http://imagej.273.s1.nabble.com/opening-flex-format-images-tp3686580p3686586.html
Thank you very much to all people that answered and to Tony Collins and the McMaster Biophotonics Facility for making it possible.
encoding scheme. Unfortunately, the LWF decoder is commercial software,
can use to read that type of Flex file. This is possible due to the
> Hi Melissa,
> I was doing exactly what you reported (dragging the file onto the ImageJ
> toolbar). Once I used the Bio-Formats Importer, ..., I got a different
> error!!!
> "Sorry, there was a problem during import", and:
>
> " loci.formats.MissingLibraryException: The LuraWave decoding library,
> lwf_jsdk2.6.jar, is required to decode this file.
> Please make sure it is present in your classpath.
> at
> loci.formats.codec.LuraWaveCodec.initialize(LuraWaveCodec.java:153)
> at
> loci.formats.codec.LuraWaveCodec.decompress(LuraWaveCodec.java:85)
> at
> loci.formats.tiff.TiffCompression.decompress(TiffCompression.java:186)
> at loci.formats.tiff.TiffParser.getTile(TiffParser.java:584)
> at loci.formats.tiff.TiffParser.getSamples(TiffParser.java:709)
> at loci.formats.in.FlexReader.openBytes(FlexReader.java:208)
> at loci.formats.FormatReader.openBytes(FormatReader.java:739)
> at
> loci.formats.ChannelFiller.getLookupTableComponentCount(ChannelFiller.java:262)
> at loci.formats.ChannelFiller.setId(ChannelFiller.java:245)
> at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480)
> at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238)
> at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480)
> at loci.formats.DimensionSwapper.setId(DimensionSwapper.java:279)
> at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480)
> at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480)
> at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480)
> at loci.plugins.in.ImportProcess.setId(ImportProcess.java:652)
> at
> loci.plugins.in.ImportProcess.initializeStack(ImportProcess.java:513)
> at loci.plugins.in.ImportProcess.execute(ImportProcess.java:142)
> at loci.plugins.in.Importer.showDialogs(Importer.java:125)
> at loci.plugins.in.Importer.run(Importer.java:77)
> at loci.plugins.LociImporter.run(LociImporter.java:77)
> at ij.IJ.runUserPlugIn(IJ.java:183)
> at ij.IJ.runPlugIn(IJ.java:150)
> at ij.Executer.runCommand(Executer.java:124)
> at ij.Executer.run(Executer.java:61)
> at java.lang.Thread.run(Thread.java:619)
> Caused by: Unable to instantiate service for interface
> loci.formats.services.LuraWaveService
> at
> loci.common.services.ServiceFactory.getInstance(ServiceFactory.java:152)
> at
> loci.formats.codec.LuraWaveCodec.initialize(LuraWaveCodec.java:150)
> ... 26 more
> Caused by: java.lang.reflect.InvocationTargetException
> at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native
> Method)
> at
> sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:39)
> at
> sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:27)
> at java.lang.reflect.Constructor.newInstance(Constructor.java:513)
> at
> loci.common.services.ServiceFactory.getInstance(ServiceFactory.java:150)
> ... 27 more
> Caused by: java.lang.NoClassDefFoundError: com/luratech/lwf/lwfDecoder
> at
> loci.formats.services.LuraWaveServiceImpl.<init>(LuraWaveServiceImpl.java:77)
> ... 32 more
> Caused by: java.lang.ClassNotFoundException: com.luratech.lwf.lwfDecoder
> at java.net.URLClassLoader$1.run(URLClassLoader.java:200)
> at java.security.AccessController.doPrivileged(Native Method)
> at java.net.URLClassLoader.findClass(URLClassLoader.java:188)
> at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
> at java.lang.ClassLoader.loadClass(ClassLoader.java:252)
> at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:320)
> ... 33 more
>
> But it seems we are getting close to the solution!!!
> Any other idea? Maybe we've just found a bug that has to be fixed (I'll get
> in touch with the plugin's developer) or something's wrong with my Java.
> Thanks for your time!!!
>
> -----Mensaje original-----
> De: ImageJ Interest Group [mailto:
[hidden email]] En nombre de
> Melissa Linkert
> Enviado el: jueves, 21 de octubre de 2010 15:22
> Para:
[hidden email]
> Asunto: Re: opening .flex format images
>
> Hi Joaquim,
>
> > I do not know whether LOCI is unable to open my images or I'm not able to
> run it properly. When I try to open my flex file the following error occurs:
> "File is not supported format, a reader plugin is not available, or it was
> not found.
> > ¿can anyone help me?
>
> It sounds like you opened the file by selecting "File > Open" or by
> dragging the file onto the ImageJ toolbar. If you instead select
> "Plugin > LOCI > Bio-Formats Importer" and then choose the .flex file, then
> the file should be opened correctly.
>
> Regards,
> -Melissa
>
> On Thu, Oct 21, 2010 at 10:11:59AM +0200, Soriano.Joaquim wrote:
> > I've just tried LOCI and it didn´t worked (Thank you very much Melissa
> anyway),
> > The images I'm trying to open were captured by using a Perkin Elmer,
> Opera, High content screening system (a high through output confocal
> microscope). I do not know whether LOCI is unable to open my images or I'm
> not able to run it properly. When I try to open my flex file the following
> error occurs: "File is not supported format, a reader plugin is not
> available, or it was not found.
> > ¿can anyone help me?
> > I can send a file if anyone is interested/willing to help.
> > Thank you all!!!
> >
> > -----Mensaje original-----
> > De: ImageJ Interest Group [mailto:
[hidden email]] En nombre de
> Melissa Linkert
> > Enviado el: jueves, 21 de octubre de 2010 0:40
> > Para:
[hidden email]
> > Asunto: Re: opening .flex format images
> >
> > Hi Joaquim,
> >
> > You could use Bio-Formats:
> >
> >
http://loci.wisc.edu/bio-formats/imagej> >
> > which supports reading images in many file formats, including Flex.
> >
> > Regards,
> > -Melissa
> >
> > On Wed, Oct 20, 2010 at 10:07:36AM +0200, Soriano.Joaquim wrote:
> > > Hi there!
> > >
> > > I would like to open stacks of images that are saved in a .flex format.
> > >
> > > ¿is it possible?, ¿anyone knows how to do it?
> > >
> > > Thank you very much in advance.
> > >
> > >
> > >
> > > Joaquim Soriano Felipe.
> > >
> > > Confocal Microscopy Unit
> > >
> > > Spanish National Cancer Research Centre (CNIO)
> > >
> > > Melchor Fernández Almagro,3, E-28029 Madrid, Spain
> > >
> > > Phone + 34 917 328 000, exts.: 3161, 3162.
[hidden email] <mailto:
>
[hidden email]>
> > >
> > >
> > >
> > >
> > >
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