Timeline


and

10/29/10:

23:00 Milestone biweekly-2010: Oct-18 to Oct-29 completed
Tasks from 2010-Oct-18 through 2010-Oct-29.

10/26/10:

10:01 Ticket #265 (Refactoring skills research) closed by bdezonia
fixed
10:01 Ticket #265 (Refactoring skills research) created by bdezonia
Finished reading Working Effectively With Legacy code. Reading from …
10:00 Ticket #264 (Minor refactoring work in imagej package) closed by bdezonia
fixed
10:00 Ticket #264 (Minor refactoring work in imagej package) created by bdezonia
09:58 Ticket #263 (Additional testing in imagej package) created by bdezonia
Add tests for untested code in the imagej package
09:54 Ticket #262 (Improve documentation of classes in imagej package) created by bdezonia
Catch up on javadoc comments for newly hatched classes in imagej package.
09:53 Ticket #261 (ImageJ conference prep work) closed by bdezonia
fixed
09:53 Ticket #261 (ImageJ conference prep work) created by bdezonia
Find/fix various bugs Make slides Presentation discussions and feedback …
09:51 Ticket #3 (Write unit tests for ImageJ1 core classes) closed by bdezonia
fixed
09:50 Ticket #232 (Fix ImageJ bugs apparent with imglib backed images created with File New ...) closed by bdezonia
fixed: some of these are fixed. will break out additional tickets as needed
09:49 Ticket #198 (write unit tests for all new ImageJ classes) closed by bdezonia
fixed: progress made. will close and break into individual tickets as needed
09:48 Ticket #227 (Incorporate planar access container code into ImageJ) closed by bdezonia
fixed: all tests finally enabled in ImageStackTest

10/21/10:

11:04 Ticket #245 (Improve Bio-Formats ITK plug-in handling of multichannel images) closed by hinerm
fixed: after some investigation, it seems that the incorrect reading may be due …

10/19/10:

10:04 Ticket #252 (Improve Farsight - Nucleus Editor Usability) closed by hinerm
fixed: Nothing. Resolved as fixed.

10/18/10:

11:19 Ticket #147 (Bioformats can't open Metamorph z-stack) closed by leek
duplicate: This is being addressed by other work on the 5-channel representation.
10:42 Ticket #260 (Add way to plugins automatically) created by aivar
Add annotations for required and optional dimensions, provide interface …
10:27 Ticket #250 (Try to merge imagej ijx branch back to trunk) closed by curtis
invalid: The two branches are not yet ready to be merged. Regardless, with our …

10/15/10:

23:00 Milestone biweekly-2010: Oct-04 to Oct-15 completed
Tasks from 2010-Oct-04 through 2010-Oct-15.
16:25 Ticket #259 (assist Curtis with various imagej tasks) closed by bdezonia
fixed
16:25 Ticket #259 (assist Curtis with various imagej tasks) created by bdezonia
- getting ImageStack/PlaneStack to efficiently handle imglib images - …
16:21 Ticket #258 (ImageJ package code improvements) closed by bdezonia
fixed
16:21 Ticket #258 (ImageJ package code improvements) created by bdezonia
simplify imglibprocessor::setColor(), harmonize GetPlaneOperation and …
16:17 Ticket #257 (Additional code in imagej package) closed by bdezonia
fixed
16:17 Ticket #257 (Additional code in imagej package) created by bdezonia
Add new classes: NAryTransformOperation, QueryOperation, Query, …
16:15 Ticket #256 (ImageJ: investigate further integration work needed) closed by bdezonia
fixed
16:14 Ticket #256 (ImageJ: investigate further integration work needed) created by bdezonia
hunting for bugs, seeing how ImagePlus.getType() is used and where we'll …
16:11 Ticket #255 (ImageJ : enhance File New Image) closed by bdezonia
fixed
16:10 Ticket #255 (ImageJ : enhance File New Image) created by bdezonia
Support compatibility mode so that there is a way to create old style …
16:08 Ticket #254 (ImageJ : further implement new pixel type support) closed by bdezonia
fixed
16:03 Ticket #254 (ImageJ : further implement new pixel type support) created by bdezonia
Work on code in ij packages and imagej packages to further support the new …

10/12/10:

15:24 Ticket #253 (Add option to specify additional library and/or include paths) created by curtis
A user wanted to compile bf-cpp using the Intel compiler on Windows, but …
09:19 Ticket #252 (Improve Farsight - Nucleus Editor Usability) created by hinerm
The following would be useful modifications to the Nucleus Editor: - an …

10/11/10:

17:05 Ticket #178 (Integrate existing SLIM Plotter functionality into ImageJ) closed by curtis
wontfix: For our demo, we have opted to integrate SLIM Plugin instead, using a …
17:04 Ticket #251 (Get additional dimensions working) created by curtis
Currently, if you open an image with dimensions other than X, Y, C, Z and …
16:29 Ticket #250 (Try to merge imagej ijx branch back to trunk) created by curtis
We have done a lot of work on trunk, most notably unit tests and the …
16:23 Ticket #215 (Integrate bf-imglib with ij.io package) closed by curtis
fixed: I/O integration is ostensibly complete, with all tests passing, though …

10/08/10:

18:11 Ticket #183 (Get LOCI servers behind firewall) closed by bdezonia
fixed
11:33 Ticket #26 (Improve Bio-Formats ITK plugin implementation) closed by hinerm
duplicate: Split this ticket into several other tickets: #245 #247 #248 #249
11:32 Ticket #249 (Test Bio-Formats ITK plug-in extensively on Windows) created by hinerm
Current development on the BFITK plug-in is primarily in Mac OSX. Testing …
11:30 Ticket #248 (Bio-Formats ITK plug-in - populate physical pixel sizes) created by hinerm
Currently this is not done due to invalid memory access errors on some …
11:28 Ticket #247 (Add Write functionality to the Bio-Formats ITK plug-in) created by hinerm
Currently Farsight modules can only use BFITK to read image data, and …
11:24 Ticket #246 (Farsight doesn't handle non-8bit unsigned pixel type images) created by hinerm
When non-8bit unsigned pixel type images are opened in Farsight, only a …
11:00 Ticket #245 (Improve Bio-Formats ITK plug-in handling of multichannel images) created by hinerm
As of  loci-software:r7050, code was added to the BFITK plug-in to change …
10:44 Ticket #244 (BFITK Plug-In should be accessible regardless of where the calling program ...) closed by hinerm
fixed: Resolved in revision 7050. As ITK plug-ins require an ITK_AUTOLOAD_PATH …
10:40 Ticket #244 (BFITK Plug-In should be accessible regardless of where the calling program ...) created by hinerm
Currently, for a Farsight module to use the BFITK plug-in, the module has …
10:27 Ticket #243 (Add Bio-Formats-Supported Files to Open dialog) created by hinerm
To increase the visibility of Bio-Formats functionality as a plug-in for …

10/07/10:

14:22 Ticket #242 (ImgLibProcessor - improved functionality) closed by bdezonia
fixed
14:22 Ticket #242 (ImgLibProcessor - improved functionality) created by bdezonia
Improve support for LongType data in ImgLibProcessor and related classes. …
14:18 Ticket #234 (Fix adjust brightness/contrast to work with imglib backed data) closed by bdezonia
fixed: done
14:17 Ticket #233 (Fix display of ramped data in ImageJ after New Image) closed by bdezonia
fixed

10/06/10:

15:56 Ticket #241 (Write up results of industry-standard plugin framework document) created by rlentz
Cover features of Maya and Photoshop APIs to conclude standard based …
15:49 Ticket #240 (Develop standards documents for coding practices based on Java) created by rlentz
Draft version of a proposal of best development practices per IJdev.org …
15:47 Ticket #239 (Interative deconvolution as an example plugin for calling OpenCL from ...) created by rlentz
tbd..

10/04/10:

15:19 Ticket #23 (CellProfiler analysis pipeline plugin for ImageJ) closed by leek
fixed
11:59 Ticket #238 (Prepare presentation for ImageJConf) created by curtis
We need to prepare a presentation for the ImageJ conference. Outline …
11:32 Ticket #207 (Integrate Annotation Based Plugin Scheme into core ImageJ) closed by rlentz
wontfix: During the bi-weekly status meeting Curtis decided to no focus on …
11:23 Ticket #237 (6th - 7th November 2008: ImageJ User and Developer Conference, Luxembourg ...) created by rlentz
ImageJdev time block 4:30 - 6:00 Contribute summary and deconvolution …
10:45 Ticket #236 (Web Service Demos..) created by rlentz
Several methods exists for integrating software services on multiple …
09:20 Ticket #235 (Propagate change to ImageStack::getImageArray() throughout IJ) created by bdezonia
ImageStack::getImageArray() used to return a reference to its internals …
09:15 Ticket #187 (Demo of Injectable Singleton using Lookup for Saving Preferences) closed by gharris
fixed

10/01/10:

23:00 Milestone biweekly-2010: Sep-20 to Oct-01 completed
Tasks from 2010-Sep-20 through 2010-Oct-01.
17:27 Ticket #234 (Fix adjust brightness/contrast to work with imglib backed data) created by bdezonia
when you run adjust brightness/contrast on imglib backed data it generates …
17:25 Ticket #233 (Fix display of ramped data in ImageJ after New Image) created by bdezonia
Using File New Image and choosing fill with ramp ImageJ displays unusual …
17:22 Ticket #232 (Fix ImageJ bugs apparent with imglib backed images created with File New ...) created by bdezonia
After some initial testing of imglib support in ImageJ I have found a …
17:13 Ticket #222 (ImageJ - integrate imglib images into NewImage) closed by bdezonia
fixed: now working. other bugs apparent. will open other tickets
17:13 Ticket #206 (Incorporate ImgLib images into ImageStack) closed by bdezonia
fixed: done
16:50 Ticket #142 (Add loci-plugins.jar to bf-cpp) closed by curtis
fixed: As stated above, loci_plugins.jar is now included, so I'm closing this …
16:49 Ticket #140 (Update cron scripts) closed by curtis
fixed: Everything listed above is done except for backup-omero, because: A) there …
11:22 Ticket #231 (Create an outline for the GUI section of the imagejdev.org page) created by rlentz
The GUI section is currently TBD. As part of the division of labor for …

09/29/10:

15:53 Ticket #230 (ImageJ - harmonize indexing/plane/position code) closed by bdezonia
fixed
15:52 Ticket #230 (ImageJ - harmonize indexing/plane/position code) created by bdezonia
curtis and I have some duplicated code. refactor to use les code.
15:51 Ticket #229 (ImgLibProcessor - improve design of fill(mask)) closed by bdezonia
fixed
15:51 Ticket #229 (ImgLibProcessor - improve design of fill(mask)) created by bdezonia
make fill(mask) utilize selectors and functions for code reuse rather than …
15:49 Ticket #228 (ImgLibProcessor - make min/max calcs mirror IJ for all methods) closed by bdezonia
fixed
15:48 Ticket #228 (ImgLibProcessor - make min/max calcs mirror IJ for all methods) created by bdezonia
Curtis changes to imglib to allow planar access to data needs to be …
15:46 Ticket #227 (Incorporate planar access container code into ImageJ) created by bdezonia
Curtis changes to imglib to allow planar access to data needs to be …
15:27 Ticket #226 (Review Josh's Bio-Formats testing) created by curtis
One of our students did some testing of Bio-Formats's handling of various …
11:29 Ticket #225 (Update the http://www.imagejdev.org/opencl landing page to reflect ...) created by rlentz
Inputs regarding the feedback of the publication landingpage will be used …
11:27 Ticket #224 (Move the publication source to a maven project) created by rlentz
Maven allows recognition of os platforms and can use the respective native …
11:21 Ticket #223 (MAVEN Familiarization) closed by rlentz
fixed
11:20 Ticket #217 (OpenCL Publication) closed by rlentz
fixed: The OpenCL Publication has been updated to reflect the first eight …
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