source: branches/4.2/components @ 6507

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Diff Rev Age Author Log Message
(edit) @6507   10 years melissa Couple of minor reader fixes.
(edit) @6505   10 years melissa Added missing header file for OME-XML component.
(edit) @6504   10 years melissa Finished adding Xalan dependency.
(edit) @6503   10 years melissa Fixed XZ/XT scans to display as they do in Olympus' software.
(edit) @6501   10 years melissa Tweaked isThisType to only pick up valid TIFF files that are in the same …
(edit) @6500   10 years melissa Apply one LUT to each channel if the original file contains its own LUTs. …
(edit) @6497   10 years melissa Throw an exception if ImageProcessor types don't match.
(edit) @6496   10 years melissa Updated bf-cpp to compile with latest ome.xml.* and loci.formats.meta.* …
(edit) @6495   10 years melissa Updated email address.
(edit) @6494   10 years melissa Added support for multi-file OME-TIFF export. Closes #485.
(edit) @6492   10 years melissa Fixed Channel indices in MetadataTools.verifyMinimumPopulated.
(edit) @6491   10 years melissa Updated MetadataTools.verifyMinimumPopulated and the MinimumWriter example …
(edit) @6490   10 years melissa Added TextReader to 4.2 branch.
(edit) @6489   10 years melissa Fixed Nikon tag parsing.
(edit) @6487   10 years melissa Minor fixes to make metadata level tests pass.
(edit) @6486   10 years melissa Make sure that CoreMetadata.indexed is set correctly, regardless of the …
(edit) @6485   10 years melissa Updated metadata level tests to check for isIndexed mismatches. See #496.
(edit) @6484   10 years melissa Updated Channel -> Laser linkage rule in accordance with r6076.
(edit) @6483   10 years melissa Populate Laser.Model, if present. See  omero:2475.
(edit) @6482   10 years melissa Fixed min calculation for cropped planes. See  imagej:59.
(edit) @6479   10 years curtis Merge 'Standard ImageJ' bugfix to 4.2
(edit) @6477   10 years curtis Backport Bio-Formats and Importer bugfixes from trunk.
(edit) @6465   10 years melissa Added some debugging statements so that missing TIFF files are reported. …
(edit) @6463   10 years melissa Don't attempt to read IFDs with offsets beyond the end of the file.
(edit) @6461   10 years melissa Fixed well ordering bug, courtesy of Rubén Muñoz.
(edit) @6459   10 years melissa Synced up export/MetadataConverter fixes between trunk and 4.2. OME-TIFF …
(edit) @6457   10 years melissa Moved ome.xml.r201004.* to ome.xml.model.*.
(edit) @6444   10 years melissa Break out of loop if an AIOOB exception is thrown to prevent an infinite …
(edit) @6436   10 years melissa Merged r6435 to 4.2 branch.
(edit) @6430   10 years melissa * Updated OMEXMLMetadataImpl based on  ome-xml:r618. * Fixed a bunch of …
(edit) @6426   10 years melissa Fixed various metadata population bugs in the FV1000 reader. See …
(edit) @6423   10 years curtis Merge ChannelFiller bugfixes to 4.2.
(edit) @6420   10 years curtis Merge ChannelFiller and FakeReader bugfixes to 4.2.
(edit) @6416   10 years melissa Fixed physical size Z scaling.
(edit) @6415   10 years callan Merging r6413,r6414 from Trunk
(edit) @6409   10 years melissa Several fixes to Leica LEI, ND2, and Perkin Elmer readers.
(edit) @6406   10 years melissa Updated several TIFF-based readers to populate Image.Description more …
(edit) @6405   10 years melissa Fixed Detector/DetectorSettings population to correspond to what the …
(edit) @6404   10 years melissa Trim the image name before placing it in the original metadata hashtable. …
(edit) @6402   10 years callan Merging r6401 from Trunk.
(edit) @6400   10 years callan Merging r6398,r6399 from Trunk
(edit) @6395   10 years melissa Read tags into a byte array, so that non-String tags are preserved. See …
(edit) @6392   10 years melissa Fixed LUT ordering bug. See  omero:2438.
(edit) @6391   10 years callan Merging r6382,r6390 from Trunk
(edit) @6389   10 years melissa Prevent each EmissionFilterRef from being populated multiple times.
(edit) @6388   10 years melissa Fixed a bunch of Leica LIF metadata population bugs.
(edit) @6383   10 years melissa Make sure that references get resolved before dumping OME-XML; otherwise, …
(edit) @6381   10 years melissa Fixed bug in file renaming logic.
(edit) @6380   10 years callan Merging r6379 from Trunk
(edit) @6378   10 years melissa Tweaked MetamorphReader.isThisType so that Prairie TIFFs are not picked …
(edit) @6376   10 years melissa Updated remaining readers to use enumeration handlers.
(edit) @6375   10 years callan Merging r6272,r6373,r6374 from Trunk
(edit) @6370   10 years melissa Updated Deltavision and Flex readers to use …
(edit) @6369   10 years melissa Fixed a few SimplePCI dimension bugs.
(edit) @6368   10 years melissa A few more LSM-related fixes.
(edit) @6367   10 years melissa Prevent StringIndexOutOfBoundsException.
(edit) @6366   10 years callan Merging r6365 from Trunk
(edit) @6364   10 years callan Merging r6359,r6360,r6362,r6263 from Trunk into 4.2 branch.
(edit) @6361   10 years melissa Fixed several TIFF, Zeiss LSM and Zeiss ZVI bugs exposed during testing.
(edit) @6358   10 years melissa Added missing implementations of isSingleFile(String), …
(edit) @6357   10 years melissa Ported r6356 to 4.2 branch.
(edit) @6355   10 years melissa Don't swap bits if the number of bits per pixel is less than or equal to …
(edit) @6354   10 years melissa Prevent NumberFormatException from being thrown when parsing the number of …
(edit) @6353   10 years melissa Call MetadataTools.populatePixels(...) after all of the CoreMetadata …
(edit) @6352   10 years melissa Fixed Well -> WellSample linkage. See  omero:2406.
(edit) @6350   10 years melissa Skip over TIFF tiles/strips that have StripByteCounts == 0. See …
(edit) @6349   10 years melissa Fixed various bugs exposed by test suite.
(edit) @6343   10 years curtis Merge bugfixes for custom color mode.
(edit) @6341   10 years curtis Merge DataBrowser bugfixes to 4.2 branch.
(edit) @6339   10 years melissa Fixed IFD entry count calculation for BigTIFF files. See  omero:2390.
(edit) @6337   10 years melissa Fixed LightPath and Image population to prevent AIOOB exceptions. See …
(edit) @6336   10 years melissa Fixed Image -> ROI link. See  omero:2381.
(edit) @6335   10 years melissa Moved SizeT population to prevent it from being 0. See  omero:2377.
(edit) @6334   10 years melissa * Prevent PICT reader from reporting width or height less than 0. * Fixd …
(edit) @6333   10 years melissa * Removed hopefully obsolete hack from RandomAccessInputStream.findString. …
(edit) @6332   10 years melissa Fixed ROI transformation population, see  omero:2373.
(copy) @6330   10 years melissa Created 4.2 branch.
copied from trunk/components:
(edit) @6329   10 years melissa Fixed a couple of bugs exposed by the test suite.
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