<div dir="ltr">Hi Bio-formats team!<div><br></div><div>I'm pretty sure that I was previously able to open OME TIFFs that our latest microscopy software, Fusion, generates.</div><div><br></div><div>I just tried opening both a recent (today in the latest version of Fusion) and older (late 2016) file and they both fail to fully open in FIJI using the Bio-formats plugin.</div><div><br></div><div>Both generate the following error:</div><div><br></div><div><div>Warning:  org.apache.xerces.jaxp.SAXParserImpl$JAXPSAXParser: Property '<a href="http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit">http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit</a>' is not recognized.</div><div>Warning:  org.apache.xerces.parsers.SAXParser: Feature '<a href="http://javax.xml.XMLConstants/feature/secure-processing">http://javax.xml.XMLConstants/feature/secure-processing</a>' is not recognized.</div><div>Warning:  org.apache.xerces.parsers.SAXParser: Property '<a href="http://javax.xml.XMLConstants/property/accessExternalDTD">http://javax.xml.XMLConstants/property/accessExternalDTD</a>' is not recognized.</div><div>Warning:  org.apache.xerces.parsers.SAXParser: Property '<a href="http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit">http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit</a>' is not recognized.</div><div>[WARN] SamplesPerPixel mismatch: OME=-1, TIFF=1</div><div>Reading IFDs</div><div>Populating metadata</div><div>Warning:  org.apache.xerces.parsers.SAXParser: Property '<a href="http://javax.xml.XMLConstants/property/accessExternalDTD">http://javax.xml.XMLConstants/property/accessExternalDTD</a>' is not recognized.</div><div>Warning:  org.apache.xerces.parsers.SAXParser: Property '<a href="http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit">http://www.oracle.com/xml/jaxp/properties/entityExpansionLimit</a>' is not recognized.</div><div>[WARN] Error untangling IFDs; the OME-TIFF file may be malformed (IFD #24 missing).</div></div><div><br></div><div>With LOTS of the "[WARN] Error untangling" lines after that.</div><div><br></div><div><br></div><div>I have uploaded a test file for you using the OMERO upload tool. The file is called:</div><div><br></div><div>"2018-03-13_15.51.33_Sample Prefix_WAINWRIGHT James_Protocol_F0.tif"</div><div><br></div><div>Please let me know if the problem with our generation of the file or the Bio-formats import?</div><div><br></div><div>I will also let our development team know.</div><div><br></div><div>Many thanks!</div><div><br></div><div>James</div></div>