Timeline


and

03/30/09:

16:57 Changeset [4954] by curtis
Jace and Bio-Formats now link on Windows, but the examples still don't.
11:56 Ticket #342 (Add support for reading/writing multi-page EPS files) closed by melissa
invalid: From the EPS specification (specs/eps/eps.pdf): "An encapsulated …
11:40 Changeset [4953] by melissa
Switched licenses from GPL v3 or later to GPL v2 or later.
10:59 Ticket #363 (AWTImageTools.openImage misrepresents negative pixel values for int16) closed by melissa
fixed: Signed 8-bit data (FormatTools.INT8) is not supported - see …
10:58 Ticket #375 (Cannot construct uint32 BufferedImages) created by melissa
[…] produces the following exception: […]
10:39 Ticket #374 (Cannot construct int8 BufferedImages) created by melissa
[…] produces the following exception: […]
10:10 Changeset [4952] by melissa
AWTImageTools.openImage now correctly represents signed 16-bit data.
08:51 Changeset [4951] by melissa
Fixed how field count is determined and updated openBytes to account for …

03/26/09:

14:56 Changeset [4950] by curtis
Update bf-cpp documentation and build system infrastructure for Windows. …
14:09 Ticket #366 (LSM reader should accept files with .mdb extension) closed by melissa
fixed: (In [4949]) * Moved getPixelType(Hashtable ifd) from MinimalTiffReader to …
14:09 Changeset [4949] by melissa
* Moved getPixelType(Hashtable ifd) from MinimalTiffReader to TiffTools. * …
13:03 Changeset [4948] by melissa
Commented out call to System.out.println.
11:43 Changeset [4947] by melissa
Fixed some .mdb parsing bugs.
09:51 Changeset [4946] by melissa
Tweaked "unsupported pixel type" error message.
09:05 Ticket #365 (Error parsing MDB database files: exception in mdb_fetch_row) closed by melissa
fixed: (In [4945]) Eliminated exceptions when parsing memo and OLE fields from …
09:05 Changeset [4945] by melissa
Eliminated exceptions when parsing memo and OLE fields from .mdb files. …

03/25/09:

14:12 Changeset [4944] by melissa
Added support for .cxd files that contain embedded TIFFs instead of raw …
13:03 Changeset [4943] by melissa
Wrap the DataInputStream in a BufferedInputStream to reduce plane access …
12:29 Ticket #371 (ICS reader does not accurately report signed 16-bit data) closed by melissa
fixed: (In [4942]) Removed signedness hack for Huygens ICS files; closes #371.
12:29 Changeset [4942] by melissa
Removed signedness hack for Huygens ICS files; closes #371.
12:14 Ticket #373 (Writers do not preserve color lookup tables) created by melissa
The APNG and TIFF writers should detect and preserve lookup tables …
10:49 Ticket #370 (Add support for lossless-compressed ZVIs) closed by melissa
fixed: (In [4941]) Added support for Zlib-compressed ZVI images. Closes #370.
10:49 Changeset [4941] by melissa
Added support for Zlib-compressed ZVI images. Closes #370.

03/24/09:

13:51 Changeset [4940] by curtis
* Fix problem constructing OME-XML root node when xmlns is specified with …
11:39 Ticket #372 (MetamorphReader does not accurately search for constituent files) closed by melissa
fixed: (In [4939]) Improved search for STK files, and added a better error …
11:39 Changeset [4939] by melissa
Improved search for STK files, and added a better error message if one is …
09:58 Changeset [4938] by melissa
Fixed problem with files where the actual number of images is greater than …

03/23/09:

10:32 Ticket #350 (Add support for IPLab-Mac file format) closed by melissa
fixed: (In [4937]) Parse metadata from the XML block at the end of the file. …
10:32 Changeset [4937] by melissa
Parse metadata from the XML block at the end of the file. Closes #350.
09:36 Changeset [4936] by melissa
Fixed DelegateReader.openBytes(int, byte[], int, int, int, int) to …
09:27 Changeset [4935] by melissa
isThisType(RandomAccessStream) now checks for a magic number instead of …
08:42 Changeset [4934] by melissa
Check that the plane count is divisible by 3 before assuming that files …
08:31 Changeset [4933] by melissa
Fixed another NPE when parsing deconvolution log files.
08:09 Ticket #372 (MetamorphReader does not accurately search for constituent files) created by melissa
loci.formats.in.MetamorphReader:180 needs to be modified to more …

03/20/09:

15:07 Changeset [4932] by melissa
Removed debugging statement.
15:07 Ticket #322 (Eliminate native library dependencies) closed by melissa
fixed: (In [4931]) * Initial version of lossless JPEG decoder. Closes #322. * …
15:07 Changeset [4931] by melissa
* Initial version of lossless JPEG decoder. Closes #322. * Moved Huffman …
13:27 Changeset [4930] by melissa
Fixed problems with InCell datasets that have a different number of TIFF …
10:42 Changeset [4929] by melissa
Fixed how the number of row padding bytes is calculated.

03/19/09:

09:39 Changeset [4928] by melissa
Fixed NPE when parsing deconvolution log file.

03/18/09:

14:55 Changeset [4927] by melissa
Fixed strip offset calculation for STK files that don't contain enough …
11:05 Changeset [4926] by melissa
Added reader for Cellomics C01 files.
09:19 Ticket #371 (ICS reader does not accurately report signed 16-bit data) created by melissa
ICSReader currently contains logic that treats all 16-bit images produced …
08:16 Ticket #370 (Add support for lossless-compressed ZVIs) created by melissa
The pixel data in ZVI files can be compressed losslessly - a brief test …
08:12 Ticket #369 (Some tiled ZVIs throw an exception) created by melissa
See : * zeiss-zvi/markus/Branchiostoma_6x12_MosaiX_Tiles_color.zvi * …

03/17/09:

13:57 Changeset [4925] by melissa
Call MetadataTools.populatePixels after the CoreMetadata object is …

03/16/09:

14:31 Ticket #368 (Cannot read converted OME-TIFF files with JPEG-2000 compression) closed by melissa
fixed: (In [4924]) Only double StripByteCounts values if the strips are …
14:31 Changeset [4924] by melissa
Only double StripByteCounts values if the strips are compressed with LZW. …
13:32 Changeset [4923] by melissa
Added untested logic for detecting multi-channel data.
13:18 Ticket #367 (NativeND2Reader does not read Z steps correctly) closed by melissa
fixed: (In [4922]) Parse Z step from the 'dZStep' value instead of the 'dAspect' …
13:18 Changeset [4922] by melissa
Parse Z step from the 'dZStep' value instead of the 'dAspect' value. Fixes …
13:17 Changeset [4921] by melissa
Fixed MetadataStore and metadata hashtable propagation.
12:25 Changeset [4920] by melissa
Eliminated deprecation warnings in JAI component.
11:57 Ticket #368 (Cannot read converted OME-TIFF files with JPEG-2000 compression) created by melissa
OME-TIFF files written with JPEG-2000 compression cannot be read. To …
11:34 Ticket #354 (Bio-Formats writers should use the loci.common I/O classes) closed by melissa
fixed: (In [4919]) * Changed TiffTools.overwriteIFDValue to accept a String …
11:34 Changeset [4919] by melissa
* Changed TiffTools.overwriteIFDValue to accept a String filename instead …
11:30 Changeset [4918] by melissa
Fixed how FormatWriter.saveBytes calculates the number of channels per …
11:21 Changeset [4917] by melissa
Fixed several problems with writing to an RABytes.
09:46 Ticket #360 (J2K files not supported) closed by melissa
fixed: (In [4916]) Added support for J2K files. Closes #360.
09:46 Changeset [4916] by melissa
Added support for J2K files. Closes #360.
09:10 Ticket #361 (Move JPEG-2000 logic into its' own reader) closed by melissa
fixed: (In [4915]) Added separate reader for JPEG-2000 files. Closes #361.
09:10 Changeset [4915] by melissa
Added separate reader for JPEG-2000 files. Closes #361.
08:20 Changeset [4914] by melissa
Added 'signed' field to CodecOptions and eliminated deprecation warning in …

03/13/09:

14:04 Changeset [4913] by melissa
Added loci.common.RandomAccessOutputStream (analogous to …
13:07 Changeset [4912] by melissa
Changed 'QTReader' to 'NativeQTReader' and 'ND2Reader' to …
11:11 Ticket #367 (NativeND2Reader does not read Z steps correctly) created by melissa
data/nd2/jonas/header_test1.nd2 should have Dimensions.PhysicalSizeZ set …
10:35 Changeset [4911] by melissa
Removed debugging statement from JPEGCodec.

03/12/09:

18:08 Changeset [4910] by curtis
Fix references to ome-xml.jar and other JARs.
14:49 Ticket #366 (LSM reader should accept files with .mdb extension) created by curtis
Some LSM datasets have an MDB companion database containing additional …
14:44 Ticket #365 (Error parsing MDB database files: exception in mdb_fetch_row) created by curtis
When parsing MDB files, several exceptions are thrown: […] The …
14:28 Changeset [4909] by curtis
Use LogTools to print exceptions in MDB parser, and only when debug is …
14:27 Changeset [4908] by melissa
Updated metadata support documentation to account for renamed ND2 and …
11:03 Ticket #362 (Clean up delegation to legacy readers) closed by melissa
fixed: (In [4907]) Moved native/legacy reader delegation logic to …
11:03 Changeset [4907] by melissa
Moved native/legacy reader delegation logic to loci.formats.DelegateReader …

03/11/09:

17:26 WikiStart edited by curtis
(diff)
16:57 Ticket #264 (Better ImageJ open/save integration) closed by curtis
wontfix: It is unlikely that core ImageJ is going to change enough to make this …
16:45 Ticket #82 (Better support for writing OME-TIFF, including proposed modifications) closed by curtis
fixed: OMETiffWriter has existed since r3013, and as of r4748/r4749 populates …
15:13 Changeset [4906] by melissa
Moved native QuickTime reader to loci.formats.in.NativeQTReader. QTReader …
14:46 Changeset [4905] by curtis
Fix what's new to contain release date for 4.0.0.
11:42 Ticket #347 (Better handling of OME-TIFFs without .ome.tiff extension) closed by melissa
fixed: (In [4904]) OMETiffReader now checks for OME-XML in the TIFF comment, even …
11:42 Changeset [4904] by melissa
OMETiffReader now checks for OME-XML in the TIFF comment, even if the …
11:12 Changeset [4903] by melissa
Parse FLIM data and prevent NumberFormatException when parsing physical …
10:21 Ticket #364 (Group DICOM files using the 'Instance Number' tag) closed by melissa
fixed: (In [4902]) Group DICOM files according to the "Instance Number" tag. …
10:21 Changeset [4902] by melissa
Group DICOM files according to the "Instance Number" tag. Closes #364.

03/10/09:

14:18 Ticket #352 (Add support for NIfTI format) closed by melissa
fixed: (In [4901]) Added NIfTI reader; closes #352.
14:18 Changeset [4901] by melissa
Added NIfTI reader; closes #352.
11:18 Changeset [4900] by melissa
Added getHandle(String) method to Location, which returns an …
09:41 Changeset [4899] by melissa
Fixed a couple of regression bugs in TiffTools.
01:47 Changeset [4898] by curtis
Add Abraham Sorber to VisBio authors.
00:20 Changeset [4897] by curtis
Move JVMLink C++ code out of Java source tree.
00:08 Ticket #209 (OME download is broken) closed by curtis
fixed: Fixed in r4005.
00:00 Changeset [4896] by curtis
Fix VisBio dist targets.

03/09/09:

14:58 Ticket #348 (TiffTools should return individual image tiles) closed by melissa
fixed: (In [4895]) Added methods to TiffTools that return an individual tile or …
14:58 Changeset [4895] by melissa
Added methods to TiffTools that return an individual tile or strip and …

03/05/09:

12:59 Changeset [4894] by curtis
Tweaks to CMake configuration file, and progress on Windows.
12:10 Changeset [4893] by melissa
Fixed Plane.DeltaT population for Leica LIF.

03/03/09:

16:51 Changeset [4892] by curtis
Reuse the same buffer for each image plane, and remove obsolete comments.
16:12 Changeset [4891] by curtis
Ignore build directory.
16:08 Changeset [4890] by curtis
Fix various bugs with Bio-Formats ITK plugin. Also works on Mac OS X now.
16:00 Changeset [4889] by curtis
On Mac OS X, copy libjace.jnilib to libjace.dylib, to avoid linker …
16:00 Changeset [4888] by curtis
Add isMac property, set when platform is Mac OS X.
15:35 Changeset [4887] by melissa
Override getUsedFiles() to return both the image and header file names.
14:30 Ticket #356 (Add support for Analyze 7.5 format) closed by melissa
fixed: (In [4886]) Added support for Analyze 7.5 files; closes #356.
14:30 Changeset [4886] by melissa
Added support for Analyze 7.5 files; closes #356.
12:52 Changeset [4885] by curtis
Trim Leica TCS metadata key/value pairs.
12:50 Changeset [4884] by curtis
Always trim key names when adding original metadata fields.
10:37 Changeset [4883] by melissa
Added missing java.xml.
09:58 Changeset [4882] by melissa
Removed unused tag.
09:43 Changeset [4881] by melissa
4.0.0 release of LOCI Tools
09:31 Changeset [4880] by melissa
4.0.0 release of LOCI Tools
08:45 Changeset [4879] by melissa
Synced 4.0.0 branch to r4878 (including r4804).
08:42 Ticket #364 (Group DICOM files using the 'Instance Number' tag) created by melissa
Instead of grouping DICOM files according to the file names, we should use …
08:02 Changeset [4878] by melissa
Catch NumberFormatException when parsing plane data from the deconvolution …
00:00 Milestone bio-formats-4.0 completed
Bio-Formats release corresponding to OMERO Beta 4. The primary goals of …

03/02/09:

17:01 Changeset [4877] by curtis
Add license to readme file.
16:31 Changeset [4876] by curtis
Flesh out readme file with build instructions and current status.
16:17 Ticket #363 (AWTImageTools.openImage misrepresents negative pixel values for int16) created by curtis
When reading an int16 BufferedImage using the AWTImageTools.openImage …
15:00 Changeset [4875] by curtis
When filtering metadata fields, check for empty strings after performing …
14:33 Ticket #359 (Exception when reading signed 16 bit images) closed by curtis
fixed: (In [4874]) Use USHORT instead of SHORT for 16-bit integer …
14:33 Changeset [4874] by curtis
Use USHORT instead of SHORT for 16-bit integer SignedColorModel. Fixes …
09:53 Changeset [4873] by melissa
Added IPLab-Mac and ARF metadata documentation.
08:11 Changeset [4872] by melissa
Synced 4.0.0 branch with trunk, excluding r4804.

03/01/09:

13:48 Changeset [4871] by melissa
The custom colorize option is now recorded correctly by the macro …
12:30 Changeset [4870] by melissa
Updated metadata support documentation.

02/28/09:

13:15 Changeset [4869] by melissa
Updated what's new for 4.0.0 release.
12:52 Changeset [4868] by melissa
Plane names are stored in the metadata hashtable with keys of the form …
Note: See TracTimeline for information about the timeline view.