Changeset [924] by Markus Ringnér
See ticket:190
10:55 AM Ticket #190 (utility::vector and utility::matrix expects quiet_NaN is supported but ...) reopened by Jari Häkkinen
The AC check may pass but the quiet_NaN support is flaky in the …

Oct 1, 2007:

8:29 PM Changeset [923] by Jari Häkkinen
Changed references to CVS to refer to subversion. Moved FIXME items to …
8:24 PM Ticket #190 (utility::vector and utility::matrix expects quiet_NaN is supported but ...) closed by Jari Häkkinen
fixed: Fixed in changeset:922
8:22 PM Changeset [922] by Jari Häkkinen
Fixes #190. configure now checks for quite Nan. Check for this removed …
10:59 AM Ticket #261 (Implement yat_assert properly) created by Jari Häkkinen
The vanilla version provided by Peter do not work on Mac. Some more …
10:57 AM Changeset [921] by Jari Häkkinen
Removed undefined macro on MacOSX. Now the yat_assert compiles.

Sep 30, 2007:

4:38 AM Ticket #241 (Remove lost '>' on Doxygen first page) closed by Peter
fixed: fixed in [920]
4:38 AM Changeset [920] by Peter
fixes #241
3:38 AM Ticket #239 (to_lower and to_upper should return reference to passed string) closed by Peter
fixed: fixed in [919]
3:38 AM Changeset [919] by Peter
fixes #239
3:33 AM Ticket #257 (matrix does not accept "-inf") closed by Peter
fixed: fixed in [917] and [918]
3:32 AM Changeset [918] by Peter
modifing tests to fit new implementation
3:26 AM Changeset [917] by Peter
fixes #257
2:51 AM Ticket #260 (DataLookup2D should have a operator<<) closed by Peter
fixed: fixed in [916]
2:50 AM Changeset [916] by Peter
Sorry this commit is a bit to big. Adding a yat_assert. The yat …

Sep 29, 2007:

6:16 AM Ticket #260 (DataLookup2D should have a operator<<) created by Peter
4:24 AM Ticket #246 (Averager classes should have interface for Iterators) closed by Peter
fixed: in [914] For now I leave these as free functions.
4:20 AM Changeset [915] by Peter
fixing dox
4:18 AM Changeset [914] by Peter
refactoring add function in Averagers, refs #246
2:58 AM Changeset [913] by Peter
remove stupid extra include that was added in last ci
2:53 AM Changeset [912] by Peter
Made add function for AveragerPair? no longer accept weighted …
2:41 AM Changeset [911] by Peter
Made add function for Averager no longer accept weighted iterators. …
2:20 AM Changeset [910] by Peter
impl add function for AveragerWeighted?. The function distinguishes …
1:50 AM Ticket #251 (weighted_random_access_iterator_tag) closed by Peter
fixed: In [909] using weighted_iterator_traits, closes #251
1:49 AM Changeset [909] by Peter
using weighted_iterator_traits, closes #151
1:09 AM Ticket #259 (KNN/NBC/NCC should support both MatrixLookup and MatrixLookupWeighted) created by Peter
Matrix-based classifiers such as KNN, NBC and NCC should support both …
12:26 AM Changeset [908] by Peter
adding IteratorWeighted?.h in Makefile.am (so file is included in …

Sep 28, 2007:

1:03 AM Changeset [907] by Peter
adding copyright
1:02 AM Changeset [906] by Peter
1:00 AM Changeset [905] by Peter
Updating NEWS file and setting mime-type to text/x-trac-wiki

Sep 27, 2007:

11:40 PM Ticket #258 (Permutation test) created by Peter
I tend to write the same code over and over again […] Perhaps we …
10:12 PM Ticket #257 (matrix does not accept "-inf") created by Peter
Is that a restriction created by yat or is it inherited from GSL? If …
9:24 PM Ticket #256 (vector matrix view design - could it be improved?) created by Peter
related to ticket:267 I don't like the interface to views. For …
8:30 PM Changeset [904] by Peter
removing assert from header file
8:26 PM Changeset [903] by Markus Ringnér
Forgot this test in the last check-in.
11:52 AM Ticket #255 (Our iterators should use the special std base class iterator<>) created by Markus Ringnér
We are setting a bunch of typedefs first in Iterator (and …
11:01 AM Changeset [902] by Markus Ringnér
Fixing mistake in last revision (forgot to add KNN.h)
11:00 AM Changeset [901] by Markus Ringnér
Added a template KNN classifier where the distance measure is the …
9:10 AM Changeset [900] by Markus Ringnér
Refs #251. Fixed so the unweighted distances are at the …

Sep 26, 2007:

11:27 PM Ticket #253 (weighted euclidean in euclidean_vector_distance.h has some weird properties) closed by Peter
fixed: fixed in [889]
11:26 PM Changeset [899] by Peter
changed euclidean to fulfill design criteria, removes …
11:17 PM Ticket #254 (Document distance, euclidean_distance, ...) created by Peter
7:04 PM Ticket #251 (weighted_random_access_iterator_tag) reopened by Peter
I am not sure this discussion is finished. The problem is that if we …
6:31 PM Ticket #253 (weighted euclidean in euclidean_vector_distance.h has some weird properties) created by Peter
It returns sqrt(ap.sum_squared_deviation()) that is sqrt (sum [w_x …
6:01 PM Ticket #252 (value is not set properly in Iterator) created by Peter
value should probably reflect the return_type. At time being value
4:51 PM Ticket #251 (weighted_random_access_iterator_tag) closed by Peter
fixed: This is fine with me. Some comment though 1. Good. Writing code in …
3:44 PM Changeset [898] by Markus Ringnér
A first suggestion for how to adress #250. Also removed contamination …
12:18 AM Ticket #251 (weighted_random_access_iterator_tag) created by Peter
This ticket relates to various issues of how we should design things …

Sep 25, 2007:

10:46 PM Changeset [897] by Peter
removing keyword that was mistakingly added before
10:43 PM Changeset [896] by Peter
10:39 PM Changeset [895] by Peter
Another try, hm…
10:25 PM Changeset [894] by Peter
setting missing property Id on files
9:32 PM Changeset [893] by Peter
Removing make check' output. Please obey the rule that tests are mute …
9:25 PM Changeset [892] by Peter
Fixed documentation of sum_squared_deviation
8:54 PM Ticket #247 (IteratorWeighted: Design and implementation) reopened by Peter
I don't like operator* returning data*weight. I would rather see …
4:26 PM Changeset [891] by Markus Ringnér
Minor modifications
11:43 AM Ticket #250 (The new vector_distance structure should replace the old Distance ...) created by Markus Ringnér
NCC, IGP and perhaps other things use the old Distance classes. They …
11:38 AM Ticket #247 (IteratorWeighted: Design and implementation) closed by Markus Ringnér
fixed: In [890] this was implemented as utility::IteratorWeighted? with …
11:36 AM Ticket #245 (Distance should take Iterators) closed by Markus Ringnér
fixed
11:35 AM Changeset [890] by Markus Ringnér
Refs #245 #246 #247
9:33 AM Ticket #249 (Euclidean returns squared value) created by Markus Ringnér
operator() in Euclidean calculates squared Euclidean distances. I …
9:30 AM Changeset [889] by Markus Ringnér
Refs #245. A new structure to calculate distances between vectors that …

Sep 24, 2007:

10:42 PM Changeset [888] by Peter
fixing doxygen parsing
10:05 PM Ticket #248 (avoid using GSL sort algo in vector::sort) created by Peter
There is a bug in underlying GSL sort (I know GSL people call it a …
9:52 PM Changeset [887] by Peter
made add function template so it accepts AveragerWeighted? too. Also …
9:01 PM Changeset [886] by Peter
add function for Averager and AveragerPair? taking iterators refs #246
8:35 PM Ticket #247 (IteratorWeighted: Design and implementation) created by Peter
relates to Iterator (#244) needed for ticket:246 Questions: 1. …

Sep 23, 2007:

2:23 AM Changeset [885] by Peter
adding some cleaning
12:57 AM Ticket #244 (Iterators for 1D containers) closed by Peter
fixed: Fixed in [881] [882] [883] and [884]
12:53 AM Changeset [884] by Peter
some documentation
12:05 AM Changeset [883] by Peter
fixing problems with iterator -> const_iterator conversion

Sep 22, 2007:

10:28 PM Changeset [882] by Peter
fixing includes - sorry about that
10:22 PM Changeset [881] by Peter
merged constIterator into Iterator and added an extra template …
1:43 AM Changeset [880] by Peter
refs #244

Sep 21, 2007:

4:10 PM Changeset [879] by Markus Ringnér
Added support to utility::vector for gsl-functions that finds indices …
12:36 AM Ticket #246 (Averager classes should have interface for Iterators) created by Peter
needs ticket:244 ticket:247 relates to ticket:245 More or less the …
12:35 AM Ticket #245 (Distance should take Iterators) created by Peter
needs ticket:244 Well, in fact it should not take Iterators, but be …
12:32 AM Ticket #244 (Iterators for 1D containers) created by Peter
relates to ticket:210 We need Iterators for our 1D containers. The …

Sep 20, 2007:

9:08 PM Changeset [878] by Markus Ringnér
Problem with previous checkin fixed
9:01 PM Changeset [877] by Markus Ringnér
This revision breaks the vector_test. I know this is against the rules …

Sep 19, 2007:

9:53 PM Changeset [876] by Jari Häkkinen
Added missing #include <cassert>
8:18 PM Ticket #243 (Unexpected version numbering of installed libraries) created by Jari Häkkinen
Doing ls -rtl /usr/local/lib after installation of yat 0.3.1 …
8:12 PM Ticket #242 (Test data files get installed in /usr/local/share) created by Jari Häkkinen
Related to ticket:278 Installing yat also installs test data. In …
2:17 AM Changeset [875] by Peter
rewriting SW algo, making code clearer, and perhaps removing a few bugs...?

Sep 18, 2007:

2:54 PM Ticket #237 (NCC::predict is incorrect for weights (not equal zero or unity)) closed by Markus Ringnér
fixed
2:53 PM Changeset [874] by Markus Ringnér
Fixes ticket:237
3:25 AM Ticket #241 (Remove lost '>' on Doxygen first page) created by Peter
3:14 AM Changeset [873] by Peter
fixing some docs
2:21 AM Changeset [872] by Peter
Some docs for TypeInfo?
12:41 AM Ticket #240 (CommandLine class) created by Peter
needed for ticket:217

Sep 17, 2007:

9:04 AM Ticket #233 (Links to documentation are broken) closed by Jari Häkkinen
fixed: Yes, this was fixed a few days ago on the wiki.

Sep 15, 2007:

1:48 AM Changeset [871] by Peter
minor docs fix

Sep 14, 2007:

9:14 PM Changeset [870] by Peter
After re-installing yat, the issue vanished, so here is the test for …
8:59 PM Changeset [869] by Peter
Adding Smith-Waterman local alignment and modified ssearch to use this …
6:52 PM Ticket #236 (Predictions using Ensemble with feature selection does not work properly) closed by Peter
fixed: ([868]) fixes ticket:236
6:51 PM Changeset [868] by Peter
fixes ticket:236
6:40 PM Ticket #238 (clone function in DataLookup2D returning pointer to new DataLookup2D ...) closed by Peter
invalid: Functionality, already exists. I don't change name of the function.
5:39 AM Ticket #239 (to_lower and to_upper should return reference to passed string) created by Peter
This simply allows suggestive code like […]
2:10 AM Ticket #238 (clone function in DataLookup2D returning pointer to new DataLookup2D ...) created by Peter
This is needed for ticket:236 (see discussion there) `virtual const …

Sep 13, 2007:

9:36 PM Changeset [867] by Peter
adding function doing a SSEARCH between two strings
9:04 PM Ticket #237 (NCC::predict is incorrect for weights (not equal zero or unity)) created by Peter
related to ticket:210 `void NCC::predict(const DataLookup2D& input, …

Sep 12, 2007:

10:18 PM WikiStart edited by Jari Häkkinen
Fixed broken link to the trunk documentation. (diff)
2:25 PM Changeset [866] by Markus Ringnér
refs #236. EnsembleBuilder::predict bug fixed for matrix-based …
12:03 PM Ticket #236 (Predictions using Ensemble with feature selection does not work properly) created by Markus Ringnér
EnsembleBuilder? does not use the features selected in predict. The …

Sep 10, 2007:

9:44 PM Ticket #232 (trac has moved - correct all links to this site) closed by Peter
fixed: fixed in [865]
9:41 PM Changeset [865] by Peter
changing URL to http://trac.thep.lu.se/trac/yat
4:38 PM Changeset [864] by Markus Ringnér
Added a lot of tests to feature_selection_test
4:17 PM Changeset [863] by Markus Ringnér
Fixed bug in FeatureSelectorIR that resulted in incorrect results!.
3:18 PM Changeset [862] by Markus Ringnér
Fixed bug in InputRanker? that sometimes gave rise to a bus error …
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