Timeline
01/25/11:
- 23:21 Changeset [7592] by
- Remove obsolete svn:ignore property.
- 23:13 Changeset [7591] by
- Remove obsolete class.
- 23:12 Changeset [7590] by
- Add Deep Zoom plugin to umbrella POM.
- 22:50 Changeset [7589] by
- Remove Bio-Formats ITK project. Bio-Formats has moved to its own …
- 22:49 Changeset [7588] by
- Remove old JRE bundles.
- 22:43 Changeset [7587] by
- Remove Bio-Formats projects, and merge Maven branch. Bio-Formats has …
- 22:06 Changeset [7586] by
- Remove Bio-Formats branches and tags. Bio-Formats has moved to its own …
- 22:03 Changeset [7585] by
- Remove Bio-Formats branches and tags. Bio-Formats has moved to its own …
01/24/11:
- 18:21 Changeset [7584] by
- One more pixel data offset fix.
- 17:49 Changeset [7583] by
- Deprecated superfluous getHexString(byte[]) method.
- 17:48 Changeset [7582] by
- Prevent StringIndexOutOfBoundsException when file names start with "_".
- 15:50 Changeset [7581] by
- Prevent extra Plane(Timing).ExposureTime attributes from being populated.
- 08:20 Ticket #651 (Allow JPEG-2000 writer to use lossy compression) closed by
- fixed: (In [7580]) The JPEG-2000 writer can now use lossy or lossless …
- 08:20 Changeset [7580] by
- The JPEG-2000 writer can now use lossy or lossless compression. Closes …
01/22/11:
- 15:30 Changeset [7579] by
- Prevent potential AIOOB.
- 15:10 Ticket #651 (Allow JPEG-2000 writer to use lossy compression) created by
- getCompressionTypes() should return ["Lossy", "Lossless"], with "Lossless" …
- 11:50 Changeset [7578] by
- Moved jocl.jar to lib directory and successfully ran sobel example on OSX
- 11:44 Changeset [7577] by
- Michael Bien created a work around that allowed JOCL to work around a bug …
01/21/11:
- 23:19 Changeset [7576] by
- Project moved to ImageJ
- 23:13 Changeset [7575] by
- Added utility for dealing with native libraries.
- 22:27 Changeset [7574] by
- New utility class for dealing with native libraries.
- 21:26 Changeset [7573] by
- Backported a bunch of recent ND2 fixes to 4.1.
- 17:53 Changeset [7572] by
- Fix up save dialog behavior.
- 14:39 Changeset [7571] by
- Populate all of the wells, even if no image data is associated with them.
- 13:17 Changeset [7570] by
- Sanitize the XML before we parse it.
- 13:08 Changeset [7569] by
- Working version of Save As J2K plugin. Needed to call …
- 12:38 Changeset [7568] by
- Initial version of Metamorph TIFF HCS support.
01/20/11:
- 17:53 Changeset [7567] by
- Minor tweaks; still broken.
- 17:33 Changeset [7566] by
- Initial version of example JPEG2000 export plugin, courtesy of Albert …
- 14:51 Changeset [7565] by
- Backport -r7564 to 4.2 branch.
- 14:49 Changeset [7564] by
- Added a "dist" target to the bf-cpp project. Functionally identical to …
- 14:16 Changeset [7563] by
- Backport r7562 to 4.2 branch.
- 14:11 Changeset [7562] by
- Modified the dist target for BF-ITK to no longer copy unnecessary files on …
- 13:24 Changeset [7561] by
- Tweaked MetamorphReader's isThisType to prevent it from picking up files …
- 13:22 Changeset [7560] by
- Tweaked well name detection so that column indexes can only contain at …
- 13:07 Changeset [7559] by
- Clarified CLASSPATH requirements.
- 12:51 Changeset [7558] by
- Added some documentation on file export/conversion.
- 12:46 Ticket #650 (Update tiffcomment to allow editing on the command line) created by
- Right now, the only way to edit TIFF comments is using the GUI displayed …
- 12:45 Changeset [7557] by
- Forward port from branch 4.2 changes - mistakenly committed to a branch …
- 12:24 Changeset [7556] by
- Added the java class BioFormatsExtensionPrinter to the svn repository. …
- 12:22 Changeset [7555] by
- Added a new java class to BF-CPP - BioFormatsExtensionPrinter - to …
- 12:18 Changeset [7554] by
- Add variable for controlling number of channels.
01/19/11:
- 15:40 Ticket #646 (OME-TIFFs cannot be opened in Fiji with file grouping turned on) closed by
- fixed: (In [7553]) Prevent an NPE when attempting to stitch datasets that aren't …
- 15:40 Changeset [7553] by
- Prevent an NPE when attempting to stitch datasets that aren't stitchable. …
- 14:36 Ticket #627 (Slidebook series grouping is not always correct) closed by
- fixed: The series grouping should be correct with r7552, but the pixel data still …
- 14:35 Changeset [7552] by
- Group together separate blocks of pixels that belong to the same stack. …
- 11:38 Changeset [7551] by
- Fixed various metadata population problems when working with multi-file …
- 11:34 Changeset [7550] by
- Migrate workflow project to ImageJ repository. New location is …
- 11:13 Changeset [7549] by
- Remove binary libraries (not needed with Maven).
- 11:11 Changeset [7548] by
- Convert LOCI workflow to Maven.
01/18/11:
- 13:09 Ticket #649 (Add IFormatWriter.saveBytes signatures that accept a Region) created by
- ...instead of 4 ints specifying the region.
- 13:09 Ticket #648 (Add reader wrapper that provides simpler tile access) created by
- * void setTileWidth(int width) defaults to optimal width * void …
- 13:04 Ticket #647 (Add conversion convenience methods to FormatTools) created by
- Specifically: * static void convert(IFormatReader, IFormatWriter) * …
- 12:56 Ticket #646 (OME-TIFFs cannot be opened in Fiji with file grouping turned on) created by
- To reproduce: * start Fiji * select Plugins > LOCI > Bio-Formats …
- 12:35 Ticket #645 (Eliminate log4j warning messages) created by
- Several Bio-Formats-related tools still display log4j warning messages; …
- 12:34 Ticket #644 (Parse additional Andor TIFF tags) created by
- In particular: […] See the files in data/andor/benjamin/ for examples …
- 11:55 Changeset [7547] by
- Delete extraneous files
- 11:54 Changeset [7546] by
- Delete extraneous files
- 11:52 Changeset [7545] by
- Delete extraneous files
- 11:44 Changeset [7544] by
- Fixed channel name and wavelength population. See omero:#3865.
01/17/11:
- 11:29 Ticket #643 (Slidebook files with maximum projections cannot be read) closed by
- fixed: The file mentioned above can now be read, but the pixel data for some …
- 11:27 Changeset [7543] by
- One more adjustment to SizeX/SizeY calculations. See #643.
- 11:07 Changeset [7542] by
- Added eclipse jar export configuration file
- 11:01 Ticket #626 (Slidebook valid bits per pixel not parsed) closed by
- fixed: (In [7541]) Parse valid bits per pixel from Slidebook files. Closes #626.
- 11:01 Changeset [7541] by
- Parse valid bits per pixel from Slidebook files. Closes #626.
- 10:17 Changeset [7540] by
- No change
01/14/11:
- 20:46 Changeset [7539] by
- JNI NativeLoader
- 13:18 Ticket #643 (Slidebook files with maximum projections cannot be read) created by
- See data/slidebook/vytas/worms.sld.
- 13:06 Ticket #642 (Add better isThisType tests) created by
- Two new tests should be added: * one in loci.formats.utests that times …
- 11:50 Ticket #612 (Multi-channel indexed color images treated incorrectly) closed by
- fixed: (In [7538]) Set 'falseColor' to true, so that lookup tables are not …
- 11:50 Changeset [7538] by
- Set 'falseColor' to true, so that lookup tables are not improperly …
- 11:22 Ticket #641 (Add support for Zeiss FCS files) created by
- See data in data/zeiss-fcs/chris/ and description in …
- 10:48 Changeset [7537] by
- changed the implementation to floating point
- 09:15 Changeset [7536] by
- Test from Michael Bien
- 08:53 Ticket #637 (Plane numbers in status bar are sometimes incorrect) closed by
- fixed: (In [7535]) Fixed plane index in status bar. Closes #637.
- 08:53 Changeset [7535] by
- Fixed plane index in status bar. Closes #637.
01/13/11:
- 21:44 Changeset [7534] by
- Multiple changes to get discovery and workflow save/restore to Preferences …
- 16:28 Changeset [7533] by
- Configured for 64 bit linux.
- 16:15 Changeset [7532] by
- 16:13 Changeset [7531] by
- 14:40 Changeset [7530] by
- Update bf-cpp proxy list to match latest Java source files.
- 14:32 Changeset [7529] by
- Backport latest bf-itk to 4.2 branch.
- 13:56 Changeset [7528] by
- Corrected pixel type for 32-bit images, as Andor/Fluoview assumes that all …
- 13:46 Changeset [7527] by
- 13:29 Ticket #640 (Add a few more options to bfconvert) created by
- In particular: * '-range', similar to showinf's '-range' * '-channel', …
- 12:18 Changeset [7526] by
- Copied over workflow stuff from DeepZoom plugin.
- 12:17 Changeset [7525] by
- 10:58 Changeset [7524] by
- Tested SobelFilter Sample under OSX with latest CUDA and jogamp libraries. …
- 09:47 Changeset [7523] by
- Restructured libs and code to reflect CUDA 3.2 and Jogamp's signed build …
01/12/11:
- 20:05 Ticket #639 (Make sure that static fields are being used properly) created by
- There are several static (non-final) HashMaps/Hashtables throughout the …
- 20:05 Changeset [7522] by
- Make primitive type static variables volatile.
- 15:34 Changeset [7521] by
- update
- 15:20 Changeset [7520] by
- update
- 15:19 Changeset [7519] by
- update
- 15:19 Changeset [7518] by
- update
- 15:17 Changeset [7517] by
- update 7
- 14:40 Changeset [7516] by
- You can now create a workflow, save to XML, create another workflow from …
- 13:20 Changeset [7515] by
- update
- 12:17 Ticket #638 (Add support for Zeiss LSM files that have differing bits per sample) created by
- See the file in data/zeiss-lsm/aaron-o*/. Each non-thumbnail IFD has a …
- 11:35 Ticket #637 (Plane numbers in status bar are sometimes incorrect) created by
- See attached screenshot. Specifying a range of planes to open can cause …
- 10:39 Ticket #633 (FV1000 LUTs are not displayed correctly in ImageJ) closed by
- fixed: (In [7514]) Fixed indexed flag and LUT parsing. Closes #633.
- 10:39 Changeset [7514] by
- Fixed indexed flag and LUT parsing. Closes #633.
- 10:09 Changeset [7513] by
- Enhanced ant dist script to copy BioFormatsIO.dll to the dist directory.
01/11/11:
- 21:29 Changeset [7512] by
- Made the test plugin input and output names more meaningful.
- 21:13 Changeset [7511] by
- Workflow updates, works with new PluginModule, hooks up to …
- 21:11 Changeset [7510] by
- Added new tests during test-driven development.
- 21:11 Changeset [7509] by
- This package is basically a copy of loci.multiinstanceplugin. Also …
- 15:07 Ticket #636 (Allow ImageReader to call isThisType(..., false)) created by
- There are three pieces to this ticket: 1) Add a setter to ImageReader …
- 14:28 Changeset [7508] by
- Fixed NPE.
- 14:27 Changeset [7507] by
- Backported changes to Openlab reader for importing HCS data.
- 13:53 Changeset [7506] by
- Updated the Readme text to the following: ( Please ensure installation of …
- 13:45 Changeset [7505] by
- No change here.
- 13:44 Changeset [7504] by
- Several updates to clarify the examples provided to enable OpenCL …
- 13:20 Changeset [7503] by
- Backport r7494,r7496 bugfixes to 4.2 branch.
- 12:56 Changeset [7502] by
- Don't overwrite existing image names.
- 12:40 Changeset [7501] by
- Added a readme This code was developed to show how to use JOCL to …
- 12:39 Changeset [7500] by
- Search more thoroughly for image descriptions. Image descriptions are no …
- 09:14 Changeset [7499] by
- Fixed compile error in r7498.
- 09:03 Changeset [7498] by
- Backported ScreenReader to 4.2.
01/10/11:
- 20:11 Changeset [7497] by
- Fleshed out WorkFlow.finalize. ModuleFactory now has a register method …
- 16:18 Changeset [7496] by
- Fix signedness averaging problem with convertTo8Bit method.
- 16:14 Changeset [7495] by
- Added proper ComponentFactory. Renamed chain -> wire, component -> …
- 15:56 Changeset [7494] by
- Fix problem where custom LUTs override grayscale mode. This happened …
- 14:22 Changeset [7493] by
- Slightly more robust well name checking.
- 10:25 Changeset [7492] by
- Fixed import that caused compile failure in r7491.
- 10:15 Changeset [7491] by
- Merged file grouping and channel name parsing fixes from trunk.
01/07/11:
- 17:22 Changeset [7490] by
- Added method call for Rick's project.
- 13:38 Changeset [7489] by
- Prevent potential NPE if the "Info" property is not set on the ImagePlus …
- 12:43 Changeset [7488] by
- Sanitize OME-XML before attempting to create a MetadataStore.
01/06/11:
- 10:56 Changeset [7487] by
- Use a ConcurrentHashMap instead of a HashMap.
01/05/11:
- 16:15 Changeset [7486] by
- Added optional cacheing of directory listings, courtesy of Lee Kamentsky.
- 14:19 Ticket #635 (Add support for Image-Pro .ips metadata files) created by
- See files in data/imagepro/alex/. The .ips file is some sort of metadata …
01/04/11:
- 13:09 Ticket #634 (File grouping does not work in ImageJ on Windows) closed by
- fixed: (In [7485]) Escape backslashes when finding a pattern. Closes #634.
- 13:09 Changeset [7485] by
- Escape backslashes when finding a pattern. Closes #634.
- 12:05 Changeset [7484] by
- Various fixes to allow retrieval of pixel data from truncated TIFFs.
12/31/10:
- 14:16 Ticket #272 (Ability to explicitly disable file stitching for certain files) closed by
- fixed: This was added in r6349; adding "no_stitch=true" to a .bioformats file …
- 13:39 Changeset [7483] by
- Fixed a handful of bugs introduced in r7481.
- 11:07 Changeset [7482] by
- Moved 'void setWriteSequentially(boolean)' from TiffWriter to …
- 11:04 Changeset [7481] by
- Expanded special strip unpacking case to allow multiple strips.
- 10:56 Changeset [7480] by
- Set a more reasonable timeout when checking for updates.
12/30/10:
- 13:26 Ticket #634 (File grouping does not work in ImageJ on Windows) created by
- The file separator ('\') causes the file pattern to be incorrectly …
12/29/10:
- 20:35 Changeset [7479] by
- Added comments.
- 17:41 Ticket #619 (Add tests for ScreenReader) closed by
- fixed: (In [7478]) Added tests for screen detection. Closes #619.
- 17:41 Changeset [7478] by
- Added tests for screen detection. Closes #619.
- 17:40 Changeset [7477] by
- Allow sparse plates.
- 17:39 Changeset [7476] by
- Prevent a NPE when calling isThisType on a file with no parent directory.
- 15:45 Changeset [7475] by
- Attach non-well files as companion metadata files.
- 14:05 Ticket #624 (Allow FileStitcher to stitch files with multiple series) closed by
- fixed: (In [7474]) Allow multi-series files to be stitched if the file pattern …
- 14:05 Changeset [7474] by
- Allow multi-series files to be stitched if the file pattern contains only …
- 13:06 Changeset [7473] by
- Make type detection slightly more restrictive; this should allow the tests …
- 12:47 Ticket #628 (Update ScreenReader to handle InCell 3000 data) closed by
- fixed: (In [7472]) Added more flexible plate/well detection, so that InCell 3000 …
- 12:47 Changeset [7472] by
- Added more flexible plate/well detection, so that InCell 3000 datasets are …
- 09:11 Ticket #613 (Investigate consolidating 'showinf' and 'bfview') closed by
- fixed: (In [7471]) 'bfview' now has the same behavior as 'showinf', except that a …
- 09:11 Changeset [7471] by
- 'bfview' now has the same behavior as 'showinf', except that a deprecation …
12/28/10:
- 12:05 Ticket #580 (Virtual stack with split channels, timepoints and/or planes) closed by
- fixed: (In [7470]) Allow virtual stacks to be sliced. Closes #580.
- 12:05 Changeset [7470] by
- Allow virtual stacks to be sliced. Closes #580.
12/27/10:
- 17:24 Changeset [7469] by
- Removed duplicate variable declaration, which prevented 2008-09 and …
- 16:39 Changeset [7468] by
- Grayscale image wasn't showing up.
- 15:29 Ticket #601 (Investigate using MediaUtil for block-based JPEG decoding) closed by
- fixed: After some investigation, I have yet to find a way to retrieve the …
- 14:40 Changeset [7467] by
- Fixed NPE introduced in r7433.
- 14:37 Changeset [7466] by
- Fixed one more IFD caching bug.
- 13:34 Ticket #631 (EPS coloring is often incorrect) closed by
- fixed: (In [7465]) Fixed how EPS images with two channels are handled. Closes …
- 13:34 Changeset [7465] by
- Fixed how EPS images with two channels are handled. Closes #631.
- 10:47 Ticket #603 (Move get/setMetadataOptions methods to IFormatReader) closed by
- invalid: The [get,set]MetadataOptions methods are actually declared in the …
- 10:41 Ticket #630 (Bio-Rad LUTs do not look correct) closed by
- fixed: (In [7464]) Reset ColorModel after setting the display range; this …
- 10:41 Changeset [7464] by
- Reset ColorModel after setting the display range; this prevents LUTs from …
- 09:49 Ticket #632 (Some metadata is not populated for Zeiss LSM files) closed by
- fixed: (In [7463]) Preserve user name and emission wavelengths. Closes #632.
- 09:49 Changeset [7463] by
- Preserve user name and emission wavelengths. Closes #632.
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