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@@ -15,10 +15,9 @@ paths, I/O (file handles, ...), strings etc. and tons of [Fiji][fiji] /
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cross-script redundanciees.
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Initially this has been a multi-purpose package where a substantial part had
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been useful in **CPython** as well. However, since the latest Jython
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release is still based on Python 2.7 (see the [Jython 3 roadmap][jython3] for
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more info), *imcflibs* is now basically limited to the **Fiji / ImageJ2
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ecosystem**.
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been useful in **CPython** as well. However, since the latest Jython release is
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still based on Python 2.7 (see the [Jython 3 roadmap][jython3] for more info),
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*imcflibs* is now basically limited to the **Fiji / ImageJ2 ecosystem**.
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Releases are made through Maven and published to the [SciJava Maven
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repository][sj_maven]. The easiest way to use the lib is by adding the **`IMCF
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### Required Update Sites
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After a fresh install of [Fiji](https://fiji.sc/), navigate to *Help* -> *Update* and in the resulting window, press *Manage Update Sites*. Here, search for and tick the following necessary update sites for this package.
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After a fresh install of [Fiji], navigate to *Help* -> *Update* and in the
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resulting window, press *Manage Update Sites*. Here, search for and tick the
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following necessary update sites for this package.
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- ImageJ
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- Fiji
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- TrackMate-Weka
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- TrackMate-MorpholibJ
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The **`IMCF Uni Basel`** update-site will supply the necessary `.jar` to run the functions contained in this package, but alternatively, the most up-to-date `.jar` for this package can be always found on the [Scijava Maven repository][scijava-1.5.0], which links to, for example, the `1.5.0` version of `python-imcflibs`.
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The **`IMCF Uni Basel`** update-site will supply the necessary `.jar` to run the
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functions contained in this package, but alternatively, the most up-to-date
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`.jar` for this package can be always found on the [Scijava Maven
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repository][scijava-1.5.0], which links to, for example, the `1.5.0` version of
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`python-imcflibs`.
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If you manually download the `.jar` from Scijava, extract the zip folder, and place the `.jar` file in the `\jars` folder of your Fiji installation, e.g `C:\Tools\Fiji.app\jars\`.
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If you manually download the `.jar` from Scijava, extract the zip folder, and
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place the `.jar` file in the `\jars` folder of your Fiji installation, e.g
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`C:\Tools\Fiji.app\jars\`.
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### Testing Installation
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To check the package's correct installation in Fiji, search for *Script Interpreter* in the Search bar, and type `:lang python`, followed by e.g. `import imcflibs.imagej.misc`. If no errors are shown, the installation was successful. Alternatively, you can scroll in the sidebar of the Interpreter to search for imcflibs.
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To check the package's correct installation in Fiji, search for *Script
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Interpreter* in the Search bar, and type `:lang python`, followed by e.g.
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`import imcflibs.imagej.misc`. If no errors are shown, the installation was
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successful. Alternatively, you can scroll in the sidebar of the Interpreter to
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