Timeline


and .

11/30/09:

17:08 Changeset [2986] by martijn
Sort on group instead of Xref, for the case where there are multiple …
16:55 Ticket #1056 (Data is not loaded immediately after import) created by martijn
As reported by Eugene van Someren: When you've imported a dataset and …
16:51 Changeset [2985] by martijn
Predictable order for visualization of multiple probes on a datanode
15:43 Changeset [2984] by thomas
removed accidentally added Revision.java file
15:42 Changeset [2983] by thomas
removed default "Group object" label on grouping objects
14:53 Ticket #1055 (Color set dialog is too small in windows) closed by thomaskelder
fixed
14:53 Changeset [2982] by thomas
increased minimum size of color set dialog (fixes #1055)
14:47 Ticket #1055 (Color set dialog is too small in windows) created by thomaskelder
The default size of the color set dialog is too small in windows, the "add …
14:38 Changeset [2981] by thomas
tag for M19.1 release
14:37 Changeset [2980] by thomas
applied fix for #1054 for M19.1 release
14:00 Changeset [2979] by martijn
For the sake of uniformity, removed all trailing whitespace in Java code
13:33 BiopaxPluginHelp edited by martijn
(diff)
13:32 BiopaxPluginHelp edited by martijn
(diff)
13:31 Ticket #1011 (Add REST support to web service (reminder)) closed by thomaskelder
fixed
13:29 Ticket #809 (Search hits aren't grouped) closed by thomaskelder
fixed
13:26 BioPAX-Import.png attached to BiopaxPluginHelp by martijn
Screenshot of importer
13:17 Ticket #1054 (Regression: opening GPML file hangs in some cases) closed by thomaskelder
fixed: This was due to a change in the graphId generation upon opening the file. …
13:05 Changeset [2978] by thomas
wikipathways search: - fixed nullpointerexception (due to #1053) - fixed …
13:03 Changeset [2977] by thomas
fixed #1054
13:03 Ticket #1054 (Regression: opening GPML file hangs in some cases) created by thomaskelder
For some pathways (e.g. WP61 on WikiPathways?), PathVisio hangs on opening …
12:44 Ticket #1053 (Regression: findPathwaysByXref doesn't return values for indexer fields) created by thomaskelder
Normally, findPathwaysByXref should include key/value pairs for the …

11/27/09:

15:44 Milestone milestone_19 completed
13:55 Ticket #1052 (Create -v command-line option) created by martijn
Add a -v command line option to display version info
13:46 PluginDocumentation edited by martijn
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13:44 PluginDevelopment edited by martijn
(diff)
13:40 AlternativeInstallation created by martijn
11:28 WikiStart edited by martijn
(diff)
11:27 ReleaseNotes edited by martijn
(diff)
11:27 ReleaseNotes edited by martijn
(diff)
11:01 Changeset [2976] by martijn
JUnit is too fussy. Empty method instead of removing method.
10:56 ReleaseNotes edited by martijn
(diff)
10:47 PathVisioDownload edited by martijn
(diff)
10:22 Changeset [2975] by martijn
Milestone 19.0 release tag
10:21 Changeset [2974] by martijn
Milestone 19.x release branch
10:19 Changeset [2973] by martijn
Disabled converter test
10:09 Changeset [2972] by martijn
Strip debug symbols with -Ddebug.mode=false
10:09 Changeset [2971] by martijn
Bumped version no to 2.0.1

11/26/09:

16:28 Changeset [2970] by thomas
reverted revision 2967 for now, we're not switching to the bridgedb …
16:11 Ticket #1051 (backpage panel not refreshed after annotating datanode using search) created by thomaskelder
After annotating a datanode using the search feature, the backpage panel …
16:05 Ticket #1050 (Backpage shows error with gene without id, but with system code (when ...) created by thomaskelder
The backpage shows an error when clicking on a gene without id, but with …
15:12 Changeset [2969] by thomas
gpml converter tool: force exit after conversion

11/25/09:

01:13 Ticket #1049 (Applet error on launch) created by KristinaHanspers
(This happens on the test site.) I get an error when the applet starts, …

11/24/09:

10:41 Changeset [2968] by thomas
added script to fix the group labels (#880)
10:28 Changeset [2967] by thomas
adapted wikipathways applet to use bridgedb rest service
10:11 Changeset [2966] by thomas
removed keystore password from build.xml
10:06 Changeset [2965] by thomas
fixed compiler error (missing vActions.delete)
00:09 Ticket #1048 (Add "thick" to the line style) created by AlexanderPico
In addition to "solid" and dashed", it might also be nice to support …

11/23/09:

23:25 Changeset [2964] by AlexanderPico
fixed #1019 (now both backspace and delete work for all platforms)
21:43 Ticket #1018 (catalyst notation) closed by martijn
fixed: The solution to this problem is that the lines going from enzyme to …
21:37 Changeset [2963] by martijn
fix for #1018 Use mim-catalysis line style in reaction template
20:08 MappBuilderHelp edited by KristinaHanspers
(diff)
20:07 MappBuilderHelp edited by KristinaHanspers
(diff)
20:06 MAPPBuilder.png attached to MappBuilderHelp by KristinaHanspers
20:04 MappBuilderHelp edited by KristinaHanspers
(diff)
19:53 MappBuilderHelp created by KristinaHanspers
19:31 PluginDocumentation edited by KristinaHanspers
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19:30 PluginDocumentation edited by KristinaHanspers
(diff)
17:00 Ticket #860 (GraphId of lines changes without reason) closed by martijn
fixed
16:36 Changeset [2962] by martijn
Fix for #860: Generate GraphID for lines based on hash of coordinates if …
16:36 Changeset [2961] by martijn
Give more useful error message when exporter throws ExecutionException?
13:40 Changeset [2960] by thomas
- unsigned jars in lib (needed to support self signed certificate) - added …
12:14 Ticket #1006 (Use self-signed cerificate for applets) closed by thomaskelder
fixed
12:14 Changeset [2959] by thomas
switched to self-signed certificate (fixes #1006)

11/22/09:

02:07 Ticket #1019 (delete key cannot work under Mac OS X) closed by AlexanderPico
fixed
02:06 Changeset [2958] by AlexanderPico
fixed #1019

11/20/09:

20:41 DevMeetings edited by thomaskelder
(diff)
20:34 BiopaxPluginHelp edited by martijn
(diff)
20:28 DevMeetings edited by martijn
(diff)
20:17 Ticket #990 (Redraw issues in editor) closed by AlexanderPico
worksforme
20:08 DevMeetings edited by martijn
(diff)
19:55 DevMeetings edited by AlexanderPico
(diff)
17:00 Changeset [2957] by martijn
(Patch by Margot Sunshine) More MIM Shapes, using line gaps
17:00 Changeset [2956] by martijn
(patch by Margot Sunshine) Implement "Gap": Do not draw some lines to the …
15:31 ExperimentalData edited by thomaskelder
fixed data format link (diff)
15:30 ExperimentalData edited by thomaskelder
fixed system code link (diff)
14:21 BiopaxPluginHelp edited by martijn
(diff)
14:19 BiopaxPluginHelp created by martijn
11:26 Ticket #1031 (DataNodes annotated with symbol dont link to cross-refs in database) closed by martijn
fixed: This is expected behavior.

11/19/09:

20:51 DevMeetings edited by AlexanderPico
(diff)
20:19 Ticket #1047 (Visualization Options: Scrolling causes parameters in "Select samples" in ...) created by KristinaHanspers
In Visualization Options, under "Expression as numerical value", if I use …

11/18/09:

15:24 Ticket #1032 (Changing gene database doesn't work) closed by thomaskelder
duplicate: Looks like it, except for the observation that the search resulted in …

11/17/09:

20:03 DevMeetings edited by AlexanderPico
(diff)
17:48 Ticket #1046 (Create plugin hook to add tab to PathwayElementDialog) created by martijn
Similar to the side panel, a plugin might want to add a tab to the …
17:47 Ticket #1045 (Anchors jump around) created by margot
Need more control of anchor movement. When moving an anchor it will …
17:44 Ticket #1044 (Hand-cursor when mouse is over element) created by martijn
It's sometimes hard to grab the edge of a transparent shape. What would …
17:40 Ticket #1043 (Connector with 45 degree connection to Anchor) created by martijn
Mim requires lines to end at 45 degree angles. This can be simulated with …
17:00 Ticket #1042 (make anchor of type ‘None’ invisible when line attached and reappear when ...) created by margot
MIM's do not want to show anchors. It would be great if they could be …
16:57 Ticket #1041 (Non editable type of group) created by margot
MIM Simple Physical Entities (which are not simple) describe entities with …
16:56 Ticket #1040 (Bug: ouroboros pathway leads to infinite recursion) created by martijn
How to reproduce: * Draw two DataNodes? and two Elbow Connectors, with an …
16:52 Ticket #1039 (Add ability to turn text 90 deg. in DataNode) created by margot
Mim 'features' which describe domains need the ability to have squence …
16:51 Ticket #1038 (Segment handles drag behind) created by martijn
Somehow segment handles drag behind: When moving an elbow-connector with …
16:50 Ticket #1037 (Flag to restrict resizing of certain nodes) created by martijn
Certain specialized Shapes, for example the interaction dot in MIM, should …
16:48 Ticket #1036 (Allow Line-Wrapping in DataNodes) created by martijn
This was a request from Peter D'eustachio from Reactome to allow …
16:46 Ticket #1035 (Implement UI for editing "State" GPML element) created by martijn
GPML has the ability to store "State", i.e. a DataNode? that is a child of …
16:44 Ticket #1034 (For Datanodes - allow users to adjust font.) created by margot
For Datanodes - allow users to adjust font size, font style, type and make …
16:40 Ticket #1033 (need Datanode with round corners, square corners and no outline) created by margot
need Conceptual Entity which is a special type of datanode with square …
16:29 Ticket #1032 (Changing gene database doesn't work) created by thomaskelder
Changing the gene database (data->select gene database) doesn't seem to …
16:05 Changeset [2955] by martijn
When a line is moved, adjust the segment MPoints as well as the …
00:03 Changeset [2954] by martijn
Example showing how to create a new template in a plugin

11/16/09:

22:42 Changeset [2953] by martijn
ExToolbar?: added icon on the toolbar button
19:26 Ticket #1031 (DataNodes annotated with symbol dont link to cross-refs in database) created by KristinaHanspers
DataNodes? annotated as symbols dont link to cross-refs on database and …
18:35 Changeset [2952] by martijn
Example of how to use dynamic properties in a plugin (aka arbitrary …
18:35 Changeset [2951] by martijn
Make sure arbitrary attributes are not null

11/13/09:

23:08 Changeset [2950] by martijn
Accessor for model in MainPanel?
23:07 Changeset [2949] by martijn
Added isEmpty function to Utils
14:22 Changeset [2948] by thomas
fixed nullpointerexception in gpmldiff due to uninitialized preferences
14:22 Changeset [2947] by thomas
fixed build.xml to include classpath for applet webstart

11/11/09:

17:01 Changeset [2946] by martijn
Elbows attached to anchors are always perpendicular, bugfix by Margot …
16:25 Changeset [2945] by martijn
Expanded importer/ exporter javadoc
16:24 Changeset [2944] by martijn
doImport method returns Pathway instead of modifying argument All …

11/10/09:

09:32 biorange_kelder.ppt attached to PresentationMaterial by thomaskelder
Presentation about WikiPathways? and related work for the NBIC Biorange …

11/06/09:

12:24 PluginDocumentation edited by martijn
(diff)

11/05/09:

15:27 Changeset [2943] by thomas
added missing commons-math library to pathvisio binary package
15:05 Changeset [2942] by thomas
ant tarbin: added missing bridgedb libraries to pathvisio binary package

11/04/09:

11:09 GetStartedWithPathVisioDevelopment edited by martijn
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10:29 GetStartedWithPathVisioDevelopment edited by martijn
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10:20 GetStartedWithPathVisioDevelopment edited by martijn
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