source: trunk/components/bio-formats/src/loci/formats/in @ 6987

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Diff Rev Age Author Log Message
(edit) @6987   9 years melissa Parse scanner serial numbers from the plate log file.
(edit) @6986   9 years melissa Minor fixes to (hopefully) prevent AIOOB.
(edit) @6983   9 years melissa Fixed various dimension ordering bugs in new multi-file Improvision TIFF …
(edit) @6981   9 years melissa Only populate a channel's excitation wavelength if the wavelength is …
(edit) @6978   9 years melissa OMETiffReader now populates its' MetadataStore in such as way as to …
(edit) @6970   9 years melissa Support for multi-file Improvision/Volocity TIFF datasets.
(edit) @6969   9 years melissa Scan TiffData elements for 1-indexed indices before assembling list of …
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(edit) @6965   9 years melissa Tweaked field index calculation.
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(edit) @6958   9 years melissa Fixed error in plane index calculation.
(edit) @6953   9 years melissa Allow MIAS text files to be passed to MIASReader.setId. Closes #562.
(edit) @6952   9 years melissa Prevent Image names from being overwritten. Closes #555.
(edit) @6945   9 years melissa Parse 'waitTime' from Prairie datasets. Closes #551.
Diff Rev Age Author Log Message
(edit) @6890   9 years melissa A few fixes for ScanR datasets with missing wells, based on a patch …
(edit) @6886   9 years melissa * Improved metadata parsing for Prairie datasets. * Reverted changes to …
(edit) @6881   9 years curtis Update SVN and Trac paths.
(edit) @6880   9 years melissa Couple of findbugs fixes, see #546.
(edit) @6877   9 years melissa * Return blank planes if pixel data is missing from an OME-XML file. * …
(edit) @6875   9 years melissa Fixed handling of multi-position ND2 datasets.
(edit) @6864   9 years melissa Several tweaks to original metadata storage so that FV1000 files do not …
(edit) @6862   9 years melissa Simplified search for BinData offsets.
(edit) @6861   9 years callan Reverting erroneous debugging in OMEXMLReader from r6860.
(edit) @6860   9 years callan Added a test case (and re-organized some of the mock infrastructure) for …
(edit) @6857   9 years melissa Added support for multi-chunk AVI files.
(edit) @6856   9 years melissa Fixed sub-image reading for SimplePCI files that contain embedded TIFFs.
(edit) @6852   10 years melissa Prevent a bunch of NPEs.
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(edit) @6844   10 years melissa Sped up original metadata hashtable population.
Diff Rev Age Author Log Message
(edit) @6836   10 years melissa Fixed Image indexed passed to …
(edit) @6835   10 years melissa A few changes to how pixels and dimension information are found. I'm not …
(edit) @6834   10 years melissa Moved MetadataStore calls that depend on MetadataTools.populatePixels(...) …
(edit) @6823   10 years melissa Added reader for TIFFs produced by Nikon Elements. Closes #529.
(edit) @6822   10 years melissa Prevent extra (Logical)Channel objects from being populated.
(edit) @6819   10 years melissa Factored ND2Handler out of NativeND2Reader. See #529.
(edit) @6816   10 years melissa Fixed hack from r6804 so that it won't throw an AIOOB exception.
(edit) @6812   10 years melissa Reverse the order of the rows if a negative height was stored in the file. …
Diff Rev Age Author Log Message
(edit) @6808   10 years melissa If a negative width or height is stored, use the absolute value instead …
(edit) @6805   10 years melissa * Added convenience method to loci.common.IniList to flatten the IniTables …
(edit) @6804   10 years melissa Hackish fix for some files that have an incorrect dimension order.
(edit) @6802   10 years melissa * Ignore missing L2D scans, instead of throwing an exception. * More …
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(edit) @6800   10 years melissa Remove invalid characters from strings that will later be parsed into …
(edit) @6799   10 years melissa Fixed a few Bio-Rad Gel offset bugs.
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(edit) @6796   10 years melissa Remainder of OME-XML validation fixes. Closes #520.
(edit) @6791   10 years melissa More OME-XML validation fixes, see #520.
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(edit) @6787   10 years melissa Added extra sanity check when parsing doubles.
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(edit) @6782   10 years melissa Parse physical pixel sizes for all series, instead of applying the first …
(edit) @6780   10 years melissa More thoroughly parse Z position values from single-file datasets.
(edit) @6779   10 years melissa Fixed tag alignment problem.
(edit) @6778   10 years melissa Prevent SlidebookReader from passing a negative int to setSeries.
(edit) @6768   10 years melissa Fixed several OME-XML validation issues. See #520.
(edit) @6767   10 years melissa Fixed a couple of silly Photoshop bugs.
(edit) @6765   10 years melissa Only populate Objective.NominalMagnification if the magnification stored …
(edit) @6763   10 years melissa Adjusted AnalyzeReader's isThisType implementations, so that AnalyzeReader …
Diff Rev Age Author Log Message
(edit) @6754   10 years melissa Fixed BGR correction when opening sub-images. See QA #2583.
(edit) @6746   10 years melissa Remainder of type checking fixes. Closes #273.
(edit) @6744   10 years melissa Force buffer reallocation if the previously allocated buffer is too small.
(edit) @6741   10 years melissa Several more type checking fixes, see #273. Includes a fix for a very, …
Diff Rev Age Author Log Message
(edit) @6728   10 years melissa Switch calls to MetadataTools.populatePixels and …
(edit) @6726   10 years melissa A few more type checking fixes. See #273.
(edit) @6724   10 years melissa Fixed a bunch of type detection problems. See #273.
Diff Rev Age Author Log Message
(edit) @6711   10 years melissa Speed up plane access by using one reader for each constituent file.
(edit) @6710   10 years melissa * Fixed how ICS files with > 4 channels are read. * Fixed Channel …
(edit) @6708   10 years melissa Added one more date format to the list of acceptable TIFF date formats.
(edit) @6706   10 years melissa Tweaked isThisType to automatically return false if the TIFF comment is an …
(edit) @6702   10 years melissa * Fixed ROI retrieval logic in ImageJ import plugin. * Updated FV1000 …
(edit) @6700   10 years melissa More robust Z position parsing. The value of 'absoluteZ' is now taken …
(edit) @6699   10 years melissa Fixed pixel data offset.
Diff Rev Age Author Log Message
(edit) @6693   10 years melissa Fixed ArrayIndexOutOfBoundsException when opening sub-images from 16- and …
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(edit) @6687   10 years melissa Fixed channel data is parsed from Leica LIF files that have had one or …
(edit) @6681   10 years melissa Only populate Objective.NominalMagnification if the magnification is …
(edit) @6671   10 years curtis Define some constants for FakeReader defaults.
(edit) @6667   10 years melissa * Updated undeclared namespace stripping logic to look for namespaces in …
(edit) @6666   10 years melissa Catch NullPointerException when attempting to parse OME-XML comments.
(edit) @6665   10 years melissa Only overwrite the dimensions if the new values are sane.
(edit) @6664   10 years melissa OMETiffReader.isThisType now checks whether or not the OME-XML block can …
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