Re: Bio-Formats problem?

Posted by ctrueden on Jan 11, 2017; 9:46pm
URL: http://imagej.273.s1.nabble.com/Bio-Formats-problem-tp5017863p5017864.html

Hi Tim,

Do you have the Bio-Formats update site enabled? If so, try disabling it.
That update site is for the latest unstable and unreleased version of
Bio-Formats (see http://imagej.net/Bio-Formats#Daily_builds) and it is
currently broken.

Regards,
Curtis

--
Curtis Rueden
LOCI software architect - http://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - http://imagej.net/User:Rueden
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On Wed, Jan 11, 2017 at 3:28 PM, Feinstein, Timothy N <[hidden email]> wrote:

> Hi folks,
>
> Is anyone else having trouble with Bio-Formats?  Suddenly I cannot import
> either .nd2's from an A1 confocal or .lif's from our DMI6000.  It seems
> like a general problem with Bio-Formats.  I tried updating ImageJ (1.51h)
> and Fiji (through the Help menu, some Bio-Formats components updated).
> Still no luck.  The error report is below.  The files open with no problem
> using ImageJ for OSX with Java 1.8 and the files seem to open fine, I just
> have to shuttle everything over to Fiji as TIFFs to work with my plugins.
>
> Best,
>
>
> Tim
>
> Timothy Feinstein, Ph.D.
> Research Scientist
> University of Pittsburgh Department of Developmental Biology
>
> ------------------------------------------------------------
>
>
>
>
>
> Unable to retrieve constructor for class loci.formats.services.
> OMEXMLServiceImpl
>         at loci.common.services.ServiceFactory.getConstructor(
> ServiceFactory.java:190)
>         at loci.common.services.ServiceFactory.getInstance(
> ServiceFactory.java:161)
>         at loci.plugins.in.ImportProcess.createBaseReader(
> ImportProcess.java:652)
>         at loci.plugins.in.ImportProcess.initializeReader(
> ImportProcess.java:484)
>         at loci.plugins.in.ImportProcess.execute(ImportProcess.java:137)
>         at loci.plugins.in.Importer.showDialogs(Importer.java:140)
>         at loci.plugins.in.Importer.run(Importer.java:76)
>         at loci.plugins.LociImporter.run(LociImporter.java:78)
>         at ij.IJ.runUserPlugIn(IJ.java:217)
>         at ij.IJ.runPlugIn(IJ.java:181)
>         at ij.Executer.runCommand(Executer.java:137)
>         at ij.Executer.run(Executer.java:66)
>         at java.lang.Thread.run(Thread.java:745)
> Caused by: java.lang.NoClassDefFoundError: loci/common/xml/XMLTools$
> SchemaReader
>         at java.lang.Class.forName0(Native Method)
>         at java.lang.Class.forName(Class.java:264)
>         at loci.common.services.ServiceFactory.getConstructor(
> ServiceFactory.java:185)
>         ... 12 more
> Caused by: java.lang.ClassNotFoundException: loci.common.xml.XMLTools$
> SchemaReader
>         at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
>         at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
>         at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
>         at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
>         ... 15 more
> loci.formats.FormatException: Unable to retrieve constructor for class
> loci.formats.services.OMEXMLServiceImpl
>         at loci.plugins.in.ImportProcess.createBaseReader(
> ImportProcess.java:661)
>         at loci.plugins.in.ImportProcess.initializeReader(
> ImportProcess.java:484)
>         at loci.plugins.in.ImportProcess.execute(ImportProcess.java:137)
>         at loci.plugins.in.Importer.showDialogs(Importer.java:140)
>         at loci.plugins.in.Importer.run(Importer.java:76)
>         at loci.plugins.LociImporter.run(LociImporter.java:78)
>         at ij.IJ.runUserPlugIn(IJ.java:217)
>         at ij.IJ.runPlugIn(IJ.java:181)
>         at ij.Executer.runCommand(Executer.java:137)
>         at ij.Executer.run(Executer.java:66)
>         at java.lang.Thread.run(Thread.java:745)
> Caused by: Unable to retrieve constructor for class loci.formats.services.
> OMEXMLServiceImpl
>         at loci.common.services.ServiceFactory.getConstructor(
> ServiceFactory.java:190)
>         at loci.common.services.ServiceFactory.getInstance(
> ServiceFactory.java:161)
>         at loci.plugins.in.ImportProcess.createBaseReader(
> ImportProcess.java:652)
>         ... 10 more
> Caused by: java.lang.NoClassDefFoundError: loci/common/xml/XMLTools$
> SchemaReader
>         at java.lang.Class.forName0(Native Method)
>         at java.lang.Class.forName(Class.java:264)
>         at loci.common.services.ServiceFactory.getConstructor(
> ServiceFactory.java:185)
>         ... 12 more
> Caused by: java.lang.ClassNotFoundException: loci.common.xml.XMLTools$
> SchemaReader
>         at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
>         at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
>         at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
>         at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
>         ... 15 more
>
>
>
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>

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