Timeline


and

07/03/12:

15:27 Ticket #1275 (Setup and reference IJ2 URLs) created by bdezonia
The Help menu entries currently use IJ1 plugins and refer to IJ1 URLs. …
15:23 Ticket #1274 (Capture Image plugin does not work) created by bdezonia
IJ1's Capture Image utility command does not work correctly. It grabs …
14:48 Ticket #1273 (Add thresholding capabilities) created by curtis
ImageJ2 needs native support for thresholding, and plugins need to take …
13:51 Ticket #1272 (Rect and Ellipse creation tools not like IJ1) created by bdezonia
In IJ1 when you hold down the shift key while drawing with the rect or …
13:47 Ticket #1143 (Improve support for ROIs, segmentation and labeling [headless]) closed by bdezonia
fixed
13:33 Ticket #1271 (Improve headless support in ReferenceOverlays plugin) closed by bdezonia
fixed: Fixed with commit a8818ebf3d7b42dca0c44cc5555865f7280b420e
13:32 Ticket #1271 (Improve headless support in ReferenceOverlays plugin) created by bdezonia
ReferenceOverlays should be able to support headless operation. Provide …
13:06 Ticket #1163 (DynamicPlugin instances should keep a local copy of their ...) closed by curtis
invalid: I investigated this, and my initial analysis was wrong. Each DynamicPlugin …
13:04 Ticket #1270 (Create a user story for the release [scripting]) created by curtis
For the release we should have a user story that shows a subset of what it …
13:03 Ticket #1269 (Create a user story for the release [plugins]) created by curtis
For the release we should have a user story that shows a subset of what it …
12:51 Ticket #621 (Review CanvasEvent event hierarchy) closed by curtis
fixed: As of 8140d714, …

07/02/12:

16:32 Ticket #1252 (Make flatten code into a plugin) closed by bdezonia
fixed: Fixed with commits 6d5b2e8c868d13f731871fac2d5858754468e591 and …
16:32 Ticket #1243 (Fix flatten code) closed by bdezonia
fixed
14:52 Ticket #1201 (Implement overlay duplication by serialization) closed by bdezonia
fixed
14:48 Ticket #1195 (Push overlay duplication code into Imglib) closed by bdezonia
fixed: The remaining issues with this ticket are tangential to the original …
14:46 Ticket #1268 (Fully flesh out CompositeOverlay) created by bdezonia
CompositeOverlay is made up of two or more other Overlays. It is itself an …
14:37 Ticket #1221 (Sliders can be created incorrectly) closed by bdezonia
worksforme: Can't duplicate as of 7-2-12
13:46 Ticket #1188 (Menubar sometimes inactive) closed by bdezonia
fixed: Tested on Ubuntu Linux 12.04 with a version some time after we made …
12:31 Ticket #1267 (Synchronize Windows likely broken) created by bdezonia
IJ2 needs to support the functionality of the IJ1 Synchronize Windows …
10:56 Ticket #1266 (Profile Plot plugin has Live mode) created by bdezonia
The IJ1 plugin Profile Plot has a Live button that makes the dialog work …

06/29/12:

16:11 Ticket #1265 (Overlay Manager AND/OR/XOR display issues) created by bdezonia
When you do a boolean operation in the Overlay Manager the selection …
14:18 Ticket #1264 (Rewrite Edit >> Selection >> Specify) created by bdezonia
In IJ1 the Edit >> Selection >> Specify command interactively draws a new …
12:56 Ticket #1263 (Previews don't work in Process >> Filters menu) created by bdezonia
Some of the filters in the Process >> Filters menu have a preview …

06/27/12:

15:22 Ticket #1262 (Make pixel probe context sensitive) created by bdezonia
In IJ1 when you mouse over a FFT/FHT image result the coordinates that are …
14:52 Ticket #1260 (New Overlay management needed) closed by bdezonia
fixed: With commit a89a2e32ce922ccb11eb6ed667dee8d24acf9a36 a plugin is defined …
11:48 Ticket #1254 (Axis pos forw/back not like IJ1) closed by bdezonia
fixed: Fixed with commit db9c2d5df05a18c31cd7b8ccac556f8dcbcc8992
10:28 Ticket #1261 (Hyperstack Reduce DImensionality issues) closed by bdezonia
fixed: With commits f0a10c1a0d89abf9799d01571441baeb2ee39007 and …

06/26/12:

17:30 Ticket #1261 (Hyperstack Reduce DImensionality issues) created by bdezonia
Open the Plugins >> Sandbox >> Multidim Test Image Run Hyperstack >> …
17:01 Ticket #1247 (Better event watcher) closed by curtis
fixed: Done in e9c937f9.
16:07 Ticket #1260 (New Overlay management needed) created by bdezonia
With #1258 the Image >> Overlay >> From ROI Manager command has been …
16:03 Ticket #1258 (Remove ROI Mgr related commands) closed by bdezonia
fixed: Fixed with commit d0cc2db3090c510b5dfc9c3b463b8a5b15dfe013. IJ2 always …
15:36 Ticket #1259 (Overlay differences with IJ1) created by bdezonia
Overlays in IJ1 are slightly different: In IJ1 Overlays can live on a …
15:28 Ticket #1258 (Remove ROI Mgr related commands) created by bdezonia
There are menu commands (Image::Overlay::To/From ROI Manager) that should …
15:17 Ticket #1257 (Save overlays as metadata) created by bdezonia
In IJ1 overlays are stored as part of the metadata when saving as a TIFF …
15:13 Ticket #1256 (Respect Options Appearance settings) created by bdezonia
A number of settings exist in the Options Appearance dialog that could be …
14:58 Ticket #1255 (Duplicate command different than IJ1) created by bdezonia
In IJ1 when you use the Duplicate command on a HyperStack you get a dialog …
14:08 Ticket #1254 (Axis pos forw/back not like IJ1) created by bdezonia
Using the > and < keys in IJ1 moves the current slice slider position. In …
14:01 Ticket #1253 (Display current colors on Toolbar) created by bdezonia
In IJ1 various tools show the current color(s). IJ2 does not have that. …
11:10 Ticket #1252 (Make flatten code into a plugin) created by bdezonia
Once the fix-flatten branch is merged we should take the …
10:56 Ticket #1182 (Decide on how to implement menus) closed by bdezonia
fixed: We've gone forward with a single menu bar approach.
10:50 Ticket #1229 (IJ2's version of flatten broken) closed by bdezonia
fixed: This ticket is similar to #1243. Closing.
10:39 Ticket #1069 (Improve color widgets) closed by bdezonia
fixed: Looks good

06/25/12:

16:01 Ticket #1251 (VisAD-based viewer) created by curtis
 VisAD is a mature Java …
15:59 Ticket #1250 (Implement results table) created by curtis
We need support for results tables, similar to IJ1 but within the display …
15:57 Ticket #1249 (Improve ImgOpener usage of generics) created by curtis
The ImgOpener class in ImgLib2 has an openImg(String) method that returns …
15:54 Ticket #1248 (Unit tests for DisplayViewer) created by curtis
The DisplayViewer infrastructure needs some unit tests. I began working on …
15:52 Ticket #1247 (Better event watcher) created by curtis
The event watcher plugin has certain limitations in its reporting. I …
15:29 Ticket #1246 (Improve behavior of RGB images) created by curtis
We are currently using a generic 3-channel composite image to represent …
14:02 Ticket #1245 (Fix Image Type bugs) created by curtis
There are a number of minor problems with various Image Type conversions …
13:57 Ticket #919 (App menu not available in Linux) closed by curtis
fixed: The current code properly locates the app plugins in the menus, except on …
13:47 Ticket #1244 (Fix rendering issues) created by curtis
Some images render incorrectly, either differently from IJ1, with the …
13:42 Ticket #689 (Plugins > New > Macro throws an exception) closed by curtis
fixed: Can no longer reproduce.
13:22 Ticket #1243 (Fix flatten code) created by bdezonia
The IJ2 version of flatten (contained in SwingOverlayManager) cannot …
12:35 Ticket #1242 (Fix display UI issues [headless]) created by curtis
There are some bugs remaining from the recent headless display refactoring …

06/22/12:

14:17 Ticket #1241 (Image window creation position improvement needed) created by bdezonia
When an image is loaded it always draws over the top of the application …
13:43 Ticket #1238 (Overlays do not use settings from Overlay Options ...) closed by bdezonia
fixed: With Curtis' refactor of the ij-options subproject this bug now killed.
13:42 Ticket #1240 (The default overlay settings are not initializing correctly) closed by bdezonia
fixed: Fixed by ij-options refactoring
13:31 Ticket #1239 (The overlay options colors are not persisted) closed by bdezonia
fixed: Fixed with commit 5f9d47defc9af2a90a4b07d86626b12953d1a153
13:26 Ticket #1240 (The default overlay settings are not initializing correctly) created by bdezonia
After fixing the persistence of OverlayOptions I notice that the …
12:38 Ticket #1239 (The overlay options colors are not persisted) created by bdezonia
If you change Overlay Options values, exit program, and come back the …

06/21/12:

15:09 Ticket #1238 (Overlays do not use settings from Overlay Options ...) created by bdezonia
The attributes of created overlays (fill color, etc.) do not match the …
15:02 Ticket #1237 (Allow Point Overlays to support different colors) closed by bdezonia
fixed: With commit f2a3aa600a04341ee9ad06af52dc78bbb05e652e PointOverlays will …
14:01 Ticket #1237 (Allow Point Overlays to support different colors) created by bdezonia
In IJ1 PointRois have a fill color. In IJ2 they are always yellow. Change …
12:40 Ticket #1236 (Support IJ1's TRANSPARENT CompositeImage) created by bdezonia
Sometime in the last few months IJ1 added a TRANSPARENT mode for a …
12:38 Ticket #573 (Composite image info lost sometimes) closed by bdezonia
fixed
12:19 Ticket #1023 (Detect when sezpoz was not run properly (e.g. when compiled in Eclipse)) closed by dscho
fixed: This branch was merged in 8fb7fb69ecafb56e39414c023419166386de8216. The …
12:14 Ticket #1151 (Display range setting via legacy layer can be problematic) closed by bdezonia
fixed: Fixed with commit 649109dcfb51a0b8688eb3908a1fcdd6e34c74c9
11:56 Ticket #1235 (Improve Lookup Table menu support) created by bdezonia
In IJ1 all luts found within the distribution are put in the Lookup Tables …

06/19/12:

17:02 Ticket #1215 (Overlay Manager flatten command displays all white) closed by bdezonia
fixed: Fixed with commit 8960ffe0729108c4840c84bea430845b9a7874f0. It does not …
16:06 Ticket #1234 (Set Axis Position does not update label) closed by bdezonia
fixed: Fixed with commit 1a17f7ad66aa2c7314cce485a74d5e0add8cafc0
15:38 Ticket #1234 (Set Axis Position does not update label) created by bdezonia
If you open T1 Head and then Set Active Position to 44 the slider moves to …
15:35 Ticket #1156 (Active axis not getting initialized) closed by bdezonia
fixed: With commit 620c3aa3b5b4dd9f2201a496b26e77c3a69e9b8a this is fixed
14:53 Ticket #1233 (IJ1 version of flatten not quite working) created by bdezonia
Open Organ of Corti. Draw an ellipse overlay. Run the Image >> Overlay >> …
13:13 Ticket #1232 (Open image, close image, memory not freed) closed by bdezonia
fixed: Fixed with commit d9b30ea45425d213a8f7d41114b89bee040e5bbd
13:13 Ticket #1232 (Open image, close image, memory not freed) created by bdezonia
If you open an image and then close an image the amount of ram allocated …

06/18/12:

16:04 Ticket #1231 (Create a user story for the release [headless]) created by bdezonia
For the release we should have a user story that shows a subset of what it …
16:01 Ticket #1230 (Update IJ-Commands google doc) created by bdezonia
Update the IJ2 commands google doc. List things such as: IJ1 plugins …
15:56 Ticket #1224 (Be compatible with IJ1 ROI Manager) closed by bdezonia
duplicate
15:41 Ticket #1229 (IJ2's version of flatten broken) created by bdezonia
This ticket info gleaned from feature ticket #1143. SwingOverlayManager …
15:35 Ticket #1228 (Add functionality to OPS' EquationParser) created by bdezonia
It is a simple matter to enhance the OPS' equation syntax by adding more …
15:24 Ticket #1161 (Use Application default JMenuBar on Mac) closed by bdezonia
fixed: The niggling outstanding bugs have recently been fixed.
15:22 Ticket #1227 (OPS: define a nonparallel ImageAssignment class) created by bdezonia
The definition of ImageAssignment is multithreaded. We could provide a …
15:19 Ticket #1226 (Check that math plugin operations are correct on multichannel images) created by bdezonia
Multichannel support was added the Process >> Math plugins recently. Test …
15:15 Ticket #1225 (Do not expose broken commands) created by bdezonia
Some IJ1 plugins simply don't work in IJ2 (like Threshold). We should …
15:08 Ticket #1160 (Menu bar creation is slow) closed by bdezonia
fixed: The default menubar approach was adopted. This bug is now fixed.
14:30 Ticket #1224 (Be compatible with IJ1 ROI Manager) created by bdezonia
In IJ1 version 1.46q a new command was added (More >> List) to the ROI …
12:49 Ticket #1223 (Improve axis changing plugins' headless API) closed by bdezonia
fixed: Headless API of ReorderData in place with commit …
12:20 Ticket #1223 (Improve axis changing plugins' headless API) created by bdezonia
ReorderData and EditAxes currently do not have an API friendly to headless …

06/16/12:

23:24 Ticket #100 (Bio-Formats core library split) closed by curtis
fixed: The license updates have now been merged to the develop branch.
01:35 Ticket #1211 (Eliminate sandbox project) closed by curtis
fixed: Fixed in 452ed5f7.
01:30 Ticket #1210 (Change static Log class to LogService) closed by curtis
fixed: LogService has been added in …

06/15/12:

19:29 Ticket #994 (Combine ij-core and ij-ext) closed by curtis
fixed
13:52 Ticket #961 (Add/delete axis/data plugins mislocated?) closed by bdezonia
fixed: Fixed with commit a535c57e1bfe80743d279dd28055dff039294594
12:58 Ticket #922 (Overlay tools: right click can create tiny anomaly) closed by bdezonia
fixed: Fixed with commit ffd7e9a5821d4a6c6ce13fc7f6e70643b0885d45
12:58 Ticket #1214 (Right click related errors with overlay tools) closed by bdezonia
fixed: Fixed with commit ffd7e9a5821d4a6c6ce13fc7f6e70643b0885d45
12:35 Ticket #1222 (Extend Edit Axes functionality) created by bdezonia
The Edit Axes plugin would be more useful if one could assign axes, units, …
11:55 Ticket #1221 (Sliders can be created incorrectly) created by bdezonia
Sometimes sliders are created incorrectly. This bug is intermittent and I …
11:37 Ticket #1218 (Sliders do not always update correctly) closed by bdezonia
fixed: This bug caused by a commit in attempts to fix bug #1159. Fixed by commit …

06/14/12:

16:37 Ticket #1219 (Edit Axes not yet working) closed by bdezonia
fixed: Fixed with commit 7ccd9bdc59f56614aafeebd7076b02709baf97c9
16:10 Ticket #1220 (DefaultImageDisplay::onEvent(DataUpdatedEvent ev) is inconsistent) created by bdezonia
The code for DefaultImageDisplay::onEvent(DataUpdatedEvent event) looks …
12:29 Ticket #1219 (Edit Axes not yet working) created by bdezonia
Open Organ of Corti. Edit Axes. Change Z to Spectra. Notice label updates …
12:27 Ticket #1218 (Sliders do not always update correctly) created by bdezonia
Open Organ Of Corti. Reorder Data swapping the Z & C positions. Notice …
12:18 Ticket #600 (Consider making an "assign axes" plugin) closed by bdezonia
fixed: An initial implementation done with commit …

06/13/12:

14:36 Ticket #1217 (Refactor overlay drawing code) closed by bdezonia
fixed: Fixed with commit 5ee8cd8d3f8ffea1980b0e4b730587d88dc696db
14:35 Ticket #1217 (Refactor overlay drawing code) created by bdezonia
The overlay draw/fill code internal to DefaultOverlayService is inelegant. …
14:07 Ticket #1216 (DefaultDatasetView::autoscale() is inefficient and broken) created by bdezonia
From a debugging session I see that sequential calls to …
13:58 Ticket #1215 (Overlay Manager flatten command displays all white) created by bdezonia
Open Organ Of Corti. Open Overlay Manager. Run Flatten command from …
12:37 Ticket #1214 (Right click related errors with overlay tools) created by bdezonia
Right clicking with overlay tools active can cause problems. If you …
10:55 Ticket #1205 (Line Overlays broken) closed by bdezonia
fixed: Fixed in ImgLib commit …
10:25 Ticket #1213 (Deleted overlays not removed from Overlay Manager) closed by bdezonia
fixed: OverlayFigureView was not cleaning up correctly. Fixed with commit …

06/12/12:

16:12 Ticket #1213 (Deleted overlays not removed from Overlay Manager) created by bdezonia
Draw some overlays. Open the Overlay Manager. Now in the image window …
16:05 Ticket #1212 (Add ConsoleService for handling command line arguments) created by curtis
Currently, the UIService handles command line arguments, which is …
16:03 Ticket #1211 (Eliminate sandbox project) created by curtis
The ImageJ sandbox project clutters the repository and serves no useful …
15:34 Ticket #1107 (Sometimes menu commands do not run) closed by landinig
fixed: Yup, it seems to work fine now. I reported earlier that the preliminary …
13:21 WikiStart edited by curtis
(diff)
10:53 Ticket #1210 (Change static Log class to LogService) created by curtis
The logging mechanism should use the ImageJ service architecture with a …

06/08/12:

16:55 Ticket #1209 (Improve core architecture [headless]) created by curtis
This ticket is for improvements to the core ImageJ2 architecture slated …
12:31 Ticket #875 (Exception thrown when creating overlays) closed by curtis
fixed: There have been many changes since this ticket was filed, and the problem …
12:26 Ticket #1046 (Ability to open non-files (e.g., URLs) from ImgOpener) closed by curtis
fixed: Migrated to [ https://github.com/imagej/imglib/issues/8 imglib issue …
12:21 Ticket #557 (Add permanent caching support to ImgIOUtils) closed by curtis
fixed: Migrated to [ https://github.com/imagej/imglib/issues/7 imglib issue …
12:16 Ticket #657 (Create jar2ice and icewrap Maven plugin) closed by curtis
fixed: Migrated to  loci-software:#709
12:16 Ticket #658 (Add ability to limit which proxies are generated) closed by curtis
fixed: Migrated to  loci-software:#710
12:16 Ticket #934 (Drawing overlay changes tool focus) closed by dscho
fixed: Since we do not have the selection tool anymore (but the delegation tool …
12:11 Ticket #367 (Update LOCI repositories and Tracs) closed by curtis
fixed: The migration of open source LOCI projects to GitHub is complete. See the …
12:04 Ticket #165 (Maven: better style checking procedure) closed by curtis
fixed: I recently added the ability to call the Eclipse code formatter from Maven …
11:50 Ticket #253 (Add option to specify additional library and/or include paths) closed by curtis
fixed: Migrated to  loci-software:#708.
11:45 Ticket #271 (Download the MCR for Linux for using Curvelet Based Alignment Analysis) closed by curtis
wontfix
11:37 Ticket #1088 (Fix splash image on Windows and Linux) closed by dscho
fixed: Fixed in 3556d9ba80b8233776c4ddeddafc6a9fd715f41c and …
11:13 WikiStart edited by curtis
(diff)
10:33 Ticket #1177 (DrawingTool could be more flexible) closed by bdezonia
fixed: Some time ago I added the ability to set the preferred channel of a …

06/05/12:

15:29 Ticket #1208 (Add support for ij.plugins.path) created by curtis
ImageJ 1.x has a plugins.dir system property that controls the directory …
15:27 Ticket #1207 (Improve plugin development in Eclipse) created by curtis
Eclipse suffers from a …
15:21 Ticket #1075 (Development instructions for Linux need updating) closed by curtis
fixed: Presumably this refers to the Linux portion of the …
13:36 Ticket #1206 (Teach ClassLauncher about versioned files) created by dscho
For legacy fiji mode, the ImageJ launcher needs to discover …
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