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microct:working_with_isq_files [2020/06/10 21:42]
microct:working_with_isq_files [2020/06/10 21:42] (current)
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 +====== Import ISQ files to other Systems ======
 +Once you've [[remote_access#ftpgetting_the_data_off_the_u40|copied]] the .ISQ-files from the µCT onto your computer, you can import those files into [[http://rsbweb.nih.gov/ij/|ImageJ]] with the use of two different plugins.
 +Below are two ways to import ISQ files 
 +===== The Scanco Way =====
 +Andres Laib from SCANCO once sent me a bunch of ImageJ Plugins which can be used to read ISQ files. They are all contained in {{microct:ISQtoImageJ.zip|this zip file}} (10 kB).
 +{{  :microct:installplugin.png?200|}}To install, copy the .class-files from this archive to the "plugins" folder of ImageJ, then choose "Plugins -> Shortcuts -> Install Plugin" to install the plugin into the Plugins Menu (see image on the right). 
 +{{  :microct:imagejcommand.png?150|}}In the following dialog choose the plugin you want to install (Import_ISQ), put it into the Import Menu and set the command to "Import ISQ" (as shown in the image to the right).
 +After successful installation of the plugin, you can use it by choosing: P"lugins -> Import ISQ".
 +If the ISQ file you want to read is too large for your current ImageJ install, increase its memory under "Edit -> Options -> Memory & Threads" (or use [[http://pacific.mpi-cbg.de|Fiji]]).
 +===== Karl-Heinz Kunzelmann Way =====
 +Prof. Dr. Karl-Heinz Kunzelmann has also written a nice ImageJ Plugin to import ISQ files. Find all the details on this plugin on [[http://www.dent.med.uni-muenchen.de/~kkunzelm/exponent-0.96.3/index.php?section=49|his website]]. I actually prefer this one to "the SCANCO way", since Mr. Kunzelmanns plugin also plays nicely with the brightness of the imported ISQ files.
 +The plugin files are mirrored here: {{:microct:khks_microct.zip|}}. Fully copyright to and property of [[http://kunzelmann.de|Prof. Dr. Karl-Heinz Kunzelmann]].
 +{{  :microct:khk_import.png?200|}}After copying the files to to the plugin folder of ImageJ, you'll find the ISQ import under "File -> Import -> KHKs Scanco microCT ISQ FileReader" (see image to the right).