Hi,<div>I can open the file with the daily version of Bio-Formats.</div><div>Thanks!</div><div>chloe<br><br><div class="gmail_quote">2012/5/7 <span dir="ltr"><<a href="mailto:ome-users-request@lists.openmicroscopy.org.uk" target="_blank">ome-users-request@lists.openmicroscopy.org.uk</a>></span><br>
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Today's Topics:<br>
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1. ND2 file from Nikon NIS element4 (Chloe van Oostende)<br>
<br>
<br>
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<br>
Message: 1<br>
Date: Mon, 7 May 2012 09:44:11 -0400<br>
From: Chloe van Oostende <<a href="mailto:chloevanoostende@gmail.com">chloevanoostende@gmail.com</a>><br>
To: <a href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a><br>
Subject: [ome-users] ND2 file from Nikon NIS element4<br>
Message-ID:<br>
<CAHsjUmqoK53FEMX2RrHtEo=<a href="mailto:n-gcc-uMy31yrm4qjLuMoBgrOFQ@mail.gmail.com">n-gcc-uMy31yrm4qjLuMoBgrOFQ@mail.gmail.com</a>><br>
Content-Type: text/plain; charset="iso-8859-1"<br>
<br>
Hi,<br>
I have a MAC running with Mac OS 10.6.8. I use ImageJ 1.46m to open all my<br>
files. Until last week, we had a Nikon microscope, with NIS element3. I<br>
could open the files with Bio-Formats, wich was really really great. I<br>
used the stable version and the trunk build version. We updated our NIS<br>
element, and all the acquisition made with NIS element4 cannot be opened<br>
with Bio-formats. The export mode of NIS element viewer for mac, is<br>
horrible since it save each picture individually...and I have 4D<br>
acquisition with differents xy points...I cannot work with the viewer it<br>
will putt a mess in my computer!<br>
Here is the message I have while trying to open and ND2 file from NIS<br>
element4:<br>
<br>
*java.lang.IndexOutOfBoundsException: Index: 0, Size: 0*<br>
<br>
* at java.util.ArrayList.RangeCheck(ArrayList.java:547)*<br>
<br>
* at java.util.ArrayList.get(ArrayList.java:322)*<br>
<br>
* at<br>
loci.formats.in.NativeND2Reader.initFile(NativeND2Reader.java:587)*<br>
<br>
* at loci.formats.FormatReader.setId(FormatReader.java:1091)*<br>
<br>
* at loci.formats.DelegateReader.setId(DelegateReader.java:232)*<br>
<br>
* at<br>
loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:480)*<br>
<br>
* at<br>
loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)*<br>
<br>
* at loci.plugins.in.Importer.showDialogs(Importer.java:139)*<br>
<br>
* at loci.plugins.in.Importer.run(Importer.java:77)*<br>
<br>
* at loci.plugins.LociImporter.run(LociImporter.java:79)*<br>
<br>
* at ij.IJ.runUserPlugIn(IJ.java:184)*<br>
<br>
* at ij.IJ.runPlugIn(IJ.java:151)*<br>
<br>
* at ij.Executer.runCommand(Executer.java:127)*<br>
<br>
* at ij.Executer.run(Executer.java:64)*<br>
<br>
* at java.lang.Thread.run(Thread.java:680)*<br>
<br>
Please find in attached file, an acquisition I have from NIS element4.<br>
Hope you will be able to update Bio-Formats, for the pleasure of all ImageJ<br>
users!<br>
Thanks!<br>
Best regards,<br>
<br>
Chlo?<br>
<br>
--<br>
*Chlo? van Oostende*<br>
*PhD molecular and plant cell biology*<br>
<br>
Department of Biology<br>
Concordia University<br>
7141 Sherbrooke Street West<br>
SP-553.05<br>
Montreal, Quebec<br>
*Canada H4B 1R6**<br>
*<br>
*Lab: <a href="tel:%28514%29%20848-2424%20ext.5983" value="+15148482424">(514) 848-2424 ext.5983</a>*<br>
*<br>
*<br>
*<a href="http://www.chloevanoostende.net" target="_blank">http://www.chloevanoostende.net</a>*<br>
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End of ome-users Digest, Vol 86, Issue 4<br>
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</blockquote></div><br><br clear="all"><div><br></div>-- <br><div><div><span style="color:rgb(51,51,51);font-family:arial,helvetica,sans-serif"><i>Chloë van Oostende</i></span></div><font color="#333333" face="arial, helvetica, sans-serif"><i>PhD molecular and plant cell biology</i></font><div>
<span style="border-collapse:collapse"><font face="arial, helvetica, sans-serif"><br><font color="#333333" style="font-style:italic">Department of Biology</font><br><font color="#333333" style="font-style:italic">Concordia University</font><br>
<font color="#333333" style="font-style:italic">7141 Sherbrooke Street West</font><br><font color="#333333" style="font-style:italic">SP-553.05</font><br><font color="#333333" style="font-style:italic">Montreal, Quebec</font><br>
<i><font color="#333333">Canada H4B 1R6</font></i></font><i><font face="arial, helvetica, sans-serif" color="#333333"><br></font></i></span></div><div><i><font face="arial, helvetica, sans-serif" color="#333333">Lab: (514) 848-2424<span> ext.5983</span></font></i></div>
<div><i><font face="arial, helvetica, sans-serif"><span><br></span></font></i></div><div><div><i><a href="http://www.chloevanoostende.net/" target="_blank">http://www.chloevanoostende.net</a></i></div></div></div><br>
</div>