Difference between revisions of "Documentation/4.4/Extensions"

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* [[Documentation/{{documentation/version}}/Extensions/ResectionPlanner|ResectionVolume]] (Matt Lougheed)
 
* [[Documentation/{{documentation/version}}/Extensions/ResectionPlanner|ResectionVolume]] (Matt Lougheed)
 
* [[Documentation/{{documentation/version}}/Extensions/PETDICOM|PET DICOM]] (Andrey Fedorov, Ethan Ulrich)
 
* [[Documentation/{{documentation/version}}/Extensions/PETDICOM|PET DICOM]] (Andrey Fedorov, Ethan Ulrich)
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* [[Documentation/{{documentation/version}}/Extensions/PETTumorSegmentation|PET Tumor Segmentation]] (Christian Bauer, Markus van Tol)
 
* [[Documentation/{{documentation/version}}/Extensions/CornerAnnotation|CornerAnnotation]] (Atsushi Yamada)
 
* [[Documentation/{{documentation/version}}/Extensions/CornerAnnotation|CornerAnnotation]] (Atsushi Yamada)
 
* [[Documentation/{{documentation/version}}/Extensions/Wasp|Watershed Annotation and Segmentation Plugin.]] (Thomas Lawson)
 
* [[Documentation/{{documentation/version}}/Extensions/Wasp|Watershed Annotation and Segmentation Plugin.]] (Thomas Lawson)
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** [[Documentation/{{documentation/version}}/Modules/dPetBrainQuantification|dPetBrainQuantification]]
 
** [[Documentation/{{documentation/version}}/Modules/dPetBrainQuantification|dPetBrainQuantification]]
 
* [[Documentation/{{documentation/version}}/Extensions/IGTWizard|IGTWizard]] (Junichi Tokuda and Atsushi Yamada)
 
* [[Documentation/{{documentation/version}}/Extensions/IGTWizard|IGTWizard]] (Junichi Tokuda and Atsushi Yamada)
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* [[Documentation/{{documentation/version}}/Extensions/MarginCalculator|MarginCalculator]] (Kevin Wang and Winnie Li)
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* [[Documentation/{{documentation/version}}/Extensions/Slicer-Featurelets|Slicer-Featurelets]] (Andreas Renner)
  
 
==Cat 3==
 
==Cat 3==

Latest revision as of 09:50, 17 September 2015

Home < Documentation < 4.4 < Extensions


For the latest Slicer documentation, visit the read-the-docs.


Extensions by Category

Cat 1

Cat 2

Cat 3


User FAQ: Extensions

What is an extension ?

Extensions in the Extension manager.

An extension could be seen as a delivery package bundling together one or more Slicer modules. After installing an extension, the associated modules will be presented to the user as built-in ones

The Slicer community maintains a website referred to as the Slicer Extensions Catalog to support finding, downloading and installing of extensions. Access to this website is integral to Slicer and facilitated by the Extensions Manager functionality built into the distributed program.

The Catalog classifies extensions into three levels of compliance:

  1. Category 1: Fully compliant Slicer Extensions: Slicer license, open source, maintained.
  2. Category 2: Open source, contact exists.
  3. Category 3: All other extensions (work in progress, beta, closed source etc).

To publish extensions, developers should consider reading the following pages:

What is the extensions catalog ?

The extensions catalog provides Slicer users with a convenient way to access the extensions previously uploaded on the extensions server:

Why there are no windows 32-bit extensions available ?

  • Win 32 has a very limited amount of memory available to an application.
  • Many registration and segmentation algorithms fail on that platform because they run out of memory, when used with state of large data.
  • Some of these failures are just that, some can crash slicer. Even though the "real" failure is caused by overextending the capabilities of the hardware (in a way the users fault), it appears to the user that Slicer does not work.
  • If you search the archives of slicer-users there are several such complaints until we started to discourage people to use 32 bit.

Discussion: http://massmail.spl.harvard.edu/public-archives/slicer-users/2013/006703.html

Should I install the nightly version to access to last extension updates ?

If the extension developers contributed updates for the current stable release, you don't have to install the nightly version of Slicer. You can simply update the extension. Consider reading How to update an already installed extension ?.

On the other hand, if the extension developers stopped to maintain the version of their extension built against the stable release (so that we can use the latest feature that will be in the next Slicer release), downloading the nightly is the only way to get the latest version of the extension.

How to update an already installed extension?

Assuming updates extensions are available for your version of Slicer, it is currently not possible without uninstalling the extension and re-installing it.

We are currently developing a mechanism allowing to either manually update or automatically suggest update. In the process of finalizing, reviewing and testing, the corresponding feature will be available in Slicer 4.12.

For more details, see [1][2] and [3]

[1] http://na-mic.org/Mantis/view.php?id=2089

[2] https://github.com/mwoehlke-kitware/Slicer/tree/REBASE-2089-update-extensions

[3] http://wiki.slicer.org/wiki/Documentation/Labs/ExtensionsFrameworkRoadmap

How to manually download an extension package?

1) Get revision associated with your install or built Slicer (Menu -> Help -> About). The revision is a number preceded by r character, for example: if the complete version string is 4.3.1-2014-09-14 r23677 the revision is 23677

2) Open the extension catalog (app store). The default Slicer extension catalog is available at: http://slicer.kitware.com/midas3/slicerappstore

3) Select operating system, bitness and enter revision in the empty textbox between the bitness selector and the searchbox. If no revision is entered then the No extensions found message will be displayed.

4) Click Download button of the selected extension to download the extension package.

How to manually install an extension?

1) Get the extension package matching your Slicer version.

2) Extract the archive (zip or tar.gz) in a folder. You should then have a folder like: 

/path/to/<slicer_revision>-<os>-<bitness>-<extension_name>-<extension_scm><extension_revision>-YYYY-MM-DD

containing one or more of the following folders: 

lib/Slicer-X.Y/cli-modules
lib/Slicer-X.Y/qt-loadable-modules
lib/Slicer-X.Y/qt-scripted-modules

For more details: Documentation/4.4/Developers/DirectoryStructure

4) In the Module settings (Menu -> Edit -> Settings), add all existing paths ending with: 

lib/Slicer-X.Y/cli-modules
lib/Slicer-X.Y/qt-loadable-modules
lib/Slicer-X.Y/qt-scripted-modules

How to create a custom Slicer version with selected extensions pre-installed?

1) Download and install Slicer

2) Install all necessary extensions manually (as described above) in <slicer_install_dir>/lib/Slicer-X.Y/...

3) If all the files in <slicer_install_dir> are copied to any other folder/computer/USB drive/portable storage device then Slicer can be launched by running the Slicer executable in the main directory. No installation or administrative access rights are necessary. Slicer can even be launched directly from a USB drive, without copying files to the computer.

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