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blogtng:2010-06-07:notes_on_mipav_tried_with_win32 [2010/06/07 13:38] – kotablogtng:2010-06-07:notes_on_mipav_tried_with_win32 [2020/11/26 09:11] (current) – external edit 127.0.0.1
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 ===== Notes on MIPAV (tried with win32) ===== ===== Notes on MIPAV (tried with win32) =====
  
-I tried MIPAV pretty long time a go (2005?) and compared to that time, MIPAV has evolved to gave stronger functionality in visualization than before. Many new algorithms fro filtering are added as well. +I tried MIPAV pretty long time a go (2005?). Compared to that time, MIPAV has evolved pretty much with stronger functionality in visualization. Many new algorithms fro filtering are added as well. Trials with test processing was mostly OK but some bugs, which are not ignorable. Rich and very advanced functions are implemented, but it tends to be that basic handling function is missing or hidden behind complex command bindings and not intuitive. "Vox" (volume of interest) concept is generally applied to most of the functions, and I think this point worth everyone interested to try out. We are trapped in 2D screen, while we want to access 3D - this is a common problem in all the software that deals with 3D datasets, and MIPAV is seeking for its solution.  
 MIPAV website: http://mipav.cit.nih.gov/ MIPAV website: http://mipav.cit.nih.gov/
  
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 **Installation procedure** **Installation procedure**
 quote from installation instruction\\ quote from installation instruction\\
-<quote>+<blockquote>
 After installing the MIPAV from the jar file, be aware that for full functionality you will need the following installed into the Java Virtual Machine you will be using to execute MIPAV:\\ After installing the MIPAV from the jar file, be aware that for full functionality you will need the following installed into the Java Virtual Machine you will be using to execute MIPAV:\\
  
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 Nightly md5sum: d6ae2449be40a418b74b162a3f94255c Nightly md5sum: d6ae2449be40a418b74b162a3f94255c
 </code> </code>
-</quote> +</blockquote>
- +
-**comment on istallation**\\ +
-Not necessary to have above java modules for installation (but as instruction says, some functions will not do job. I will check later). \\ +
-JOGL (Java bindings for OpenGL(C++ library) ) is not straight forward since one must build some files from source. +
  
 +** === comment on istallation === **
 +Not necessary to have above java modules for installation (but as instruction says, some functions will not do job. I will check later). For manually setting class path for visualization, google "set Classpath" or so. \\
  
 **Installing Plugins** **Installing Plugins**
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 --> according to LOCI instruciton, following steps must be taken (but maybe it works just by plugin -> install plugins)\\ --> according to LOCI instruciton, following steps must be taken (but maybe it works just by plugin -> install plugins)\\
  
-classpath of MIPAV should probably edit the file mipav.lax.\\ +classpath of MIPAV: should edit the file mipav.lax\\ 
-Add path to the plucin class below. \\+ Add path to the plugin class below. \\
 <code> <code>
 #   LAX.CLASS.PATH #   LAX.CLASS.PATH
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 **Filters** **Filters**
  
-Good and detailed documentation in the help file and vol.2 of the user guide (Volume2.pdf).\\ +Vey extensive and detailed documentation in the help file and vol.2 of the user guide (Volume2.pdf). This PDF is almost a text book. Worth checking through, since modern image processing algorithms are explained in details.\\ 
-To see the list, check p51 - 62 of the pdf.\\+To see the list of implemented algorithm, check p51 - 62 of the pdf.\\
  
 **Processing** **Processing**
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 http://mipav.cit.nih.gov/documentation/api/gov/nih/mipav/model/algorithms/filters/package-summary.html\\ http://mipav.cit.nih.gov/documentation/api/gov/nih/mipav/model/algorithms/filters/package-summary.html\\
  
-<quote>+<blockquote>
 c:\usr\local\bin\ITKAlgorithmsJava.dll  c:\usr\local\bin\ITKAlgorithmsJava.dll 
 c:\usr\local\bin\ITKBasicFiltersAJava.dll  c:\usr\local\bin\ITKBasicFiltersAJava.dll 
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 This path of c:\usr\local is hard-coded into the build for the INSTALL project.  This path of c:\usr\local is hard-coded into the build for the INSTALL project. 
 You can relocate these files in a different folder and on a different machine, but you must keep the relative path locations between the ITK*Java.dll files and InsightToolkit.jar file the same. The reason for keeping the path relative is because the software in the InsightToolkit.jar file searches for the runtime DLLs using the relative path of "..\..\bin".  You can relocate these files in a different folder and on a different machine, but you must keep the relative path locations between the ITK*Java.dll files and InsightToolkit.jar file the same. The reason for keeping the path relative is because the software in the InsightToolkit.jar file searches for the runtime DLLs using the relative path of "..\..\bin". 
-</quote>+</blockquote>
  
 ITK: http://www.itk.org/itkindex.html ITK: http://www.itk.org/itkindex.html
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 **visualizaiton**  **visualizaiton** 
  
-Documentation is under development and could not really evaluate. \\ +Documentation is under development and could not really evaluate, but then: \\ 
---> install java3D and maybe JOGL as well. currently some funcitons seems not working (no error message, but just stalls. )\\+  * tri-plane view of 4D sequence synchronized with the slider of the original stack.  
 +  * surface rendering is not supporting 4D\\
  
blogtng/2010-06-07/notes_on_mipav_tried_with_win32.1275917920.txt.gz · Last modified: 2016/05/24 12:46 (external edit)
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