Timeline


and

07/09/09:

22:41 Changeset [5242] by melissa
* Added plate barcode to Plate.Name * Fixed yet another file grouping …
17:28 Changeset [5241] by curtis
Use latest autogenerated bio-formats.h header file.
17:27 Changeset [5240] by curtis
Add autogenerator for Jace header files.
13:53 Changeset [5239] by melissa
Support alternate measurement directory structure.
13:44 Changeset [5238] by curtis
Change FLEX constant back to public (needed to query Flex IFDs outside of …
13:41 Changeset [5237] by curtis
Remove example of connectivity with old OME server.
13:40 Changeset [5236] by curtis
Simple example for extracting LensNA.
09:13 Changeset [5235] by melissa
* Use one reader per TIFF file (reduces plane access time). * Ignore …
06:13 Changeset [5234] by callan
Fixed LightSource LSID population.

07/08/09:

22:44 Changeset [5233] by melissa
Fixed div. by 0. If only one LightSource is referenced in the Flex XML, …
20:23 Changeset [5232] by callan
Fix metadata population for sparsly imaged plates.
18:07 Changeset [5231] by callan
Handle cases where well rows and/or columns are offset (ie. 0,0 is not the …
16:23 Changeset [5230] by melissa
Populate Objective.Immersion with the immersion medium, not the NA of the …
15:04 Changeset [5229] by melissa
Fixed various file grouping and MetadataStore population problems.
14:28 Changeset [5228] by curtis
Clean up flow cytometry values output.

07/07/09:

16:02 Changeset [5227] by melissa
Make sure that pixel type is initialized.
15:32 Changeset [5226] by curtis
Add "-nocore" command line option to suppress output of core metadata.
15:22 Changeset [5225] by curtis
Do not require measurement files to be present.
15:16 Changeset [5224] by melissa
Removed debugging statements.
15:15 Changeset [5223] by melissa
* Added .mea and .res files to getUsedFiles() list. * Fixed SPW …
14:03 Changeset [5222] by curtis
* Update comments in readers.txt; * Move JPEG2000 reader into section …
13:53 Changeset [5221] by melissa
Moved DicomReader to the end of the reader list.
10:04 Changeset [5220] by melissa
Fixed problems with new MIAS plate and cleaned up some of the file …
09:20 Changeset [5219] by melissa
Group Flex files in the same directory.

07/06/09:

20:33 Changeset [5218] by melissa
* Added 'String readString(String)' method to RandomAccessInputStream, …
14:42 Changeset [5217] by curtis
Update example programs to use new BufferedImageReader API.
14:20 Changeset [5216] by curtis
Bring list in line with packaging changes.
12:14 Changeset [5215] by melissa
Fixed compile error.
12:12 Changeset [5214] by melissa
Fixed line lengths.
11:39 Ticket #402 (Split original metadata fields into series-specific tables) closed by melissa
fixed: (In [5213]) * Series-specific metadata is now placed in the …
11:39 Changeset [5213] by melissa
* Series-specific metadata is now placed in the 'seriesMetadata' hashtable …

07/04/09:

13:28 Changeset [5212] by melissa
Fixed compile error.
13:22 Changeset [5211] by melissa
Added very basic example of working with multiple files. Could use a …
12:51 Ticket #387 (Behavior when overcropping is inconsistent) closed by melissa
fixed: As of r5210, all readers throw an exception if the cropping parameters are …
12:51 Changeset [5210] by melissa
* Added getPlaneSize methods to FormatTools for returning the size of the …
10:59 Changeset [5209] by melissa
Updated stable version number.

07/03/09:

14:21 Changeset [5208] by curtis
Use IMetadata instead of casting between MetadataStore and …
13:43 Ticket #405 (OME-TIFF export erroneously reuses OME metadata from input dataset) created by curtis
The Bio-Formats Exporter plugin feeds the input dataset's OME-XML directly …
12:58 Changeset [5207] by curtis
Record all particles detected, not just ones in the last known positions.
10:27 Changeset [5206] by curtis
Disallow range specification and cropping when virtual stack is enabled.
09:05 Changeset [5205] by melissa
Prevent an exception if there is an open bracket without a matching …
08:07 Changeset [5204] by melissa
Added RoiLink methods to MetadataStore/MetadataRetrieve. These are not …
07:53 Changeset [5203] by melissa
Fixed Detector/DetectorSettings population, as only one detector is …

07/02/09:

11:51 Changeset [5202] by melissa
Fixed indices into planeMax, so getPlaneMaximum(int) returns the correct …

07/01/09:

12:31 Changeset [5201] by curtis
Add call to printTimingPerPlane.
12:23 Changeset [5200] by curtis
Example of timestamp extraction using Bio-Formats.
12:17 Ticket #400 (Remove IFormatReader.openImage in favor of BufferedImageReader class) closed by melissa
fixed: openImage was removed from IFormatReader in r5191.
12:07 Changeset [5199] by curtis
* Split ISO 8601 date format into a separate string constant. * Add …

06/30/09:

16:18 Changeset [5198] by curtis
Better exception message.
16:17 Changeset [5197] by curtis
Fix bug with infinite read loops at EOF.
15:17 Changeset [5196] by curtis
Remove reflection logic for loci.formats.gui.ImageViewer.
13:19 Changeset [5195] by melissa
Fixed problems that prevented reader-altering flags (-stitch, -merge, …
11:46 Changeset [5194] by melissa
Fixed DetectorSettings and PlaneTiming bugs.
10:16 Changeset [5193] by melissa
Reverted mosaic handling logic - mosaics are now stitched on import.
09:10 Ticket #404 (Exporter plugin doesn't preserve metadata) created by melissa
Original metadata (key/value pairs in the "Image Info" window) is not …
09:10 Ticket #403 (Buttons in importer series dialog are misaligned) created by melissa
If the series names are very short (i.e. the window is narrow), then the …

06/29/09:

20:41 Changeset [5192] by melissa
* Removed mosaic stitching logic. Each tile in the mosaic is now …
17:49 Changeset [5191] by curtis
Progress on elimination of AWT references from core Bio-Formats packages. …

06/27/09:

15:56 Changeset [5190] by callan
OME data model fixes: * Plate.Name is a required field * Image.ID needs …

06/26/09:

14:40 Changeset [5189] by curtis
First cut at hack workaround for problem on Windows with certain constants …
13:46 Changeset [5188] by melissa
* Added setDichroicID(String, int, int) to MetadataStore. * …

06/25/09:

21:43 Changeset [5187] by melissa
Lots of InCell updates, including support for .im pixels files and better …
17:44 Changeset [5186] by melissa
Fixed compile error.
17:24 Changeset [5185] by melissa
Initial version of MIAS reader.

06/24/09:

22:30 Changeset [5184] by curtis
Improvements to Bio-Formats ITK plugin: * Better handling of …
22:27 Changeset [5183] by curtis
Some minor improvements to the Boost detection logic.
22:21 Changeset [5182] by curtis
Fix bug in TIFF comment parsing.
14:31 Changeset [5181] by melissa
Minor cleanup; fixed exposure time units.
14:27 Changeset [5180] by melissa
DicomReader now respects isGroupFiles() when determining whether to group …

06/23/09:

15:24 Changeset [5179] by curtis
More improvements.
14:55 Changeset [5178] by melissa
Packbits decompression is now much faster.
14:41 Changeset [5177] by curtis
Use Boost_THREAD_LIBRARY_DEBUG instead of Boost_THREAD_LIBRARY.
14:07 Changeset [5176] by melissa
If there are missing planes, attempt to use TiffReader to determine how …
12:24 Changeset [5175] by melissa
* Several improvements to DICOM file grouping logic. * No longer apply …
09:55 Changeset [5174] by melissa
Adjust image count if an XZ or XT scan is found.

06/22/09:

11:48 Changeset [5173] by melissa
Fixed min/max calculation for signed images.

06/20/09:

00:01 Changeset [5172] by melissa
* Added FilterSet.ID to MetadataStore/MetadataRetrieve. * Parse all …

06/18/09:

21:57 Changeset [5171] by melissa
Ignore .lsms beginning with '.'. Also fixed Image.Name population and …
15:35 Changeset [5170] by melissa
Parse key/value pairs from INI-style TIFF comments not produced by ImageJ.
09:37 Changeset [5169] by melissa
Ensure that images are only autoscaled if the 'Autoscale' option is …

06/17/09:

16:24 Changeset [5168] by melissa
Enabled extensionless DICOM support.
15:55 Changeset [5167] by melissa
Fixed Objective IDs and an ArrayIndexOutOfBounds.
13:53 Changeset [5166] by melissa
Lots of work on Zeiss LSM metadata population - most metadata (Objective, …
12:40 Changeset [5165] by melissa
OMEXML*Metadata.clearCachedNodes() implementations now clear cached node …

06/16/09:

16:48 Changeset [5164] by curtis
Indicate CMake 2.6.4+ should be used, to properly detect Boost on Windows.
16:46 Changeset [5163] by curtis
Give better example of jace.home on Windows, and list F7 as a way to build …
16:45 Changeset [5162] by curtis
Fix typo.
15:48 Changeset [5161] by alex
COMP: some fixes for win32 + MSVC compilation to work.

06/10/09:

13:57 Changeset [5160] by melissa
Better metadata population for multi-series Metamorph datasets.

06/09/09:

19:22 Changeset [5159] by melissa
Fixed tag length and JPEG plane offset bugs.
12:41 Changeset [5158] by curtis
VisBio logo images.
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