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Hi Zara,
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<div class="">Thank you for submitting the QA files. I was able to test and reproduce the problems you were seeing with the latest Bio-Formats release.</div>
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<div class="">This issue appears to be caused by the fact that Bio-Formats currently uses an older version of the NetCDF library. I have tested the files in FIJI with a more recent version of the NetCDF jar and this allows the files to be opened and read. We
have an ongoing investigation into upgrading the NetCDF dependency and I have updated the existing Trello card with details from your submitted QA.</div>
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<div class=""><a href="https://trello.com/c/VrpWk1Fj/119-netcdf-update" class="">https://trello.com/c/VrpWk1Fj/119-netcdf-update</a></div>
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<div class="">With Thanks,</div>
<div class="">David Gault</div>
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<div class="">On 21 Apr 2018, at 21:13, Zara Weinberg <<a href="mailto:weinberz@umich.edu" class="">weinberz@umich.edu</a>> wrote:</div>
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<div dir="ltr" class="">Hello,
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<div class="">I'm acquiring high speed microscopy movies with many frames (~50hz, 6000 frames per movie). My microscope software automatically saves these files as .ims files, compatible with Imaris 9.0 (I'm guessing these are Imaris 5.5 files, given that).
Bio-Formats has no trouble opening much smaller files from the software, but when trying to open these files in Fiji, I get the following error:</div>
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<div class="">"[ERROR] bad version 72 at filePos 674029</div>
<div class="">[ERROR] bad version -29 at filePos 677106</div>
<div class="">[ERROR] bad version 0 at filePos 677155</div>
<div class="">[ERROR] bad version 66 at filePos 677103</div>
<div class="">[ERROR] bad version 20 at filePos 677128</div>
<div class="">[ERROR] bad version 0 at filePos 677146"</div>
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<div class="">With a dialog box that pops up saying the file is incompatible. Notably, these files open trivially in Imaris.</div>
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<div class="">Version Information: Mac OS X 10.12.6, ImageJ 1.51w, Bio-Formats 5.8.1, Java 1.8.0_66 (64-bit)</div>
<div class="">An example file (with Metadata) has been uploaded at <a href="https://www.openmicroscopy.org/qa2/qa/feedback/20628/" class="">https://www.openmicroscopy.org/qa2/qa/feedback/20628/</a>. 2018-04-19_18.26.38_Sample Prefix_2V7DQK2_Protocol.ims is
a file that doesn't import, but 2018-04-16_18.58.13_Sample Prefix_2V7DQK2_Protocol_F01.ims is a file that imports just fine from the same software (albeit having many fewer frames).</div>
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<div class="">Thanks so much for any help you can give!</div>
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