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126 Commits

Author SHA1 Message Date
Einar Ryeng 4c716e9428 NetworkPlot now works, but does not allow node colors or sizes to be passed as keyword arguments. 2006-08-03 14:30:06 +00:00
Einar Ryeng 44b676f726 system/plots.py: Fixed a few bugs in NetworkPlot. 2006-08-01 14:26:33 +00:00
Einar Ryeng b3d681ef16 * system/plots.py: Added NetworkPlot, which may or may not work correctly. 
* system/dataset.py: Removed a few lines of obsolete code.
 2006-08-01 13:22:39 +00:00
Arnar Flatberg 37b4d55a86 2006-08-01 11:01:52 +00:00
Arnar Flatberg a55a872399 fix output for indices is empty array 2006-08-01 10:53:44 +00:00
Arnar Flatberg 27472defda bugfix in get_identifiers 2006-08-01 10:33:45 +00:00
Arnar Flatberg 676ea4e0b9 removed shape in constructor, added all_dims to dataset base class, updated get_identifiers and get_indices 
Denne linjen og de som er under vil bli ignorert--

M    dataset.py
 2006-08-01 09:45:53 +00:00
Einar Ryeng 61da4f562e Added LICENCE (the pure GPL text copied verbatim from gnu.org) and README. 
Started to add a NetworkX plot in plots.py
 2006-07-31 14:57:24 +00:00
Einar Ryeng 87f87e36c8 * system/fluents.py: Fixed a bug where the the application tried to load 
a toolbar from None

 * system/plots.py: Fixed MainView.insert_view that was a no-op when in large
   view.

 * system/dataset.py: Changed __str__ of dataset to also show names of dimensions.
 2006-07-21 14:30:09 +00:00
Einar Ryeng aca9a47f56 Toolbars work again. 2006-06-01 13:51:16 +00:00
Einar Ryeng 0670c42bd4 Drag and drop from the navigator to the viewframes now work. 2006-05-29 19:14:48 +00:00
Einar Ryeng 581cef75ae Fixed plot things. A plot can only be attached to one view now. 2006-05-29 11:24:33 +00:00
Einar Ryeng 62c1d79dac Fixed large/small plot bug by adding ViewFrames that contains plots. 2006-05-22 21:43:24 +00:00
Truls Alexander Tangstad 9ab1ebe687 Small cleanup. 2006-05-09 14:16:22 +00:00
Truls Alexander Tangstad 443b18cea6 Made sure ordering of matrices are ok. 2006-05-09 14:13:09 +00:00
Truls Alexander Tangstad 86f89b6ffe Typo. 2006-05-09 13:51:14 +00:00
Truls Alexander Tangstad 5b1af849dc Implemented Limma function for Affy workflow. 
Extended ScatterPlot to take two datasets and updated code using it.
 2006-05-09 13:17:17 +00:00
Reidar Strand Hagen 033d4d5333 removed reorderability 2006-05-09 13:00:16 +00:00
Reidar Strand Hagen 184a49ef9a fixed ordering of multiple selected datasets 2006-05-09 12:22:50 +00:00
Truls Alexander Tangstad 0db25f1dd7 Changed use of Dataset.get_matrix() to Dataset.asarray() and removed it. 2006-05-05 14:43:53 +00:00
Truls Alexander Tangstad 97f56f66ac Added text-input for contrast-matrix creator for affymetrics workflow. 2006-05-05 14:30:23 +00:00
Truls Alexander Tangstad 98445498b5 If argument 'selection' exists in function.run, pass current selection to it. 2006-05-05 13:10:54 +00:00
Truls Alexander Tangstad aa3a9ab619 Added automagic argument checking when running functions. 2006-05-05 10:10:03 +00:00
Truls Alexander Tangstad 9f7ee74189 Replaced function as button-attribute with lambda as button click handler. 2006-05-04 15:32:59 +00:00
Truls Alexander Tangstad fafa373e67 Added categorygetter for PhenotypeDataset. 2006-05-04 13:30:04 +00:00
Reidar Strand Hagen 338778d7b1 Functions which doesn't require inputs will now run with data selected 2006-05-03 14:47:55 +00:00
Truls Alexander Tangstad fb7128138e Fixed floats in phenotype importer. 
Added PrintFunction for debug-printing.
Added PhenotypeImportFunction to AffyWorkflow.
 2006-05-03 14:27:38 +00:00
Truls Alexander Tangstad b757da5929 Implemented PhenotypeDataset with tests. 2006-05-03 14:04:28 +00:00
Reidar Strand Hagen 56a6028547 Validation on number of inputs added 2006-05-03 11:52:54 +00:00
Truls Alexander Tangstad a613f0a3fa Made scatter use the new methods for index/identifier-conversion. 2006-05-03 11:40:12 +00:00
Reidar Strand Hagen 5b2223afcd Multiselection included. (Without input validation). 2006-05-03 11:11:45 +00:00
Truls Alexander Tangstad 91c1d8ea8b Fixed getting empty selections. 2006-05-02 15:40:54 +00:00
Truls Alexander Tangstad 56c07c6392 Implemented Dataset.get_indices() and extended Dataset.get_identifiers() to convert between indices and identifiers and subsets thereof. 
Also added tests.
 2006-05-02 14:06:48 +00:00
Truls Alexander Tangstad bda48169fe Fixed imports to make test run. 2006-05-02 13:21:24 +00:00
Truls Alexander Tangstad 2db1fc774e Removed whitespace. 2006-05-02 13:14:07 +00:00
Reidar Strand Hagen e363f1cd7d Signals for drag'n'drop added to new plots 2006-05-02 12:38:00 +00:00
Reidar Strand Hagen 4e4150236f Drag'n'drop for plots 2006-05-02 11:09:55 +00:00
Truls Alexander Tangstad a2d3a9d5cc Made PCA more generic, even enable PCA of existing PCA-results as dimension names are modified to handle dimension name component in input. 2006-04-28 11:44:55 +00:00
Reidar Strand Hagen fa3b1182bc Added font/bg colours to Navigator. (uses coloumns 3,4 in TreeModel, set in projects.py) 2006-04-27 15:51:25 +00:00
Truls Alexander Tangstad 8fd1f4ba83 Renamed module for affy workflow. 2006-04-27 15:06:01 +00:00
Truls Alexander Tangstad 5bb93af6f0 Changed generic observer pattern and project dependency in plots to be a two-way selection-listener model. 
The project listens to selections done in plot and broadcasts it back to all plots (including source) which allows them to redraw properly.
 2006-04-27 14:38:48 +00:00
Reidar Strand Hagen c6ef6cdb07 Added auto-expand and auto-commit 2006-04-27 14:15:13 +00:00
Einar Ryeng 0df56248ee Removed obsolete module annotations. 2006-04-27 12:41:51 +00:00
Truls Alexander Tangstad fe0cf736f5 Created affy workflow. 2006-04-27 12:15:30 +00:00
Truls Alexander Tangstad 06805aa5e4 Changed colormap for LinePlot. 2006-04-27 12:05:20 +00:00
Truls Alexander Tangstad 3683f6c2e9 Fixed labels for scatter plots. Set correct labels in go_workflow. Removed extra loadings plot. 2006-04-27 11:38:40 +00:00
Einar Ryeng 60c1d19a74 Get correct path for glade file based on the path of the system package. 2006-04-27 11:20:12 +00:00
Truls Alexander Tangstad 969006015a Added LinePlot used by Affy importer. 2006-04-27 11:03:11 +00:00
Einar Ryeng c95c18eb14 fluents.glade is now read from '/system/' under the directory of argv[0]. 2006-04-27 10:54:18 +00:00
Einar Ryeng 959d114774 Changed from using default python version to python2.4 to make the 
program work on debian systems. The program does not currently support
python 2.3, and probably never will because of the set class that is a built-in
only from python 2.4 and up.
 2006-04-27 10:06:30 +00:00