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50 Commits

Author SHA1 Message Date
Einar Ryeng f484ec9945 * workflows/go_workflow.py: Added a workflow name to make it identifiable 
in the "create project" druid.
 2006-04-22 21:48:30 +00:00
Einar Ryeng efcdafe843 * The New project toolbar button now works. A druid will display the 
available workflows and ask you to select one of them. There are still
   a couple of unresolved issues, but it works, so i upload it to ease
   the use of the program.
 2006-04-22 21:46:44 +00:00
Truls Alexander Tangstad 357cd1a1a6 Removed workflow being dependent on rpy by putting the import within the run function of affymatrix import. 2006-04-22 20:48:44 +00:00
Truls Alexander Tangstad 26f16acc9c Made sure pickling use protocol 2 to make it faster and the files smaller (binary). 2006-04-22 18:11:31 +00:00
Truls Alexander Tangstad 553bfbe1ae Big cleanup of affymatrix importer. Now use E@exprs to get matrix from loaded data. 
Also made row and colname import better by ensuring vector-handling, ensuring that getting single column/row data works without being converted into a single string instead of string in a list.
Removed ;1-hack and use NO_CONVERSION to ensure no extra computation is done when calculating r stuff.
Now AffyMatrix data is named as such.
 2006-04-22 17:59:15 +00:00
Truls Alexander Tangstad d26dd54f5b Label verifier bugged when having generated labels. 2006-04-22 17:30:10 +00:00
Truls Alexander Tangstad 5a2a1afe91 Added pickling as a quick and dirty way of loading and saving data in einars workflow. 2006-04-22 16:27:33 +00:00
Truls Alexander Tangstad d123f0e1c1 Added doc-string for CelFileImportFunction. 2006-04-22 15:59:19 +00:00
Truls Alexander Tangstad e151e66898 Let log windows always follow changes/new entries. 2006-04-22 15:41:08 +00:00
Truls Alexander Tangstad 23914b2d1e Added support for affy cel files. 2006-04-22 00:17:22 +00:00
Truls Alexander Tangstad c601ad3966 Removed data information as function in workflow and added as default action on datasets double-clicked in navigator. 2006-04-21 15:02:13 +00:00
Truls Alexander Tangstad efcd8c8587 Removed unused code. 2006-04-21 15:00:04 +00:00
Truls Alexander Tangstad 0918f0019b Adding plots to panes is now done in row_activated_handler again, which makes it respond to double-clicks instead of just being selected in navigator. 2006-04-21 14:59:25 +00:00
Truls Alexander Tangstad 79481ed186 Added plot to output from test-function. 2006-04-21 14:58:42 +00:00
Truls Alexander Tangstad 832827bd5a Removed unused code. 2006-04-21 14:45:01 +00:00
Truls Alexander Tangstad 95eb78bf0d Use name of data in navigator. 2006-04-21 14:30:10 +00:00
Truls Alexander Tangstad f3a65a3c4f Can now select data in navigator by single-clicking or moving with keyboard, no need to activate (double-click etc.). 2006-04-21 14:29:08 +00:00
Truls Alexander Tangstad 07ac564668 Changed info function to show dialog instead of returning a view. 2006-04-21 14:12:18 +00:00
Truls Alexander Tangstad c4f9f5c399 Created new workflow for showing information about a dataset as a view. 2006-04-21 13:04:31 +00:00
Truls Alexander Tangstad e4831ada13 Now can get and set name in Dataset. Also added getter for dim_names. 2006-04-21 12:28:29 +00:00
Truls Alexander Tangstad 33c9da117c Typo. 2006-04-21 10:56:56 +00:00
Arnar Flatberg ccec17262b Added random test data 2006-04-21 10:56:01 +00:00
Einar Ryeng facf706420 * Removed PCA workflow dependence. 2006-04-21 09:55:50 +00:00
Arnar Flatberg fc4e62f799 current datset selection fix 2006-04-21 09:23:05 +00:00
Arnar Flatberg 7851048fb6 workflow update 2006-04-21 08:34:08 +00:00
Arnar Flatberg aa6f598f87 workflow update 2006-04-21 08:30:37 +00:00
Arnar Flatberg 2e53626393 s 2006-04-21 08:29:43 +00:00
Arnar Flatberg 800e7dc42e New pca workflow and datset updates 2006-04-20 15:30:29 +00:00
Einar Ryeng c09f2ceb92 * fluent, *.py: Data and plots returned from functions will now show up in 
the navigator window.
 2006-04-20 14:29:13 +00:00
Truls Alexander Tangstad 78ecadb3ab Fixed label of menu item. 2006-04-20 14:11:52 +00:00
Einar Ryeng f394610724 * fluent: removed old, non-working code. 2006-04-20 10:34:50 +00:00
Arnar Flatberg 6a4ae8ecf1 mainly overhaul of observers, and removal of project singleton 2006-04-20 10:27:58 +00:00
Einar Ryeng f45c9c6bf7 * fluent: General cleanup. 2006-04-19 19:59:55 +00:00
Arnar Flatberg 4541716f90 small fix 2006-04-19 19:26:14 +00:00
Arnar Flatberg 0eebd9436c object selection fix 2006-04-19 18:50:10 +00:00
Arnar Flatberg 56dac31529 Updated plots to demonstrate current selection update 2006-04-19 18:25:44 +00:00
Arnar Flatberg 1091bea0e9 category data and plot selection update| 2006-04-19 10:37:44 +00:00
Arnar Flatberg a8937ededb mainly play in plots 2006-04-18 14:25:46 +00:00
Arnar Flatberg 1d48bd85c5 added scatter 2006-04-18 09:19:59 +00:00
Einar Ryeng a0d2c0d16d * fluent, system/plots.py: Switching between four and one view now sort of 
works. Still a bit buggy, and with messy code.
 2006-04-17 22:30:53 +00:00
Einar Ryeng c55a39f7f9 * workflows/go_workflow.py: A workflow that makes distance matrices based 
on gene ontology information. Currently only reads gene annotations.
 2006-04-17 20:29:29 +00:00
Einar Ryeng 494aedc1b5 * system/plots.py, system/fluent.glade: There is now an active plot. 2006-04-17 20:27:39 +00:00
Einar Ryeng 3668481562 * system/workflow.py: Loads and returns gene to GO term mapping. 2006-04-17 12:35:31 +00:00
Arnar Flatberg 2f2d54e5c8 op 2006-04-17 09:08:40 +00:00
Einar Ryeng adc3bf6bb1 * project.py: Added comments. 2006-04-17 00:29:00 +00:00
Einar Ryeng 4bdeef05f6 * annotations.py: The Annotations class now work. Querying along any 
axis is supported, but only two dimensional Annotations can be created.
 2006-04-16 23:30:01 +00:00
Arnar Flatberg 23fb12f53a First commit 2006-04-16 22:57:50 +00:00
Einar Ryeng eb45c125aa * annotations.py: Annotation class for two-way annotations. Does only support 
exactly two dimensions.
 2006-04-16 22:06:29 +00:00
Einar Ryeng 5853216df4 Initial import. 
* fluent: The application program.
 * system: The core system.
 * workflows: Directory for workflow modules.
 2006-04-16 18:25:54 +00:00
Einar Ryeng bb246a77d7 Initial directory creation. 2006-04-16 18:18:22 +00:00