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Revision 1.32 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 13 17:41:11 2004 UTC (15 years, 2 months ago) by efrank
Branch: MAIN
CVS Tags: HEAD, MigrateToNewPackage, V00-00-03, mass-spec-01, mass-spec-02, mass-spec-03
Changes since 1.31: +3 -2 lines
Diff to previous 1.31
Adding a bu

Revision 1.31 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 12 20:38:19 2004 UTC (15 years, 3 months ago) by efrank
Branch: MAIN
CVS Tags: forRick-14Jul04-0, forRick-14Jul04-1
Changes since 1.30: +0 -92 lines
Diff to previous 1.30
KahOM/KahDataMgr:
	first pass at top level data manager to be returned from catalogentry read

Schema:
	added KahDatabaseInfo to put fid into database.
	create- changed so that no long initialize name of top catalogEntry (see below)
	destroyBss- changed !#/usr/bin/py to env py

FaST:
	txMgr - fixed close()...added self
	BssFactory - now gets fid via kahDatabaseInfo in database

PyGUI
	change so that something or another

Revision 1.30 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jun 23 19:19:10 2004 UTC (15 years, 3 months ago) by efrank
Branch: MAIN
CVS Tags: larrys-08jul04
Changes since 1.29: +1 -1 lines
Diff to previous 1.29
migrate import statements to follow move of Recoelem, Reaction, Reactant
from FaST to KahOM

Revision 1.29 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jun 23 19:02:51 2004 UTC (15 years, 3 months ago) by efrank
Branch: MAIN
Changes since 1.28: +67 -30 lines
Diff to previous 1.28
Migrate data classes to really use FoundryItem.
gut a bunch of old dead code.
merge what used to be separate seed/bss into single.

Revision 1.28 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jun 9 22:36:10 2004 UTC (15 years, 4 months ago) by efrank
Branch: MAIN
CVS Tags: V00-00-02, forKubal-15Jun04
Changes since 1.27: +1 -1 lines
Diff to previous 1.27
o clean up double foundryId problem in FoundryItems
o change names in CatalogEntry to read() and write()
o write the write() method just mentioned
o get writing to work again, propagate changes into PyGUI
o add plugin capability to modelEditor

Revision 1.27 - (view) (download) (as text) (annotate) - [select for diffs]
Wed May 26 01:38:25 2004 UTC (15 years, 4 months ago) by efrank
Branch: MAIN
Changes since 1.26: +2 -2 lines
Diff to previous 1.26
Lots of work aimed at getting catalog services to work, incorporating
catalog editing into the model editor, and simplifying the api
for going form path to model in hand to work with.

CatalogEntryTop was changed to CatalogEntrBase and made base of CatalogEntry
rather than other way around to break a dependency loop that was causing
python import problems.  CatalogEntry is still the base class to use
for extending to new data factories.

changed open() to return catalogEntry rather than foundryItemKey.  simpler
for the user and more opportunity to encapsulate.

made catalogEntry able to read a recoElem and return it.  all done in
terms of arch abstractions.  this is temorary.  we will add a Navigator
or Manager class and that will be returned from the CatalogEntry rather
than recoElem.  that's becausee Recoelem is just one of many things
that will be present, e.g., conditions data.

PyGui/MainMenuBar.  split out to help stay sane for when that becomes
more complex.

Moved add seed server to menu bar so that right click in catalog panel
coudl be used to pull up catalog editing tools.

Revision 1.26 - (view) (download) (as text) (annotate) - [select for diffs]
Thu May 20 20:46:26 2004 UTC (15 years, 4 months ago) by hwang
Branch: MAIN
Changes since 1.25: +20 -15 lines
Diff to previous 1.25
RXOnAddPageDialog.py and RXpanel
	added functions to allow the user to get the Enzyme grid to be selected
in the RXAddPageDialog

RXFromMetPageDialog.py
        made some minor chances

Revision 1.25 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Mar 29 21:57:28 2004 UTC (15 years, 6 months ago) by hwang
Branch: MAIN
Changes since 1.24: +13 -4 lines
Diff to previous 1.24
	MetabolitePanel.py
		local variable made global
	RXpanel.py
		Searching for Bss works with Aux as " "

Revision 1.24 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Mar 26 17:12:46 2004 UTC (15 years, 6 months ago) by efrank
Branch: MAIN
Changes since 1.23: +6 -11 lines
Diff to previous 1.23
Modifications to install the new Catalog code, FoundryId stuff.  I ripped
out old code as well:  the list of foundryComboBoxes is gone since we now
have just one combo box.

the notion of FoundryId's intVal is gone.  at least for the moment.  it's too hard
at the mment to have a (bottleneck!) central authority to manage the intVals.

so, starting now, foundryId's are based on strings that are notionally URLs and
its up to the dataFoundry manager to make sure all distinct instances at his
site have distinct urls.

this also means that if a foundry moves, then the history information that
refers to it becomes incorrect.

Revision 1.23 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Mar 25 00:49:56 2004 UTC (15 years, 6 months ago) by efrank
Branch: MAIN
Changes since 1.22: +1 -1 lines
Diff to previous 1.22
Migrating to new Catalog, Catlogentry, etc.  This is an intermediary
sync

Revision 1.22 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Feb 27 21:49:35 2004 UTC (15 years, 7 months ago) by hwang
Branch: MAIN
Changes since 1.21: +1 -1 lines
Diff to previous 1.21
-       Got rid of the comboboxes for each individual pages and put it on top.

Revision 1.21 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Feb 25 17:08:17 2004 UTC (15 years, 7 months ago) by hwang
Branch: MAIN
Changes since 1.20: +4 -4 lines
Diff to previous 1.20
     Changed all the files so that the past inconsistancies of variable and classes names
 are consistant. I.E. MainLayout import MainLayout.
     In MainLayout, separate functions are made for each panel.

Revision 1.20 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 9 19:33:31 2004 UTC (15 years, 8 months ago) by efrank
Branch: MAIN
Changes since 1.19: +5 -5 lines
Diff to previous 1.19
correct all of the imports to standard form of from foo.bar import bar.
weren't using package name, foo in many cases

Revision 1.19 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Nov 14 20:15:00 2003 UTC (15 years, 11 months ago) by efrank
Branch: MAIN
CVS Tags: SC-01, SC-02, sc-14Nov03-linux-01, sc-14Nov03-linux-02
Changes since 1.18: +3 -1 lines
Diff to previous 1.18

Fix bugs for various cases related to cut/pastes happening when
things aren't selected.

Also, extend info in Rx grid so that AUX column shows the Seed RxId.

Revision 1.18 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Nov 13 21:41:08 2003 UTC (15 years, 11 months ago) by efrank
Branch: MAIN
Changes since 1.17: +2 -2 lines
Diff to previous 1.17
duplicate server error trapped

Revision 1.17 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Nov 12 22:56:33 2003 UTC (15 years, 11 months ago) by efrank
Branch: MAIN
CVS Tags: sc-12Nov03-linux-02
Changes since 1.16: +79 -7 lines
Diff to previous 1.16
Lots of changes to start port to mac.  lots of fiddling with layout because
we are doing something wrong, and it shows up on Mac.

Also alot of work to make enzymes work, including EC.  focus is on seed.

Revision 1.16 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Aug 19 21:10:01 2003 UTC (16 years, 1 month ago) by hwang
Branch: MAIN
CVS Tags: efrank-initialSeed-04Nov03, sc-06Nov03-linuxLeft-01, sc-12Nov03-linux-01, sc-works-00
Changes since 1.15: +6 -5 lines
Diff to previous 1.15
	RXpanel.py
	   Default value set as Input
	RecoElempanel.py
	    Text of tree branches works correctly
	    Cut branch implemented

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 18 19:38:24 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
CVS Tags: V00-00-01
Changes since 1.14: +1 -1 lines
Diff to previous 1.14
	RXpanel.py
	   changed size of the FromMet window to be 700 by 500

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 18 16:11:02 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.13: +1 -0 lines
Diff to previous 1.13
	-MainLayou.py & RXFromMetPageDialog.py
	   combobox is readonly
	-RXpanel.py
	   grid info is scrollable
	-RecoElempanel.py
	   in the process of getting pt position to line up with popup menu

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Aug 18 15:55:57 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
CVS Tags: V00-00-00
Changes since 1.12: +14 -0 lines
Diff to previous 1.12
Start documenting the code a trifle.  All files have been modified by adding
the list of def'd methods at the top of the class.  Must add description
strings, but this is a start.

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Aug 17 23:40:16 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
Changes since 1.11: +8 -0 lines
Diff to previous 1.11
RXpanel:
	add getSelectedRx() method.

RecoElempanel:
	add more reaction cut/paste capabilities

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Aug 17 21:39:17 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
Changes since 1.10: +71 -35 lines
Diff to previous 1.10
Start working on reaction cut/paste from RecoElem's rx list_box.  This
affects the selected reaction grid since some operations on the list_box
push data there.

also, fixed the clear button for the selecgted reaction grid.   that requied
a name change.  so MainLayout changed.

some rearrangement in RXpanel and additon of methods like addSearchedRx and
addSelectedRx that add rxns into the grids.

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Aug 16 20:51:50 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
Changes since 1.9: +10 -6 lines
Diff to previous 1.9
Lots of changes here and there to get reaction searching working.
start to work on right-click-in reaction list_box (recoelem page).

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Aug 16 04:28:08 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
Changes since 1.8: +21 -14 lines
Diff to previous 1.8
Get Rx searching working.  Requires HEAD of FaST.
Still has bugs but basically runs.

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 15 20:41:25 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.7: +19 -14 lines
Diff to previous 1.7
	MetabolitePanel.py
	   Add clear to the bottom selected grid
	RXFromMetPageDialog.py
	   The checkboxes implemented
	RXpanel.py
	   In the process of wiring in searching. not done yet

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 14 23:10:20 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.6: +2 -0 lines
Diff to previous 1.6
	MetabolitePanel.py and Rxpanel.py
	  changed clear/select. replace NGrids to use GetNumberRows() instead

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 14 22:52:50 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.5: +16 -6 lines
Diff to previous 1.5
	MainLayout.py
	   Added Enzyme page
	MetabolitePanel.py
	   grid.ClearGrid() added
	RXFromMetPageDialog.py
	   fixed some layout properties
	RXpanel.py
	   text is Enable(False) when FromMetabolitePage is picked

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 14 20:42:25 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.4: +132 -1 lines
Diff to previous 1.4
	MainLayout.py
	   Added changes to rxWindow
	MetabolitePanel.py
	   Links up with DoubleTextEntryDialog.py
	   Add new metabolites
	RXpanel.py
	   If ComboBox is "FromMetPageDialog", pops up a grid and put in the appropriate info
		from MetPageDialog bottom grid
	RXFromMetPageDialog.py
	   Layout of search grid for FromMetPageDialog

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 8 22:14:47 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
Changes since 1.3: +0 -7 lines
Diff to previous 1.3
	MainLayout.py
		Fixed layout of Rxpanel
	RXPanel.py
		Deleted previous information

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Aug 7 02:39:46 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
Changes since 1.2: +4 -3 lines
Diff to previous 1.2
adding to Metabolite panel so that we can search for metabolites.
main.py: move some init stuff out of main.py into associated panel.
mainlayout: clean up and reorg a bit.  lots of renames
rxpanel: commented out to speed up startup.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 28 17:57:26 2003 UTC (16 years, 2 months ago) by efrank
Branch: MAIN
CVS Tags: efrank-worksBeforeCatalogTree
Changes since 1.1: +2 -2 lines
Diff to previous 1.1
Migrate import statements to package format for FaST.
Need to use along with head of FaST

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jul 24 21:29:39 2003 UTC (16 years, 2 months ago) by hwang
Branch: MAIN
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