23:15 Changeset [4270] by melissa
Fixed overwriteIFDValue to handle BigTIFF files.
22:19 Changeset [4269] by melissa
Allow the number of bytes per strip to be > 8192 if the number of bytes …
18:19 Changeset [4268] by melissa
* Fixed various bugs exposed by test suite. * Another patch to …
16:18 Changeset [4267] by ansari
12:33 Changeset [4266] by curtis
Close file at the end of the Bio-Formats MATLAB script.
12:19 Changeset [4265] by curtis
Reorganize some packages: * Move OME/OMERO database connectivity layer …
12:12 Changeset [4264] by curtis
Add hooks for "Download from OME" and "Upload to OME" menu options.


15:11 Changeset [4263] by curtis
Set mime type for metadata fields summary doc.
15:10 Changeset [4262] by curtis
Add summary tables for supported metadata fields.
11:44 Changeset [4261] by curtis
Save importer preferences earlier, in case plugin crashes.


12:25 Changeset [4260] by melissa
Call MetadataTools.populatePixels after core metadata fields have been …
11:34 Changeset [4259] by melissa
Fixed bug in NetcdfTools that prevented Imaris 5.5 files from opening.


16:49 Ticket #259 (Add support for JPEG2000-compressed SVS files) closed by melissa
fixed: Added JPEG-2000 support for SVS in r4258. JMagick must be installed in …
16:46 Changeset [4258] by melissa
Use JMagick to decompress JPEG-2000 data if JAI fails.
14:26 Changeset [4257] by melissa
Updated all metadata support docs to indicate that …
13:15 Changeset [4256] by melissa
Fixed bug that prevented metadata from being displayed for multi-series …
12:25 Changeset [4255] by melissa
Handle yet another case where there are too many pixels files.
11:24 Changeset [4254] by melissa
Added timestamp support to Metamorph TIFF, courtesy of Thomas Caswell.


11:51 Ticket #314 (Add support for vector data in PS/EPS files) created by melissa
EPSReader only supports raster data, but should also support vector data. …
11:45 Changeset [4253] by melissa
Throw a more informative exception when vector data is encountered.
11:05 Changeset [4252] by melissa
Fixed NPE.
10:27 Changeset [4251] by melissa
Added metadata support documentation for APLReader, MINCReader and …


17:15 Changeset [4250] by curtis
Temporary hacks and fixes.
16:47 Changeset [4249] by curtis
Do not start per-pixel lifetime analysis until Start button is pressed.
16:46 Changeset [4248] by nor
More progress bar changes
16:35 Changeset [4247] by nor
Modification to progress bar - when it enters first pass iteration, …
16:30 Changeset [4246] by nor
Disables debugging prints, fixed progress meter
16:22 Changeset [4245] by curtis
* Better per-pixel lifetime progress bar. * Allow specification of …
16:11 Changeset [4244] by nor
Continuing bug fixes to GACurveFitter and BurnInRenderer
15:56 Changeset [4243] by curtis
Encapsulate core raw + derived data into SlimData class.
14:20 Changeset [4242] by melissa
Added support for objective name and physical X, Y, and Z sizes.
14:07 Changeset [4241] by curtis
Initial integration of per-pixel lifetime; miscellaneous bugfixes and …
13:56 Changeset [4240] by nor
unshadowed fields
13:44 Changeset [4239] by nor
Made changes to CurveFitter: it is now an abstract superclass, so children …
12:57 Changeset [4238] by curtis
Fix data offset bug; turn color range text fields red for bad input.
12:35 Changeset [4237] by curtis
Tweak some panel layouts.
12:34 Changeset [4236] by nor
updated (hopefully) for first and last indices
11:48 Changeset [4235] by curtis
Normalize exponential component count methods in various places.
11:36 Changeset [4234] by melissa
Fixed axis size calculations.
11:13 Changeset [4233] by nor
Modified CurveFitters to have first and last indices Moved constants out …
11:04 Changeset [4232] by curtis
Add separate view modes for "spectral projection" and "emission spectrum."
10:51 Ticket #187 (Model some data for testing) closed by curtis
fixed: There is a large quantity of synthetic test data (900 datasets) in the …
10:46 Ticket #85 (Look into other curve fitting algorithms) closed by curtis
fixed: SLIM Plotter now has an infrastructure for including additional curve …
10:43 Changeset [4231] by curtis
Add constructor signature that bins neighboring pixels.
10:42 Changeset [4230] by curtis
Add progress bar to image pane GUI.
10:41 Changeset [4229] by curtis
Remove some obsolete code.


22:54 Ticket #313 (Improve Slidebook metadata) created by melissa
We now have several screenshots of the metadata displayed by Slidebook …
22:50 Ticket #312 (Improve TillVision support) created by melissa
TillVisionReader does not currently support workspace files (.vws). The …
21:13 Changeset [4228] by melissa
Fixed NPE.
21:09 Changeset [4227] by melissa
* Moved XML parsing to DataTools utility method. * Fixed Metamorph TIFF …
16:13 Changeset [4226] by curtis
* Split out shared VisAD types into their own class. * Add dummy …
15:08 Changeset [4225] by nor
Continuing modifications to run method of BurnInRenderer. First draft …
14:53 Changeset [4224] by curtis
Initial GUI for toggling view modes, + miscellaneous cleanup.
14:28 Changeset [4223] by curtis
Don't allow 1-component exponential guesses to have negative tau.
14:27 Changeset [4222] by curtis
Width of initial guess should be a percentage of total bins, not …
12:40 Changeset [4221] by curtis
* Split LM curve fitter into separate class. * Add option to switch …
12:31 Changeset [4220] by nor
With 100% reduced println error messages!
12:01 Changeset [4219] by nor
Fixes to curve fitting: - Work around for negative tau issue - Fixed …
10:32 Changeset [4218] by curtis
Fix Slim Plotter bugs when using NOR's fitting code with 2 components.


16:54 Changeset [4217] by curtis
Add calls to NOR's new curve fitting code (commented out for now).
16:29 Changeset [4216] by nor
Initial commit of BurnInRenderer, modifications to support actual use in …
16:16 Changeset [4215] by curtis
Improve color min/max widgets.
14:34 Changeset [4214] by curtis
Split intensity pane into a separate class.
13:49 Changeset [4213] by nor
base renderer class for SLIM plotter
11:15 Changeset [4212] by nor
Modified data to be passed from double[][] to int[]
10:56 Changeset [4211] by curtis
Initial implementation of subsampling computation.
10:39 Changeset [4210] by curtis
Initial cut at API for curve collection class. Implementation is not …
09:08 Changeset [4209] by melissa
* Check TIFF header starting from offset 0, not the current offset. * …


10:39 Ticket #233 (Improve time performance of subimage methods) closed by melissa
fixed: There doesn't appear to be an appreciable difference between reading …
10:03 Changeset [4208] by melissa
Reverted to opening planes using TiffTools, rather than using …


14:35 Changeset [4207] by curtis
Fix problem with command line tools on Unix when directory contains a …
14:25 Changeset [4206] by curtis
Fix problem with command line tools on Windows when directory contains a …
13:58 Ticket #256 (Add new isThisType signature) closed by melissa
fixed: (In [4205]) Added isThisType(RandomAccessStream) to IFormatReader API. …
13:58 Changeset [4205] by melissa
Added isThisType(RandomAccessStream) to IFormatReader API. Closes #256.
10:24 Ticket #290 (Util.openProcessor does not properly handle RGB data) closed by melissa
fixed: (In [4204]) Changed Util.openProcessor methods to Util.openProcessors. …
10:24 Changeset [4204] by melissa
Changed Util.openProcessor methods to Util.openProcessors. These methods …
09:12 Changeset [4203] by melissa
More cleanup. Removed some unused methods from ImageTools, and moved …


15:47 Changeset [4202] by melissa
More cleanup.
11:24 Changeset [4201] by melissa
Removed debugging statements and fixed Z size parsing.
10:51 Changeset [4200] by melissa
* Minor code cleanup. * Added MinimalTiffReader - this is extended by …


14:15 Changeset [4199] by curtis
Fix erroneous use of HTML in supported metadata fields docs.
12:29 Changeset [4198] by melissa
* Fixed FV1000 physical size Z calculation (stored in nm, not microns) * …
09:27 Changeset [4197] by melissa
Updated meta-support.txt to reflect current metadata population.
09:25 Changeset [4196] by melissa
Removed commented out min/max setting logic.


15:19 Changeset [4195] by curtis
Invert manual caching flag.
15:18 Changeset [4194] by curtis
Minor tweaks.
14:26 Changeset [4193] by curtis
Add "Bio-Formats Mass Importer" example plugin.
12:10 Changeset [4192] by curtis
Update list of libraries.
12:00 Ticket #277 (Bio-Formats drag and drop window) closed by curtis
fixed: (In [4191]) Add drag and drop support to shortcut window; closes #277.
12:00 Changeset [4191] by curtis
Add drag and drop support to shortcut window; closes #277.
11:17 Changeset [4190] by melissa
A couple of fixes to SPW population.


15:38 Changeset [4189] by curtis
Move window placement utility method into common utility class.
15:38 Changeset [4188] by curtis
Tweak import statements.
15:37 Changeset [4187] by curtis
Remove unneeded files.
15:36 Changeset [4186] by curtis
First cut at Bio-Formats configuration window. No drag and drop support …
14:56 Changeset [4185] by allison
Update Eclipse build path; fix loci.apps.flow build errors.
14:52 Changeset [4184] by allison
Update OMERO libraries to 3.0 Beta 3.
13:37 Changeset [4183] by melissa
Fixed the WellSampleIndex values.
11:48 Ticket #311 (Split build into multiple components) created by curtis
The current dependency tree has a few wrinkles, especially with respect to …
09:25 Changeset [4182] by curtis
Reorder method declarations.
09:24 Changeset [4181] by melissa
Recognize .tf2, .tf8, and .btf extensions as TIFF/BigTIFF.
09:01 Changeset [4180] by melissa
Added support for TillVision data.


15:51 Changeset [4179] by melissa
Added logic to reorder channels based on metadata values.
14:09 Ticket #307 (Split IndexedColorModel into Index16ColorModel and Index32ColorModel) closed by melissa
fixed: (In [4178]) Moved 16-bit lookup table support from IndexedColorModel to …
14:09 Changeset [4178] by melissa
Moved 16-bit lookup table support from IndexedColorModel to …
13:44 Ticket #221 (Add support for Olympus APL file format) closed by melissa
fixed: (In [4177]) * Tweaked MDBParser API to be more usable. * Added Olympus APL …
13:44 Changeset [4177] by melissa
* Tweaked MDBParser API to be more usable. * Added Olympus APL reader - …
13:34 Ticket #310 (Overhaul Bio-Formats Importer) created by curtis
The Bio-Formats Importer plugin has become quite complex. The logic is …
13:29 Ticket #309 (Document supported metadata fields in each format) created by curtis
The Bio-Formats web site has a handy table showing all the supported file …
13:20 Ticket #308 (Sort data repository into different categories) created by curtis
Our repository of test files contains a large quantity of data: over 140 …
13:00 Ticket #307 (Split IndexedColorModel into Index16ColorModel and Index32ColorModel) created by curtis
Core Java has an IndexColorModel class for 24-bit RGB look-up tables keyed …
10:41 Changeset [4176] by melissa
Fixed a couple of offset bugs in mdbtools - the constituent MDB files in …


15:12 Changeset [4175] by curtis
Fix some bugs and add more constructor options, including null linked …
15:07 Changeset [4174] by curtis
Remove "image processor" from list of source types.
15:06 Changeset [4173] by curtis
Fix thread title.
14:37 Changeset [4172] by ansari
14:36 Changeset [4171] by ansari
14:30 Changeset [4170] by ansari
Updating ij.jar to nightly build (1.41f)
14:28 Changeset [4169] by ansari
Updating flow app files
13:18 Changeset [4168] by melissa
Set a default creation date, if one is not present in the file.
07:53 Changeset [4167] by melissa
Fixed Windows path name bug.


16:10 Changeset [4166] by melissa
Fixed tag length and plane size calculation bugs.
13:42 Changeset [4165] by melissa
Added support for MINC MRI format. Moved all NetCDF reflection logic into …


12:25 Changeset [4164] by curtis
Fix loci_tools.jar directory check for batch files.
11:04 Changeset [4163] by melissa
Added support for writing APNG files and reworked saveImage delegation - …
11:00 Changeset [4162] by melissa
No need to create a new byte array.
08:47 Changeset [4161] by melissa
Populate WellSample Index.
08:02 Changeset [4160] by melissa
Check the script's directory (not the working directory) for …


15:03 WikiStart edited by curtis
14:44 Ticket #306 (Min/max threshold for region of interest) created by curtis
It would be nice to be able to specify a minimum and maximum intensity …
14:43 Changeset [4159] by melissa
Fixed .tim file parsing bug.
14:40 Ticket #305 (Handle mixed OME/non-OME XML blocks) created by curtis
When looking for OME-XML blocks, Bio-Formats assumes the entire tree will …
09:34 Changeset [4158] by melissa
Handle case where we have more data files than the number of images.


15:09 Changeset [4157] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4156] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4155] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4154] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4153] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4152] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4151] by melissa
2008 Jul 01 release of LOCI Tools
15:09 Changeset [4150] by melissa
2008 Jul 01 release of LOCI Tools
15:05 Changeset [4149] by melissa
Updated what's new for today's release.
12:11 Ticket #276 (Make ND2 reader faster) closed by melissa
fixed: Time/memory improvements finished in r4148.
12:10 Changeset [4148] by melissa
Some ND2 cleanup - non-JPEG files should initialize slightly faster now.
09:37 Changeset [4147] by melissa
Shortened format names, when possible.
09:20 Changeset [4146] by melissa
Fixed SPW bug - Well is now properly represented as a child of Plate.
08:39 Changeset [4145] by melissa
Fixed constructor to actually compile.
08:26 Changeset [4144] by melissa
Added ClassList constructor that takes an additional Class parameter, …
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