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A number of plugins are available which provide specialised import from particular file types. These do things like extract settings and other header information from data files (for example, the LSM importer extracts images and microscope settings from Zeiss microscope images). One application of the importers is to automatically catalog all the data in CDs or hard disk - Catalyzer plus Plugins will construct a database containing all metadata with links to the data files, so you can search for all images which used a particular laser setting.
Visit www.axiope.com for the full list of available plugins.
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| The plugins dialog is available from the main Tools menu |
The plugins dialog can be accessed from the
Tools>
Plugins menu. It displays a
list of the plugins that are installed, their version and
vendor as well as an indication of their licensing. If
plugins are installed that are not yet licensed then
licenses can be generated in the license manager.
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| The plugins dialog |
Left clicking on a plugin in the list will display more detailed information about the plugin in the panel beneath the main table.
To install a new plugin, click "Install Plugin". This will create a file chooser which can be used to browse to the jar file containing the plugin. After the jar is selected a dialog will appear detailing information about the plugin to be installed. Confirming this dialog will install the plugin. Plugins can also be installed by copying the jar files to the plugins folder in the Axiope home folder (.axiope/plugins in your home directory) and restarting Catalyzer.
To download more plugins from www.axiope.com, click on "Get More Plugins".
The image import plugins read in metadata and image data from a variety of files. The images can be generated at a variety of different sizes. In addition if more than one image is contained in the image file then the user can generate a tiled image where the thumbnail will contain a square of images, either 2, 3 or 4 images wide.
The Biorad Importer imports .pic files from a Biorad MRC 600 confocal microscope. It extracts all the metadata from the file and thumbnails its image stack. The options for the importer allow you to choose the size of the thumbnail and the number of images from which image tiles will be built.
The Zeiss LSM Importer imports .lsm (Laser Scanning Microscope) files from a confocal microscope. It extracts all the selected metadata from the file and thumbnails its image stack. The options for the importer allow the user to choose the size of thumbnail and the amount of images to build an image tile from as well as offering a choice about the detail level of the imported metadata.
The Leica Importer imports .lei files from Leica. These files index a set of tif files containing the image data. It extracts all the metadata from the lei file and thumbnails the tif files. There are no options for image tiling as the lei file contains data about a series of images. One image is created in the image tile per series. If a series contains an image stack, the central image from that stack is extracted as the series image. The normal options for image sizing are available.
The IPLab importer imports .ipl files from IPLab. It extracts all the metadata from the file and thumbnails its image stack. The options for the importer allow you to choose the size of thumbnail and the amount of images to build an image tile from.
The Metamorph Importer imports .stk files from Metamorph. It extracts all the metadata from the file and thumbnails its image stack. Metamorph files are extensions of TIFF and the TIFF plane data is also extracted.The options for the importer allow you to choose the size of thumbnail and the amount of images to build an image tile from.
The TIFF Importer imports tiff files. It extracts the per-plane metadata from the tiff files and thumbnails its image stack. The options for the importer allow you to choose the size of thumbnail and the number of images to build an image tile from.