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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">Dear Kaustav,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">One option that might work is go to Image > Hyperstack > Stack to Hyperstack and see if you can find a setting that will organize the
images in the correct order. Another option might be to export the files to a different format in the ND viewer like ICS/IDS and see if these open correctly in Fiji.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">Also, occasionally images open differently when opened directly in the Bio-Formats plugin (Plugins > Bio-Formats > Bio-Formats Importer)
compared to File > Open.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">Best wishes<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US">Kees<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Dr Ir K.R. Straatman<br>
Senior Experimental Officer<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Advanced Imaging Facility<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Centre for Core Biotechnology Services<br>
University of Leicester<br>
<a href="http://www.le.ac.uk/advanced-imaging-facility">www.le.ac.uk/advanced-imaging-facility</a><o:p></o:p></span></p>
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</span><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D;mso-fareast-language:EN-US"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif"> ome-users [mailto:ome-users-bounces@lists.openmicroscopy.org.uk]
<b>On Behalf Of </b>Kaustav Bera<br>
<b>Sent:</b> 22 February 2018 20:09<br>
<b>To:</b> ome-users@lists.openmicroscopy.org.uk<br>
<b>Cc:</b> kaustav0bera@gmail.com<br>
<b>Subject:</b> [ome-users] Problem opening <dot>nd2 file using FIJI<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Hi!<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">I am trying to open a file acquired by Nikon A1 confocal system using FIJI. I have updated both the FIJI and the bioformats plugin before opening the file. Its a z stack at 8 different time points
and two different channels. When I open it using FIJI the file opens with the two channels as expected but the z stacks and the time points are all merged as a time sequence. However when I open the file using NIS Viewer, both the metadata and the image are
displayed properly. Please find attached some screen-shots for your kind referral.<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Any suggestions to curtail this problem will be highly appreciated. I can also forward the particular file if required.<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><em><b><span style="font-family:"Calibri",sans-serif;color:black">System info:</span></b></em><span style="font-family:"Calibri",sans-serif;color:black"><o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Operating System: Windows 7 Professional edition​<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Thanks and regards,<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Kaustav Bera<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Johns Hopkins University<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Baltimore, MD<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">USA<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
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