Timeline


and

10/16/08:

16:36 Changeset [4509] by melissa
Added boolean parameter to MetadataTools.populatePixels to toggle whether …
14:41 Changeset [4508] by curtis
Fix initFile debug line.
14:31 Changeset [4507] by curtis
* Ugly hack to speed up metadata store population. * Add Experiment …
14:08 Changeset [4506] by curtis
* Include methods for obtaining one child node at a time. * Clean up …
13:30 Changeset [4505] by curtis
Add methods for getting a single child node or element.
11:39 Changeset [4504] by melissa
Removed JMagick native library, and added missing classpath entry for JAI …
11:19 Changeset [4503] by melissa
* Added JAI ImageIO component, with modifications to support YCbCr color …

10/15/08:

14:15 Changeset [4502] by curtis
Add status message for OME metadata population.
12:16 Changeset [4501] by curtis
Fix more unused import warnings.
11:55 Changeset [4500] by curtis
Fix unused import warnings in OME-XML Java library.

10/14/08:

16:34 Changeset [4499] by curtis
Fix some Eclipse compiler warnings.
15:42 Changeset [4498] by curtis
Minor updates to Bio-Formats reader guide.
14:58 Changeset [4497] by curtis
Update SLIM plotter to do list.
14:55 Changeset [4496] by curtis
Display numerical output for active channel rather than always channel #0.
14:54 Changeset [4495] by curtis
Fix bugs in binning and curve estimation.
14:48 Changeset [4494] by curtis
Add option to display standardized OME metadata on import.
14:40 Changeset [4493] by curtis
Centralize identical dumpXML method implementations.
14:39 Changeset [4492] by curtis
Add partial Experiment entity; flesh out ID descriptions; add some …
14:17 Changeset [4491] by curtis
Add padded border around browser options window, to make it look nicer.
14:10 Changeset [4490] by curtis
JFrame extension for XML tree window.
11:32 Changeset [4489] by curtis
Be less annoying when loci.ome.io classes are missing.

10/13/08:

12:46 Ticket #324 (Add support for Minolta MRW format) closed by melissa
fixed: (In [4488]) Added Minolta MRW support; closes #324.
12:46 Changeset [4488] by melissa
Added Minolta MRW support; closes #324.

10/10/08:

18:35 Changeset [4487] by curtis
Better exception reporting when launching plugins from the shortcut …
18:16 Changeset [4486] by curtis
Graphical TIFF comment editor.
11:14 Ticket #324 (Add support for Minolta MRW format) created by melissa
See  http://www.chauveau-central.net/mrw-format/mrw-format.txt.
10:56 Changeset [4485] by curtis
Add big version of LOCI logo.
08:57 Changeset [4484] by melissa
Fixed off-by-1 bug and offset to channel metadata.
07:39 Changeset [4483] by melissa
Changed format name to "Amersham Biosciences GEL".

10/09/08:

07:53 Changeset [4482] by melissa
Print warning if we have a 64-bit (double) image and "-normalize" is not …

10/08/08:

18:20 Changeset [4481] by curtis
Lots of bugfixes and improvements to curve fitting package and associated …

10/07/08:

15:54 Changeset [4480] by melissa
Fixed bug with RLE-compressed RGB images.
14:37 Changeset [4479] by melissa
Added remainder of GCI metadata.
12:39 Changeset [4478] by melissa
Updated ICS reader to include support for GCI metadata.

10/06/08:

15:52 Changeset [4477] by curtis
Add toggle buttons for controlling mouse functionality in displays.

10/04/08:

12:18 Changeset [4476] by melissa
Don't assume that unknown tags have a string value - check the VR first.

10/03/08:

14:03 Changeset [4475] by melissa
Fixed pixel size bug.

10/02/08:

15:45 Changeset [4474] by melissa
If pixels are signed, apply a calibration function so that the histogram …
12:57 Changeset [4473] by melissa
Include sub-C dimensions in Data Browser cache.
09:08 Ticket #323 (Add support for writing JPEG2000) created by melissa
We should be able to write plain JPEG2000 files, and perhaps TIFF files …

10/01/08:

16:36 Changeset [4472] by curtis
Add separate Eclipse project for each component.
14:57 Changeset [4471] by melissa
Fixed a couple of bugs.
13:00 Changeset [4470] by curtis
Fix up Data Browser's support for sub-C dimensional axes.
11:48 Changeset [4469] by melissa
Added "select all" and "deselect all" buttons to series chooser.
10:23 Ticket #265 (Separate widget for each sub-C dimension) closed by melissa
fixed: (In [4468]) Added sub-C widgets to data browser; closes #265.
10:23 Changeset [4468] by melissa
Added sub-C widgets to data browser; closes #265.
09:00 Ticket #322 (Eliminate native library dependencies) created by melissa
Bio-Formats currently depends on two native libraries for reading lossless …
07:43 Changeset [4467] by melissa
Minor cleanup in codec package.

09/30/08:

12:00 Changeset [4466] by curtis
Update to do list.
11:59 Changeset [4465] by curtis
Move view toggles to View menu; allow simultaneous surface & lines views.

09/29/08:

23:21 Changeset [4464] by curtis
Add a couple more bugs to the list.
23:19 Changeset [4463] by curtis
Flesh out remaining tasks.
23:19 Changeset [4462] by curtis
Minor tweaks.
22:52 Changeset [4461] by curtis
Fix a major bug in chi2 error computation.
22:52 Changeset [4460] by curtis
Update to do list.
17:31 Changeset [4459] by curtis
Miscellaneous tweaks.
17:07 Changeset [4458] by curtis
Ensure curve fit estimation always processes [firstIndex, lastIndex].
16:45 Changeset [4457] by curtis
Display number of iterations for fitted curves.
16:45 Changeset [4456] by curtis
Fix XY swap bug.
16:07 Changeset [4455] by curtis
Better curve fitting cutoff logic.
14:40 Changeset [4454] by curtis
Fix bugs with FWHM and curve fit cutoff line plotting.
12:52 Changeset [4453] by melissa
Don't populate Plane attributes if one (or more) of getSizeZ(), getSizeC() …
12:50 Changeset [4452] by curtis
Use ICurveFitter interface instead of CurveFitter base class where …
12:46 Changeset [4451] by curtis
* Migrate some non-GA-specific code into base curve fitter class. * …
12:29 Changeset [4450] by melissa
Fixed NPE.
09:30 Changeset [4449] by melissa
Re-added test targets.

09/26/08:

17:42 Changeset [4448] by curtis
Progress on curve fitting.
17:12 Changeset [4447] by curtis
Fix some problems with chi2 error computation.
17:06 Changeset [4446] by curtis
Eliminate some duplicate code.
16:31 Changeset [4445] by curtis
Initial version of per-pixel lifetime cursor probe plotting.
15:58 Changeset [4444] by curtis
Beef up curve fitting API a little.
13:53 Changeset [4443] by melissa
Improved metadata support for Zeiss ZVI files.
10:58 Changeset [4442] by melissa
Fixed bug with cropping tiled images.

09/25/08:

16:38 Changeset [4441] by melissa
Fixed infinite loop when trying skip to end of compressed stream.
16:34 Changeset [4440] by curtis
Shuffle some code in preparation for per-pixel lifetime probe logic.

09/24/08:

18:00 Ticket #262 (Readd configurable caching support to Data Browser using Bio-Formats ...) closed by curtis
fixed: Should be functional again as of r4333, though not yet thoroughly tested.
16:49 Changeset [4439] by curtis
Fix some Data Browser layout problems.
16:30 Changeset [4438] by curtis
Fix bug in ZVI timestamp parsing.
15:43 Ticket #309 (Document supported metadata fields in each format) closed by curtis
fixed: Done as of r4263.
15:38 Ticket #321 (Investigate adding FindBugs targets) created by curtis
FindBugs is a useful static analysis tool for source code. See …
15:37 Ticket #311 (Split build into multiple components) closed by curtis
fixed: Done in r4357.
15:36 Ticket #278 (Move OME/OMERO plugins out of loci_tools.jar) closed by curtis
fixed: Done in r4357.
15:18 Changeset [4437] by curtis
Update SLIM Plotter to do list.
15:17 Changeset [4436] by curtis
Minor tweaks.
15:16 Changeset [4435] by curtis
Update LOCI Configuration window libraries.
14:49 Changeset [4434] by curtis
Fix problems with tools-ome target (ome_tools.jar).
14:42 Changeset [4433] by curtis
Fix typo in OME-Java library's classpath dependencies.
14:24 Changeset [4432] by curtis
Add new components to project notes.
14:20 Changeset [4431] by curtis
Tweak build config for new components.
14:13 Changeset [4430] by melissa
Reverted org.apache.poi.util.CommonsLogger, and added commons-logging.jar …
12:04 Changeset [4429] by curtis
Add MDB Tools to LOCI Tools dependencies.
11:18 Changeset [4428] by curtis
Remove obsolete shell script.
09:09 Changeset [4427] by melissa
If Deltavision log file is present, retrieve image creation date from it.
08:10 Changeset [4426] by melissa
Fixed a couple of problems with new components.

09/23/08:

22:03 Changeset [4425] by melissa
Fixed build error.
20:12 Ticket #320 (Fix compressed 16-bit Flex files) created by melissa
There is currently a bug in loci.formats.codec.LuraWaveCodec (used for …
20:09 Changeset [4424] by melissa
Added MDB tools and POI components.
16:29 Changeset [4423] by melissa
Code cleanup.
08:53 Changeset [4422] by melissa
Recompiled with Java 1.4.

09/22/08:

13:24 Changeset [4421] by melissa
Don't attempt to merge channels if the original images were indexed color.
12:53 Changeset [4420] by curtis
Standardize program title; fix initial channel label.
12:42 Changeset [4419] by curtis
Fix flickering & intensity autoscale timing issues.
12:40 Changeset [4418] by melissa
If multiple series are opened as virtual stacks, only close the reader …
11:31 Changeset [4417] by melissa
Eliminated jikes warnings.
10:43 Changeset [4416] by melissa
* Improved metadata support for Fluoview FV1000 files. * Updated metadata …

09/19/08:

15:14 Changeset [4415] by melissa
* Better metadata support for Leica LIF and Leica TCS files. * …
12:07 Changeset [4414] by melissa
Better metadata support for Leica LEI datasets.
11:44 Changeset [4413] by curtis
Fix tools targets.

09/18/08:

15:46 Changeset [4412] by curtis
Remove comments.
15:45 Changeset [4411] by curtis
Fix slim-dist target.
14:47 Changeset [4410] by curtis
Fix a threading issue with per-pixel lifetime.
14:27 Changeset [4409] by curtis
Fix ArrayIndexOutOfBoundsException in GA estimate logic.
12:49 Changeset [4408] by curtis
Fix problem with loci_plugins.jar manifest.
10:36 Ticket #24 (Multiple exponential curve fitting) closed by curtis
fixed: Two-component fits are now supported. No support for fixing parameters …
08:32 Ticket #23 (Minimum and maximum color value sliders do not work as expected) closed by curtis
fixed
08:00 Changeset [4407] by curtis
Be more explicit about which jars are required for tools targets.
07:57 Changeset [4406] by curtis
Update to do list.
07:53 Ticket #130 (Colorize data in intensity pane according to lifetime values) closed by curtis
fixed: It works!
07:51 Changeset [4405] by curtis
Add hack to convert per-pixel lifetime bin values to picoseconds.
07:34 Changeset [4404] by curtis
* Fix bug where color scaling logic updated manually overridden values. …
07:14 Changeset [4403] by curtis
Lifetime autoscaling is pretty good now.
00:53 Changeset [4402] by curtis
Fix more per-pixel lifetime reporting bugs when browsing spectral …

09/17/08:

17:42 Changeset [4401] by curtis
To do list.
17:41 Changeset [4400] by curtis
Some improvements to color range scaling. Still has bugs.
16:55 Changeset [4399] by curtis
Fix bugs with per-pixel lifetime computation when adjusting channel …
16:42 Changeset [4398] by curtis
Add bin radius, initial iterations and bin radius GUI options.
16:42 Changeset [4397] by curtis
Move intensity pane back to left side.
16:41 Changeset [4396] by curtis
Default max iterations to 1.
16:21 Changeset [4395] by curtis
Minor efficiency improvement to binning algorithm.

09/16/08:

12:27 Changeset [4394] by curtis
* Better initial progress bar. * GUI components for FPS and bin radius.
10:31 Changeset [4393] by melissa
Added scrollbars to cropping and dimension swapping dialogs.
10:19 Changeset [4392] by melissa
Use "group,element" key format for unknown tags - this makes …
09:32 Ticket #319 (Speed up Slidebook reading) closed by melissa
fixed: r4391
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