Timeline


and

08/13/10:

15:53 Changeset [6795] by curtis
Backport r6792 to 4.2 branch.
15:50 Changeset [6794] by curtis
Backport r6789 to 4.2 branch.
13:46 Changeset [6793] by melissa
Changed logging level of missing interface messages from 'warn' to …
11:33 Ticket #528 (LUTs are lost in virtual stack mode) closed by melissa
fixed: (In [6792]) Preserve LUTs in virtual stack mode. Closes #528.
11:33 Changeset [6792] by melissa
Preserve LUTs in virtual stack mode. Closes #528.
09:18 Changeset [6791] by melissa
More OME-XML validation fixes, see #520.
09:06 Ticket #487 (Add support for ECAT7 files) closed by melissa
fixed: (In [6790]) Initial version of ECAT 7 reader. Closes #487.
09:06 Changeset [6790] by melissa
Initial version of ECAT 7 reader. Closes #487.

08/12/10:

14:45 Changeset [6789] by curtis
Fix for NullPointerException.

08/11/10:

17:38 Ticket #523 (Bio-Formats Windowless Importer is broken) closed by melissa
fixed: (In [6788]) If ImporterOptions.getId() returns null, prompt for a file …
17:38 Changeset [6788] by melissa
If ImporterOptions.getId() returns null, prompt for a file regardless of …
17:01 Ticket #530 (BD Pathway reader doesn't fully populate original metadata hashtable) created by melissa
BD Pathway datasets have lots of metadata that can't be properly mapped to …
16:35 Ticket #529 (Parse metadata from TIFFs produced by Nikon Elements) created by melissa
The metadata is very similar to what is in new ND2 files (i.e. lots of …
16:30 Changeset [6787] by melissa
Added extra sanity check when parsing doubles.
15:48 Changeset [6786] by melissa
More OME-XML validation fixes, see #520.

08/10/10:

14:39 Ticket #524 (Better documentation for command line tools) closed by melissa
fixed: (In [6785]) * bfconvert and showinf now exit if an unknown flag or …
14:39 Changeset [6785] by melissa
* bfconvert and showinf now exit if an unknown flag or argument is …
14:06 Changeset [6784] by melissa
More OME-XML validation fixes. See #520.
07:52 Changeset [6783] by melissa
Removed not-yet-existent CRIReader.

08/09/10:

13:20 Changeset [6782] by melissa
Parse physical pixel sizes for all series, instead of applying the first …
13:07 Changeset [6781] by melissa
Fixed tests in components/bio-formats; all tests should now pass.
11:54 Changeset [6780] by melissa
More thoroughly parse Z position values from single-file datasets.
10:22 Changeset [6779] by melissa
Fixed tag alignment problem.
09:34 Changeset [6778] by melissa
Prevent SlidebookReader from passing a negative int to setSeries.

08/06/10:

17:31 Changeset [6777] by curtis
Fix problem with ij.jar dependency resolution.
16:56 Changeset [6776] by curtis
First cut at Maven-based build system and directory layout for LOCI …
15:56 Changeset [6775] by curtis
Experimental branch for Maven-based builds.
11:39 Ticket #528 (LUTs are lost in virtual stack mode) created by curtis
When opening a single-channel dataset with the Bio-Formats Importer with …

08/05/10:

17:32 Changeset [6774] by curtis
More robust behavior when ome-xml service is unavailable. But still …
17:05 Changeset [6773] by curtis
Update minimum ImageJ version to 1.43, since …
16:29 Changeset [6772] by curtis
Update service properties to match OMEReaderWriterService package change.
16:26 Changeset [6771] by curtis
Fix SVN and Trac links for OMEReaderWriterService.
16:25 Changeset [6770] by curtis
Fix ome-io test compile errors.
16:04 Changeset [6769] by curtis
Remove soft dependency on ome-io from bio-formats component. The ome-io …
11:17 Changeset [6768] by melissa
Fixed several OME-XML validation issues. See #520.

08/04/10:

15:51 Changeset [6767] by melissa
Fixed a couple of silly Photoshop bugs.
15:18 Ticket #525 (Files cannot be saved from ImageViewer unless '-omexml' option was passed ...) closed by melissa
fixed: (In [6766]) Fixed file export from ImageViewer. Closes #525.
15:18 Changeset [6766] by melissa
Fixed file export from ImageViewer. Closes #525.
12:03 Ticket #527 (Add support for multiple positions in one Zeiss LSM file) created by melissa
See zeiss-lsm/ruben/3z2positions5timesteps.lsm. We currently assume that …
10:39 Changeset [6765] by melissa
Only populate Objective.NominalMagnification if the magnification stored …

08/03/10:

12:51 Changeset [6764] by melissa
Fixed implementation of getCurrentFile() in ImageReader. This is the real …
08:54 Changeset [6763] by melissa
Adjusted AnalyzeReader's isThisType implementations, so that AnalyzeReader …

08/02/10:

17:43 Ticket #516 (Allow metadata support documentation to be fully autogenerated) closed by melissa
fixed: (In [6762]) Initial work on fully autogenerated metadata support …
17:43 Changeset [6762] by melissa
Initial work on fully autogenerated metadata support documentation; it's a …
17:41 Changeset [6761] by curtis
Update OMERO library version number to 4.2.0.
17:30 Changeset [6760] by curtis
Remove tabs.
17:28 Changeset [6759] by curtis
Update OmeroReader to use OMERO 4.2 API.
15:26 Ticket #490 (Add support for PDS files) closed by melissa
fixed: (In [6758]) Added support for Perkin-Elmer densitometer data. Closes …
15:26 Changeset [6758] by melissa
Added support for Perkin-Elmer densitometer data. Closes #490.
13:02 Changeset [6757] by melissa
Reverted r6756, so that plugin tests no longer fail.
12:33 Changeset [6756] by melissa
Always reinitialize the 'core' variable; this prevents tests in …
12:26 Changeset [6755] by melissa
Ignore 'readme.txt' files.

07/30/10:

13:36 Changeset [6754] by melissa
Fixed BGR correction when opening sub-images. See QA #2583.
12:35 Ticket #526 (Parse metadata from S-FEG and Helios NanoLab TIFF files) created by curtis
The S-FEG and Helios NanoLab systems store metadata as key/value pairs in …
10:48 Ticket #525 (Files cannot be saved from ImageViewer unless '-omexml' option was passed ...) created by melissa
To reproduce: […] Select "File > Save". Enter any filename with a …

07/29/10:

20:20 Changeset [6753] by melissa
Fixed saveBytes and savePlane implementations to use the correct image …
14:27 Changeset [6752] by curtis
Document advantages of using the static library class loading approach.
13:41 Ticket #524 (Better documentation for command line tools) created by melissa
bfconvert, in particular, has some dangerously non-intuitive behavior. …
13:22 Ticket #523 (Bio-Formats Windowless Importer is broken) created by curtis
Attempting to use the Bio-Formats Windowless Importer with recent code …
12:59 Changeset [6751] by melissa
No longer use TiffData injection hack when validating OME-XML; OME-XML …
12:49 Changeset [6750] by curtis
Add Bio-Formats Importer to the File>Import menu.
12:16 Ticket #522 (Add support for Fuji LAS 3000 files) created by melissa
See data in data/fuji/venu/. The .img file appears to be raw pixels, and …
11:24 Changeset [6749] by melissa
Fixed OMEReaderWriterServiceImpl dependency checking and ome-io component …

07/28/10:

17:38 Changeset [6748] by melissa
Temporarily commented out URLHandleTest.
16:38 Ticket #519 (Implement new saveImage methods in BufferedImageWriter) closed by melissa
fixed: (In [6747]) * Added 'int getSeries()' method to IFormatWriter. * …
16:38 Changeset [6747] by melissa
* Added 'int getSeries()' method to IFormatWriter. * Implemented …
16:11 Ticket #273 (Some readers do not have sane file type checking) closed by melissa
fixed: (In [6746]) Remainder of type checking fixes. Closes #273.
16:11 Changeset [6746] by melissa
Remainder of type checking fixes. Closes #273.
13:09 Ticket #521 (Make Ant fail when tests fail) closed by melissa
fixed: (In [6745]) Updated overridden test targets to make Ant fail if any of the …
13:08 Changeset [6745] by melissa
Updated overridden test targets to make Ant fail if any of the tests …
10:28 Changeset [6744] by melissa
Force buffer reallocation if the previously allocated buffer is too small.
09:58 Changeset [6743] by melissa
Resolve references immediately, so that they are not lost with the …

07/27/10:

20:18 Changeset [6742] by melissa
More informative failure messages in sane used files test.
20:18 Changeset [6741] by melissa
Several more type checking fixes, see #273. Includes a fix for a very, …
16:12 Changeset [6740] by bselinsky
comments
15:32 Changeset [6739] by curtis
Extend the Boost_ADDITIONAL_VERSIONS hack to help CMake on Windows.
15:28 Changeset [6738] by curtis
Prevent Windows build from requiring dynamic Boost libraries (courtesy of …
14:51 Changeset [6737] by curtis
Fix errors with array allocation.
14:50 Changeset [6736] by curtis
More speed improvements and other cleanup to bfopen.m.
08:06 Changeset [6735] by melissa
* Handful of type checking fixes. See #273. * Strip whitespace from …

07/26/10:

18:39 Changeset [6734] by bselinsky
new
18:38 Changeset [6733] by bselinsky
Update
15:44 Changeset [6732] by curtis
Add a showinf easter egg. ;-)
13:59 Changeset [6731] by curtis
Stop using BufferedImageReader, for faster plane extraction.
11:45 Changeset [6730] by melissa
Merged r6729 into 4.2 branch.
11:43 Changeset [6729] by melissa
Ignore IFDs that do not contain an IMAGE_WIDTH entry. See QA #2570.
11:25 Changeset [6728] by melissa
Switch calls to MetadataTools.populatePixels and …
09:20 Changeset [6727] by melissa
Allow double images to be saved to TIFF.

07/23/10:

13:34 Changeset [6726] by melissa
A few more type checking fixes. See #273.
10:31 Changeset [6725] by curtis
Close file when finished reading data.

07/22/10:

19:16 Changeset [6724] by melissa
Fixed a bunch of type detection problems. See #273.

07/21/10:

19:58 Ticket #521 (Make Ant fail when tests fail) created by melissa
Currently, Ant test targets succeed even if one or more tests failed. To …
17:40 Changeset [6723] by curtis
Readd support for "-debug" flag to showinf and bfconvert.
17:36 Changeset [6722] by curtis
Add a utility method for enabling log4j logging without a configuration …
14:07 Changeset [6721] by bdezonia
whitespace only - a hudson test
11:32 Ticket #515 (Investigate physical size population for ScanR datasets) closed by melissa
fixed: (In [6720]) Populate physical pixel sizes, if present. Closes #515.
11:32 Changeset [6720] by melissa
Populate physical pixel sizes, if present. Closes #515.

07/20/10:

16:56 Changeset [6719] by melissa
Set BinData.Length to "0" to prevent validation errors.
16:55 Ticket #520 (Verify that generated OME-XML validates) created by melissa
r6719 fixed the most common error (missing BinData.Length), but some files …
16:32 Changeset [6718] by bdezonia
no change except whitespace - hudson test
16:11 Changeset [6717] by curtis
Eliminate excessive xmlvalid output.
14:51 Changeset [6716] by curtis
More fixes to LWF license code handling.
12:24 Changeset [6715] by melissa
Close open files to prevent "too many open files" error when exporting …
11:46 Changeset [6714] by curtis
Fix up support for LWF license codes.
09:29 Changeset [6713] by melissa
Prevent ArithmeticException if stage coordinates are not present.
09:05 Ticket #519 (Implement new saveImage methods in BufferedImageWriter) created by melissa
All of the existing saveImage methods in BufferedImageWriter are …
08:56 Changeset [6712] by melissa
Allow sane used file test to be run separately; useful for testing #273.
08:40 Changeset [6711] by melissa
Speed up plane access by using one reader for each constituent file.

07/19/10:

21:21 Changeset [6710] by melissa
* Fixed how ICS files with > 4 channels are read. * Fixed Channel …
19:08 Changeset [6709] by melissa
Added utility that prints out all of the files in a directory that are …
18:12 Changeset [6708] by melissa
Added one more date format to the list of acceptable TIFF date formats.
17:40 Changeset [6707] by melissa
Fixed problems with exporting multi-channel data.
17:35 Ticket #518 (Allow exporter plugin to export to multiple files) created by melissa
In particular, it would be nice to be able to export multi-file OME-TIFF …
14:07 Ticket #517 (Bio-Formats Importer progress bar is missing on some systems) created by curtis
The recent changes to the Bio-Formats Importer have resulted in some cases …
11:33 Changeset [6706] by melissa
Tweaked isThisType to automatically return false if the TIFF comment is an …
10:02 Changeset [6705] by melissa
Fixed bytes per pixel calculation for RGB data.

07/16/10:

11:30 Changeset [6704] by melissa
* Reverted r6703 stupidity. * Fixed Image5D display mode to work with …

07/15/10:

15:23 Changeset [6703] by melissa
Disable the "concatenate series" option when displaying with Image5D. See …
15:14 Changeset [6702] by melissa
* Fixed ROI retrieval logic in ImageJ import plugin. * Updated FV1000 …
14:19 Changeset [6701] by melissa
Fixed View5D instantiation; see #514.

07/14/10:

15:23 Ticket #516 (Allow metadata support documentation to be fully autogenerated) created by melissa
Right now, the metadata support documentation is autogenerated from the …
15:14 Ticket #515 (Investigate physical size population for ScanR datasets) created by melissa
Need to double-check that ScanR physical sizes are being populated …
14:54 Ticket #510 (Some Amira files throw an exception during setId) closed by melissa
invalid: The Amira software does not open either file, so I'm going to assume that …
13:47 Changeset [6700] by melissa
More robust Z position parsing. The value of 'absoluteZ' is now taken …
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