<html><body><div style="color:#000; background-color:#fff; font-family:times new roman, new york, times, serif;font-size:12pt"><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">I was trying to use the Bio-Formats MINC (.mnc) file import via the ImageJ (Fiji) plugin to read the sample files at:</div><div>https://bigbrain.loris.ca/</div><div><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">Every single MINC file I tested failed, and gave a similar error as noted below.<br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">Note that the NIfTI (.nii) versions of the same datasets worked perfectly fine (after manually extracting from the
.gz file).</div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;"><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">You should be able to sign up for access to the above website, and get plenty of test images and metadata.</div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;"><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">Tested:<br>LOCI Plugins for ImageJ, revision 34f3393, built 7 May 2013 Release: 4.4.9-DEV</div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif;
background-color: transparent; font-style: normal;">as well as:</div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">(trunk) LOCI Plugins for ImageJ, revision 34aa07c, built 9 July 2013 Release: 4.5-DEV</div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;"><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;"><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">Both versions gave almost identical error result. The following is pasted from the 4.5 revision 34aa07c trunk build:</div><div style="color: rgb(0, 0, 0); font-size:
16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;"><br></div><div style="color: rgb(0, 0, 0); font-size: 16px; font-family: times new roman,new york,times,serif; background-color: transparent; font-style: normal;">(Fiji Is Just) ImageJ 1.47v; Java 1.6.0_24 [64-bit]; Windows 7 6.1; 38MB of 2989MB (1%)<br> <br>java.lang.reflect.InvocationTargetException<br> at sun.reflect.GeneratedMethodAccessor8.invoke(Unknown Source)<br> at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)<br> at java.lang.reflect.Method.invoke(Method.java:597)<br> at ij.Command.runPlugIn(Command.java:148)<br> at ij.Command.runCommand(Command.java:97)<br> at ij.Executer.run(Executer.java:64)<br> at java.lang.Thread.run(Thread.java:662)<br>Caused by:
java.lang.NullPointerException<br> at loci.formats.services.NetCDFServiceImpl.getArray(NetCDFServiceImpl.java:174)<br> at loci.formats.services.NetCDFServiceImpl.getVariableValue(NetCDFServiceImpl.java:156)<br> at loci.formats.in.MINCReader.initFile(MINCReader.java:161)<br> at loci.formats.FormatReader.setId(FormatReader.java:1183)<br> at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:482)<br> at loci.plugins.in.ImportProcess.execute(ImportProcess.java:146)<br> at loci.plugins.in.Importer.showDialogs(Importer.java:141)<br> at loci.plugins.in.Importer.run(Importer.java:79)<br> at loci.plugins.LociImporter.run(LociImporter.java:81)<br> at ij.IJ.runUserPlugIn(IJ.java:195)<br> at ij.IJ.runPlugIn(IJ.java:160)<br> ... 7
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