Timeline
10/17/07:
- 15:10 Changeset [3296] by
- Print a message if no TIFF comment is found, rather than throwing an …
- 14:14 Changeset [3295] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3294] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3293] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3292] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3291] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3290] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3289] by
- 2007 Oct 17 release of LOCI Tools
- 14:14 Changeset [3288] by
- 2007 Oct 17 release of LOCI Tools
- 14:08 Changeset [3287] by
- Updated what's new for today's release.
- 14:04 Ticket #196 (ZVI reader sometimes reverses Z and T dimensions) closed by
- fixed: Fixed in r3286.
- 14:03 Changeset [3286] by
- Fixed Z/T reversal.
- 10:11 Changeset [3285] by
- If bmpColorsUsed == 0, set it to 2bitsPerPixel.
- 10:05 Ticket #203 (Some PICT files have incorrect pixel type) closed by
- fixed: Fixed in r3284.
- 10:05 Changeset [3284] by
- Corrected pixel type for 5-5-5 RGB data.
- 09:34 Changeset [3283] by
- Make sure elementLength/compression indicators are reset.
- 08:37 Changeset [3282] by
- Fixed case logic for setting pixel scale value.
- 08:02 Changeset [3281] by
- Finished logic to correctly handle signed data.
10/16/07:
- 12:38 Changeset [3280] by
- Correctly handle signed data.
- 11:39 Ticket #204 (Support lossless JPEG in DICOM reader) created by
- DicomReader currently supports lossy (conventional) JPEG, but not lossless …
- 11:10 Changeset [3279] by
- * Added new API method to loci.formats.codec.Codec to allow decompressing …
- 10:17 Ticket #203 (Some PICT files have incorrect pixel type) created by
- 8-bit files in data/pict/brian/images/ (e.g. RED.PCT) should have pixel …
- 08:22 Changeset [3278] by
- Fixed indexed to RGB conversion.
10/15/07:
- 15:26 Ticket #202 (Create "Bio-Formats Stack Splitter" plugin) created by
- To my knowledge, there is no easy way within ImageJ to split out a …
- 14:45 Ticket #201 (Improve configuration file generator) created by
- When writing configuration files, loci.formats.test.ReaderTest should only …
- 12:41 Ticket #200 (Split channels option divides image planes across the wrong dimension when ...) created by
- This command works as expected: […] But this one causes the channels to …
- 12:33 Changeset [3277] by
- Fix problems with duplicate macro options.
- 10:21 Changeset [3276] by
- * Fixed bug with "open each channel in new window" + "specify range". * …
10/14/07:
- 11:09 Ticket #199 (Fix exception with new OIB files) created by
- data/fv1000/aryeh/1h_after_pdt.oib and data/fv1000/aryeh/control_test.oib …
- 11:03 Ticket #197 (Bio-Formats Importer fails with indexed images) closed by
- fixed: Fixed in r3275.
- 11:02 Changeset [3275] by
- Fixed ZCT calculation for indexed color images.
10/13/07:
- 13:25 Ticket #198 (OME-TIFF files fail with Bio-Formats Importer plugin) closed by
- fixed: Fixed in r3274.
- 13:25 Changeset [3274] by
- Don't need to manually prepend directory name to file name.
10/12/07:
- 16:42 Ticket #198 (OME-TIFF files fail with Bio-Formats Importer plugin) created by
- When importing OME-TIFF files to ImageJ using the Bio-Formats Importer …
- 16:40 Ticket #197 (Bio-Formats Importer fails with indexed images) created by
- Attempting to import an indexed color image with the Bio-Formats Importer …
- 15:56 Ticket #196 (ZVI reader sometimes reverses Z and T dimensions) created by
- The dataset in data/zeiss-zvi/monica/Monica_elegans_movie.zvi has 14 …
- 15:30 Changeset [3273] by
- Fix little bug in arg parsing.
- 13:04 Changeset [3272] by
- More tiling/BigTIFF fixes.
- 11:33 Changeset [3271] by
- Corrected image count calculation if we have indexed color planes.
- 09:03 Ticket #158 (Add support for BigTiff) closed by
- fixed: Complete in r3270.
- 08:46 Changeset [3270] by
- Fixed tiling bug and added remaining BigTIFF types.
10/11/07:
- 15:17 Changeset [3269] by
- Initial implementation of BigTIFF.
- 14:32 Changeset [3268] by
- Removed several hacks that added an extra blank channel if C == 2.
- 14:31 Ticket #195 (Cannot construct 2-channel images with ImageTools) closed by
- fixed: Fixed in r3267. Solution was to add new 2-component ColorSpace …
- 13:45 Changeset [3267] by
- Added new ColorSpace for 2-channel images; updated ImageTools accordingly.
- 12:46 Changeset [3266] by
- Fixed plane number -> IFD mapping for primary file.
- 12:23 Changeset [3265] by
- Clean up and debug image construction methods.
- 12:22 Changeset [3264] by
- Use BYTES_PER_ENTRY instead of hardcoded 12 where relevant.
- 12:20 Changeset [3263] by
- Rename "used" to "usedFiles" so it is easier to search.
- 10:51 Changeset [3262] by
- Remove unnecessary imports.
- 09:49 Changeset [3261] by
- Only parse the primary file once.
- 09:26 Changeset [3260] by
- TiffComment now has a trivial implementation thanks to …
- 09:17 Changeset [3259] by
- * Add TiffTools.getComment convenience method. * Some efficiency …
- 08:27 Changeset [3258] by
- Removed option to force compatible pixel type.
10/10/07:
- 17:26 Changeset [3257] by
- Standardize getPixels methods to use a single sample model checker method …
- 17:23 Ticket #195 (Cannot construct 2-channel images with ImageTools) created by
- Currently, ImageTools throws an exception when you attempt to create a …
- 15:12 Changeset [3256] by
- Comment out reference to broken makeType method.
- 15:10 Changeset [3255] by
- Comment out reference to broken makeType method.
- 15:09 Changeset [3254] by
- Fix getPixels implementations to never use makeType, and get rid of …
- 13:52 Ticket #170 (Investigate ImageJ's VirtualStack objects) closed by
- fixed: In order to create a VirtualStack, each plane of the dataset must be …
- 12:33 Ticket #175 (More cohesive floating point image support) closed by
- fixed: As of r3253, all byte array to float array conversions are done using …
- 12:24 Changeset [3253] by
- All byte array to float array conversions are now handled by …
- 11:19 Changeset [3252] by
- Fixed bug in fake rows per strip calculation.
- 10:54 Ticket #192 (Default implementation for saveBytes) closed by
- fixed: Completed in r3251. In order to use saveBytes, a valid MetadataRetrieve …
- 10:52 Changeset [3251] by
- Added default saveBytes implementations. To use saveBytes, a …
10/09/07:
- 23:58 Ticket #194 (Investigate usage of JMF library) created by
- The [ http://java.sun.com/products/java-media/jmf/index.jsp Java Media …
- 15:06 Changeset [3250] by
- Disable editing of file path text boxes for now.
- 15:04 Ticket #193 (Test omeul with OME 2.6.1) created by
- The client-side OME upload functionality provided by the omeul script has …
- 14:35 Changeset [3249] by
- Fixed pixel type mismatch.
- 14:06 Ticket #192 (Default implementation for saveBytes) created by
- Adding a default implementation for the FormatWriter.saveBytes methods …
- 13:57 Changeset [3248] by
- Fixed series/currentSeries typo; update file map along with IFD map.
- 13:39 Ticket #159 (Add support for compressed ZVI images) closed by
- fixed: Finished in r3247.
- 13:38 Changeset [3247] by
- Added support for JPEG-compressed ZVI images.
- 13:17 Changeset [3246] by
- Fixed one last bug.
- 12:55 Changeset [3245] by
- Parse XML using SAX.
- 11:16 Ticket #191 (3-view) created by
- (From Matt Conklin) It may be useful to generate a "3-view" of the plot. …
- 11:16 Ticket #190 (Export to spreadsheet) created by
- (From Matt Conklin) It would be great to get the data seamlessly into a …
- 11:15 Ticket #189 (Save/export to figure file) created by
- (From Matt Conklin) Saving/exporting the plot into a figure making …
- 11:15 Ticket #188 (Overlapping line and surface plots) created by
- (From Matt Conklin) Overlapping the line plots of the data over the …
- 10:40 Ticket #187 (Model some data for testing) created by
- To verify the accuracy and proper behavior of Slim Plotter's algorithms, …
- 10:38 Ticket #186 (Plot chi-squared error graphically) created by
- It is currently possible to plot the exponential curve fit results …
- 10:26 Ticket #185 (Plot system response data graphically) created by
- To give the user a better idea of exactly what is being done by the …
- 10:20 Ticket #184 (Additional logic for handling background issues) created by
- When fitting exponential curves, the c value represents the background. …
- 09:51 Ticket #183 (Devise a scheme to embed calibration information into the SDT format) created by
- As mentioned in tickets #84 and #135, we need to embed calibration …
10/08/07:
- 14:02 Ticket #176 (ImageJ stack ordering broken) closed by
- fixed: Fixed in r3244.
- 13:58 Changeset [3244] by
- Added option to open each plane in a separate window; fixed CustomImage …
- 12:27 Changeset [3243] by
- Echo status message events to the ImageJ status bar.
- 12:18 Changeset [3242] by
- Add Javadoc for getReorderedIndex.
- 12:14 Changeset [3241] by
- Another status message, indicating parsing of each constituent OME-TIFF …
- 12:08 Changeset [3240] by
- Add status message for each TIFF file checked.
- 12:08 Ticket #182 (Fix bug with >2GB LIF files) closed by
- fixed: Fixed in r3239.
- 12:07 Changeset [3239] by
- Fixed bug with >2GB files.
- 11:56 Ticket #182 (Fix bug with >2GB LIF files) created by
- Leica LIF files larger than 2GB throw the following exception: […]
- 11:53 Changeset [3238] by
- Improved logic for mapping plane numbers to IFDs - scrambled TiffData …
- 11:38 Ticket #171 (Improve OME-TIFF grouping logic) closed by
- fixed: Melissa has improved the OME-TIFF reader's file grouping logic and fixed …
- 11:34 Ticket #181 (Investigate LSM data with nonstandard LZW compression) created by
- The LSM files in data/zeiss-lsm/tom have problems being decoded properly …
- 11:25 Ticket #180 (AVI codecs supported by NIS Elements) created by
- The following AVI codecs are supported by NIS Elements: * Cinepak * …
- 11:24 Ticket #179 (Add support for compressed LIM files) created by
- Pixels in a LIM file can be compressed using a proprietary lossless …
- 11:22 Ticket #178 (Add support for Imaris 5.5) created by
- Need to obtain sample data by installing latest Imaris version; add …
- 11:18 Ticket #177 (Additional plugin options) created by
- Two new ImageJ plugin features have been requested: 1. Open each plane …
- 11:13 Ticket #176 (ImageJ stack ordering broken) created by
- When other options (e.g. "merge channels to RGB") are checked, the …
- 10:54 Ticket #175 (More cohesive floating point image support) created by
- Currently Bio-Formats has duplicate implementations of byte-array-to-float …
- 10:44 Ticket #174 (Investigate usage of Sanselan image library) created by
- A new pure Java image library has recently been released called …
- 10:40 Ticket #173 (Standard way to "fail through" to another reader) created by
- In some cases, there are multiple readers that can ostensibly support a …
- 10:32 Ticket #172 (Better usage of JAI Image I/O Tools) created by
- Bio-Formats currently uses the [ https://jai-imageio.dev.java.net/ JAI …
- 10:06 Changeset [3237] by
- Fixed sizeC calculation for RGBA TIFFs.
10/05/07:
- 19:23 Changeset [3236] by
- Use openmicroscopy.org, not org.openmicroscopy, for IDs.
- 15:33 Changeset [3235] by
- Fix typo in Pixels IDs.
- 15:19 Changeset [3234] by
- Brief what's new for minor 2007 Oct 5 Bio-Formats release.
- 14:55 Changeset [3233] by
- Fix bug with scramble feature.
- 14:43 Changeset [3232] by
- Fix multi-Image and multi-Pixels TiffData tags; first cut at IFD …
- 13:14 Changeset [3231] by
- Generator now distinguishes between multiple Images vs multiple Pixels.
- 13:05 Changeset [3230] by
- Fixed width/height mismatch detection, TiffData scrambling in single-file …
- 11:54 Changeset [3229] by
- OME-TIFF sample data generator now writes OME-TIFF with multiple series. …
- 10:51 Changeset [3228] by
- Progress on OME-TIFF sample file generator. Currently generates plain …
- 10:09 Changeset [3227] by
- Fixed min TiffData calculation.
- 09:50 Changeset [3226] by
- Look for the smallest TiffData tag, instead of always using the first one.
10/04/07:
- 14:58 Changeset [3225] by
- Multi-series OME-TIFF files should now work.
10/03/07:
- 16:35 Changeset [3224] by
- Begin work on utility for generating OME-TIFF sample datasets.
- 16:31 Changeset [3223] by
- Gray out time slider when no format reader is specified.
- 15:58 Changeset [3222] by
- Allow null IFormatReader, and add corresponding setImages signature.
- 11:47 Changeset [3221] by
- Only group files if the Image LSID is present, and print warnings if the …
10/02/07:
- 13:03 Changeset [3220] by
- Added support for MS Video 1 codec.
- 11:03 Changeset [3219] by
- Fixed how files are grouped.
- 10:29 Changeset [3218] by
- Allow processing from stdin.
- 10:12 Changeset [3217] by
- Whitespace.
- 08:13 Changeset [3216] by
- Set metadataComplete flag.
10/01/07:
- 14:15 Changeset [3215] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3214] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3213] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3212] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3211] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3210] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3209] by
- 2007 Oct 01 release of LOCI Tools
- 14:15 Changeset [3208] by
- 2007 Oct 01 release of LOCI Tools
- 14:10 Changeset [3207] by
- Clean up what's new list a bit for October 1 release.
- 13:55 Changeset [3206] by
- Updated what's new for next release.
- 12:34 Changeset [3205] by
- Don't create a StageLabel if all values are null.
- 11:49 Changeset [3204] by
- Removed obsolete 'valid bits' logic; minor cleanup/bugfixes.
- 11:46 Changeset [3203] by
- Don't autoscale images in the data browser.
- 11:22 Changeset [3202] by
- Added support for Photoshop PSD files.
- 10:28 Changeset [3201] by
- Miscellaneous tweaks.
- 10:28 Changeset [3200] by
- Fix some problems with XML validation.
09/28/07:
- 11:18 Changeset [3199] by
- Add hack to work around negative SizeZ/C/T values.
- 10:41 Changeset [3198] by
- Added support for uncompressed LIM files.
09/27/07:
- 14:42 Changeset [3197] by
- * Added isFalseColor() to IFormatReader API; updated ChannelFiller …
- 11:29 Changeset [3196] by
- Added option to turn off autoscaling.
09/26/07:
- 10:52 Changeset [3195] by
- Fixed NPE in get*BitLookupTable().
- 10:46 Changeset [3194] by
- Add printout of indexed color and LUT information to showinf.
- 10:33 Changeset [3193] by
- Print series names in core metadata listing if metadata store is set.
- 10:32 Changeset [3192] by
- Comment out unnecessary imports.
09/21/07:
- 11:13 Changeset [3191] by
- Slight speed improvement when reading intensity data.
- 10:07 Ticket #168 (LegacyQTWriter is broken) closed by
- fixed: Fixed in r3190.
- 10:07 Changeset [3190] by
- Fixed ClassCastException.
- 09:12 Changeset [3189] by
- Added support for JPEG and RLE-compressed DICOM images.
09/20/07:
- 13:23 Changeset [3188] by
- Added hack to compute emission/excitation wavelengths from channel name.
09/19/07:
- 14:57 Changeset [3187] by
- Comment out File menu for now.
- 14:54 Changeset [3186] by
- Use AWT menu bar instead of Swing menu bar to avoid Java3D heavyweight …
- 14:09 Changeset [3185] by
- Whitespace.
- 14:08 Changeset [3184] by
- Eliminate jikes warnings.
- 14:04 Changeset [3183] by
- Fix typo in javadoc.
- 14:00 Changeset [3182] by
- Add missing source code links to javadoc.
- 13:57 Changeset [3181] by
- Add ability to save and restore display projections from system clipboard.
- 13:33 Changeset [3180] by
- Added indexed color -> RGB option to ImageInfo; modified …
- 12:58 Ticket #166 (LegacyQTReader is broken) closed by
- fixed: Fixed in r3179. Rewriting LegacyQTReader was not necessary, as this was …
- 12:56 Changeset [3179] by
- Fixed close() bug.
- 12:03 Changeset [3178] by
- Added utility methods and reader wrapper to expand indexed color images.
- 10:55 Changeset [3177] by
- Added option to reorder stack.
09/18/07:
- 14:35 Changeset [3176] by
- Consolidated openImage implementations - haven't tested this on all …
- 13:41 Changeset [3175] by
- Added convenience method for calling setPixels(...) on a MetadataStore.
- 13:24 Changeset [3174] by
- Fixed strip offset calculation for IFDs that are missing strip byte …
- 12:15 Changeset [3173] by
- Fixed bug with getEffectiveSizeC() > 1 and getRGBChannelCount() > 1.
- 11:15 Changeset [3172] by
- Added isIndexed to macro functions.
- 10:45 Changeset [3171] by
- Make sure to set the appropriate series after calling setId.
- 09:46 Changeset [3170] by
- Fixed how RGB images are handled; added support for indexed color.
09/17/07:
- 16:27 Changeset [3169] by
- Update code to use most recent API.
- 16:16 Changeset [3168] by
- Update OME-TIFF conversion program to use most current API.
- 16:00 Changeset [3167] by
- Deal with exceptions from TiffTools.overwriteComment.
- 15:53 Changeset [3166] by
- Use simpler overwriteComment instead of overwriteIFDValue.
- 15:32 Changeset [3165] by
- Update Javadocs.
- 15:25 Changeset [3164] by
- Fix Javadoc links.
- 15:20 Changeset [3163] by
- Export should use tab-delineated, not space-separated, values.
- 10:45 Changeset [3162] by
- Minor bugfixes.
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