Timeline



Sep 29, 2006:

4:04 PM WikiStart edited by Peter
fixed grammatical typo (diff)
3:14 PM Ticket #150 (microarray::DataSet) created by Peter
See also #82 #415 Could contain: * a class Probe(set)Info giving …
11:47 AM Changeset [664] by Peter
modified TODO to be in line with the Trac pages
11:42 AM Changeset [663] by Peter
added assignment operator in Target

Sep 27, 2006:

12:16 PM Changeset [662] by Peter
refs #57 added class for Naive Baysian Classification. Predict …
11:11 AM Changeset [661] by Peter
refs #68 added link to Weighted statistics document and svndigest …
10:54 AM Ticket #140 (Don't keep SVM and Index in same file) closed by Peter
fixed: (In [660]) closes #140 moved Index class to its own file and changed …
10:53 AM Changeset [660] by Peter
closes #140 moved Index class to its own file and changed name to SVindex

Sep 26, 2006:

3:44 PM Tickets #147,​136 batch updated by Peter
fixed: (In [659]) fixes #147 and #136
3:44 PM Changeset [659] by Peter
fixes #147 and #136
3:41 PM Ticket #149 (Target constructor from Target and vector<string>) created by Peter
The constructor being very similar to the vector<string> Constructor, …
12:51 PM Ticket #148 (use pointer dynamic_cast when failure is ecpected) created by Peter
We are using dynamic_cast in quite a few places in classifier::. After …

Sep 25, 2006:

8:27 AM Ticket #147 (KernelLookup::test_kernel does not work) created by Peter
4:14 AM Ticket #146 (remove selected() in Kernel - use make_kernel() instead) created by Peter
4:12 AM Changeset [658] by Peter
added function in KernelLookup? to create a KernelLookup? from inner …

Sep 22, 2006:

12:19 PM Changeset [657] by Peter
finishing cleaning
12:08 PM Ticket #145 (Clean up interface of DataLookup2D (and daughters)) closed by Peter
fixed: (In [656]) fixes #145 cleaning up interface of DataLook2D. Those …
12:07 PM Changeset [656] by Peter
fixes #145 cleaning up interface of DataLook2D. Those function were …
10:37 AM Changeset [655] by Peter
improved documentation on EnsembleBulder::predict
10:29 AM Ticket #145 (Clean up interface of DataLookup2D (and daughters)) created by Peter
Some functions are neither used nor necessary, for example: const …
10:24 AM Changeset [654] by Peter
replaced some double-spaces with tabs making Doxygen parsing the …

Sep 21, 2006:

4:03 AM Changeset [653] by Peter
updated copyright statement
4:01 AM Changeset [652] by Peter
added tag in config file so namespaces are included in sorting class …
3:58 AM Changeset [651] by Peter
corrected dox in Kernel classes

Sep 19, 2006:

7:55 AM Ticket #144 (Tie in ROC) created by Peter
Behaviour when ties are present appears to be random.
7:51 AM Ticket #143 (add access to InputRankers in ConsensusInputRanker) created by Peter
7:50 AM Ticket #142 (Scores from the Inputranker) created by Peter
Add access to the scores that ranking is based on

Sep 15, 2006:

5:12 PM Changeset [650] by Peter
corrected documentation to be in line with guidinglines
4:03 PM Changeset [649] by Jari Häkkinen
Fixed typo in doxygen comment.

Sep 14, 2006:

8:24 AM Ticket #141 (unknown Target) created by Peter
ref #139 Would it make sense to have unknown Targets? My case is …
5:49 AM Ticket #55 (smart dynamically allocated Lookups) closed by Peter
wontfix
5:17 AM Ticket #140 (Don't keep SVM and Index in same file) created by Peter
Move Index to its own files and change name of class to SVIndex. Tell …
5:04 AM Ticket #133 (documentation bugs) closed by Peter
fixed: (In [648]) fixes #133 removed all errors reported from Doxygen. Only …
5:04 AM Changeset [648] by Peter
fixes #133 removed all errors reported from Doxygen. Only one error …

Sep 13, 2006:

1:01 PM Ticket #137 ("include" information in Doxygen) closed by Peter
fixed: (In [647]) fixes #137 added flag for doxygen to write includes in …
1:01 PM Changeset [647] by Peter
fixes #137 added flag for doxygen to write includes in preferable way.
7:04 AM Changeset [646] by Peter
removing pointer_comare because it is not a pointer_compare but rather …

Sep 12, 2006:

11:07 AM Ticket #139 (Combinations of Target objects) created by Peter
See also #150 The Target has got some binary functionality see e.g. …

Sep 8, 2006:

11:42 AM Changeset [645] by Markus Ringnér
Minor things
11:17 AM Ticket #138 (utility::matrix add function could be operator+=) created by Peter
The functions below look pretty much like operator+=, don't they? […]

Sep 7, 2006:

2:38 PM Changeset [644] by Jari Häkkinen
Set svndigest:ignore property on test data.
2:35 PM Changeset [643] by Jari Häkkinen
These are now superseeded by svndigest project, …
11:13 AM Changeset [642] by Peter
adding class for selecting features by random
9:52 AM Changeset [641] by Peter
added tag for Doxygen preprocessor to exclude internal Index class in SVM
9:27 AM Ticket #137 ("include" information in Doxygen) created by Peter
Doxygen only display file name e.g. #include <vector.h>, but it would …
7:38 AM Ticket #136 (Reference counter in Kernel) created by Peter
The problem is the same (not as severe though) as in DataLookup2D (#95).
7:11 AM Tickets #132,​95 batch updated by Peter
fixed: (In [640]) fixes #132 and #95, and refs #135 replaced bool owner in …
7:11 AM Changeset [640] by Peter
fixes #132 and #95, and refs #135 replaced bool owner in DataLookup2D …
6:36 AM Ticket #135 (Update documentation on DataLookup2D and daughter classes) created by Peter
2:19 AM Ticket #134 (BootstrapSampler) created by Peter
inherited from Sampler. What are the characteristics of Boostrap? …

Sep 6, 2006:

2:31 PM Ticket #133 (documentation bugs) created by Markus Ringnér
There are a bunch of comments that produce errors in the …
2:18 PM Changeset [639] by Markus Ringnér
Fixed documentation bugs
12:11 PM Changeset [638] by Markus Ringnér
Fixes #131
12:11 PM Ticket #131 (MatrixLookupWeighted constructor taking ONE utility::matrix) closed by Markus Ringnér
fixed: (In [638]) Fixes #131
9:54 AM Ticket #132 (SubsetGenerator with FeatureSelector crashes) created by Peter
4:15 AM Ticket #96 (Feature selection should not be part of SupervisedClassifier) closed by Peter
fixed
4:14 AM Ticket #122 (support feature selection in SubsetGenerator with Kernel built from ...) closed by Peter
fixed: (In [637]) fixes #122
4:14 AM Changeset [637] by Peter
fixes #122
3:51 AM Ticket #120 (remove weights in SubsetGenerator) closed by Peter
fixed: (In [636]) closes #120 removed weights from SubsetGenerator?
3:51 AM Changeset [636] by Peter
closes #120 removed weights from SubsetGenerator?
3:41 AM Ticket #131 (MatrixLookupWeighted constructor taking ONE utility::matrix) created by Peter
Internally a weight matrix is created using matrix::nan(). …
3:23 AM Ticket #119 (NCC and weights) closed by Peter
fixed: fixed in [632]
3:20 AM Ticket #106 (Disconnect SupervisedClassifier from SubsetGenerator) closed by Peter
fixed: (In [635]) closes #106 make_classifier is again taking DataLookup2D …
3:20 AM Changeset [635] by Peter
closes #106 make_classifier is again taking DataLookup2D and Target …
2:48 AM Ticket #130 (KernelLookups and MatrixLookups not in inheritance structure but template) created by Peter
This is just a thought: What would happen if we removed DataLookup2D …
2:32 AM Ticket #129 (avoid kernels in NCC) created by Peter
NCC has no constructor taking KernelLookup?& (or DataLookup2D&). Good. …

Sep 5, 2006:

3:54 PM Ticket #59 (NCC should accept external quality weights) closed by Markus Ringnér
fixed
3:50 PM Changeset [634] by Markus Ringnér
Fixed NCC predict to work with MatrixLookupWeighted?
1:57 PM Changeset [633] by Markus Ringnér
Minor fix
1:52 PM Changeset [632] by Markus Ringnér
Changes in NCC to support weight using MatrixLookupWeighted?. Still …
10:47 AM Ticket #102 (bool is_weighted() function in DataLook2D) closed by Peter
fixed: (In [631]) fixes #102 added weighted() to DataLookup2D.
10:47 AM Changeset [631] by Peter
fixes #102 added weighted() to DataLookup2D.
10:37 AM Ticket #117 (remove temporary interface in InputRanker with two MatrixLookup) closed by Peter
fixed: (In [630]) fixes #117
10:37 AM Changeset [630] by Peter
fixes #117
10:31 AM Ticket #125 (KerneFunction remove obsolete operator() taking FOUR arguments) closed by Peter
fixed: (In [629]) fixes #125 removing obsolete function and cleaning in …
10:31 AM Changeset [629] by Peter
fixes #125 removing obsolete function and cleaning in Kernel classes.
9:22 AM Tickets #116,​90 batch updated by Peter
fixed: (In [628]) fixes #116 and #90 removed classes KernelWeighted_SEV and …
9:22 AM Changeset [628] by Peter
fixes #116 and #90 removed classes KernelWeighted_SEV and …
7:42 AM Ticket #128 (Averagers should have interface against iterators) created by Peter
I suggest we remove interface against all containers and only have …
7:39 AM Ticket #124 (overload operator() in KernelFunction) closed by Peter
fixed: (In [627]) fixes #124 also extended interface of AveragerPairWeighted?
7:39 AM Changeset [627] by Peter
fixes #124 also extended interface of AveragerPairWeighted? supporting …
7:07 AM Ticket #127 (Use Distance::Euclidean in GaussianKernelFunction) created by Peter
K = exp(-(x-y)2/width ) where (x-y)2 is the Euclidean distance so …
7:01 AM Ticket #126 (Euclidean distance class) created by Peter
distance calculated as sum (x_i-y_i)2 also extend Distance interface …
5:51 AM Ticket #125 (KerneFunction remove obsolete operator() taking FOUR arguments) created by Peter
needs #116
5:48 AM Ticket #124 (overload operator() in KernelFunction) created by Peter
we need the following combinations of arguments * (const …
4:54 AM Tickets #113,​114 batch updated by Peter
fixed: (In [626]) fixes #113 and #114 removed Featureselection from NCC and …
4:54 AM Changeset [626] by Peter
fixes #113 and #114 removed Featureselection from NCC and …
4:37 AM Ticket #115 (remove feature selection stuff from SVM) closed by Peter
fixed: (In [625]) fixes #115 and ref #113 removed feature selection from SVM
4:37 AM Changeset [625] by Peter
fixes #115 and ref #113 removed feature selection from SVM
4:29 AM Tickets #110,​109 batch updated by Peter
fixed: (In [624]) fixes #109 and #110
4:29 AM Changeset [624] by Peter
fixes #109 and #110
4:13 AM Ticket #112 (Score classes taking DataLookup1DWeighted) closed by Peter
fixed: (In [623]) fixes #112 and refs #123 added overloaded function score …
4:13 AM Changeset [623] by Peter
fixes #112 and refs #123 added overloaded function score taking Target …
3:56 AM Ticket #123 (document SNR::score weighted version) created by Peter
3:29 AM Ticket #111 (DataLookup1DWeighted) closed by Peter
fixed: (In [622]) fixes #111
3:29 AM Changeset [622] by Peter
fixes #111
3:27 AM trac_usage edited by Peter
(diff)
2:21 AM Ticket #108 (dynamic_cast in SubsetGenerator using featureSelection) closed by Peter
fixed: (In [621]) fixes #108 SubsetGenerator? with featureselection is now …
2:21 AM Changeset [621] by Peter
fixes #108 SubsetGenerator? with featureselection is now supported for …
2:12 AM Ticket #122 (support feature selection in SubsetGenerator with Kernel built from ...) created by Peter
needs #116 #120 ref #108 needed for #96

Sep 4, 2006:

5:16 PM Changeset [620] by Markus Ringnér
Fixed problems with Averager that sometimes appeared as failures in …
8:58 AM Ticket #121 (garbage_ in FeatureSelector should it be there?) created by Peter
8:46 AM Ticket #120 (remove weights in SubsetGenerator) created by Peter
needs #108 #119 needed for #122
8:45 AM Ticket #119 (NCC and weights) created by Peter
needed for #120 NCC should not have an interface with two …
7:59 AM Ticket #118 (Overhaul of configure.ac) created by Jari Häkkinen
A couple of checks in configure.ac are not behaving properly (an …
7:59 AM Ticket #117 (remove temporary interface in InputRanker with two MatrixLookup) created by Peter
ref #109 #110
7:56 AM Ticket #116 (use MatrixLookupWeighted in Kernel) created by Peter
needs #111 #124
7:48 AM Ticket #115 (remove feature selection stuff from SVM) created by Peter
needed for #113
7:47 AM Ticket #114 (remove feature selection stuff from NCC) created by Peter
needed for #113
7:47 AM Ticket #113 (remove feature selection stuff from SupervisedClassifier) created by Peter
in particular from make_classifier needed for #96 needs #114 #115
7:37 AM Ticket #112 (Score classes taking DataLookup1DWeighted) created by Peter
needs #111 needed for #96 #110 overload operator() taking …
7:33 AM Ticket #111 (DataLookup1DWeighted) created by Peter
needed for #96 #110 #116 A new class looking very much like …
7:30 AM Ticket #110 (InputRanker interface: MatrixLookup and MatrixLookupWeighted) created by Peter
needs #108 #109 #111 #112 needed for #96 Instead of DataLookup2D …
7:24 AM Ticket #109 (weights and FeatureSelector) created by Peter
In FeatureSelector? update and get should be overloaded taking …
7:19 AM Ticket #108 (dynamic_cast in SubsetGenerator using featureSelection) created by Peter
Since FeatureSelection? only accepts MatrixLookup? and …
6:27 AM trac_usage edited by Peter
(diff)
6:20 AM Ticket #107 (bug in ensemble.build()) closed by Peter
fixed: (In [619]) fixes #107 and refs #105 fixed bug in EnsembleBuilder? and …
6:20 AM Changeset [619] by Peter
fixes #107 and refs #105 fixed bug in EnsembleBuilder? and removed some …

Sep 3, 2006:

9:20 AM Ticket #107 (bug in ensemble.build()) created by Peter
Using ensemble.build in test leads to a core dump. It looks like a …
9:12 AM Ticket #60 (Split CrossSplitter into Sampler and SubSet) closed by Peter
fixed: fixed in [615]
9:10 AM Ticket #54 (CrossSplitter of type Matrix from CrossSplitter of type Kernel) closed by Peter
wontfix: ticket:60 fixes this
9:02 AM Ticket #106 (Disconnect SupervisedClassifier from SubsetGenerator) created by Peter
With the introduction of MatrixLookupWeighted? I don't think there is a …
8:20 AM Changeset [618] by Peter
removing branch

Sep 2, 2006:

4:32 AM trac_usage edited by Peter
(diff)
2:09 AM trac_usage created by Jari Häkkinen
Added ticket usage information.
1:44 AM WikiStart edited by Jari Häkkinen
Added link to trac usage guidelines. (diff)

Sep 1, 2006:

2:37 AM Ticket #105 (remove asserts in header files) created by Peter
I don't think it's good style to have asserts in header files. The …

Aug 31, 2006:

11:10 AM Ticket #83 (Change name of the project!!) reopened by Jari Häkkinen
11:10 AM Ticket #84 (Move gslapi stuff to utility) closed by Jari Häkkinen
fixed
10:59 AM Ticket #83 (Change name of the project!!) closed by Jari Häkkinen
fixed
10:58 AM Changeset [617] by Jari Häkkinen
Cleaned up stray gslapi stuff.
10:52 AM Changeset [616] by Jari Häkkinen
Removed gslapi namespace and put the code into utility namespace. Move …
7:33 AM Changeset [615] by Peter
ref #60 NOTE: there is most likely a bug around. I have removed the …
7:08 AM Changeset [614] by Jari Häkkinen
Minor fixes in doxygen documentation.
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