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Carl Zeiss confocal microscopes such as the LSM 510 Confocal Microscope produce LSM files. These are are binary files which store images - and also the 'Short' and 'Detailed' notes, and the settings of the microscope.
The importer reads all the standard image-related metadata from LSM files into a record of class "LSM File" and metadata for tracks and lasers into subrecords of it. Subrecords are also created for each plane in the image stack, with each subrecord containing the dimensions of that plane and the thumbnail. The thumbnail produced in the "LSM File" record is dependant on the "Image Detail" configuration setting. It displays slices of the image stack.
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| Example image imported using LSM importer |
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| The LSM importer extracts each plane of the image |
The importer operates on files with the extension .lsm
The Zeiss Confocal importer supports two levels of metadata import. If the "Import short headers" options is selected then information on individual Lasers and Tracks is not read, otherwise the full metadata is read.
The importer is an image stack importer and therefore supports all of the image import options described in the Image (Thumbnail) options section.
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| Tools > Preferences lets you change LSM import options |
Certain LSM files include thumbnail images as well as the data. Catalyzer reverts to using these "internal" thumbnails if it has problems generating its own representations of the image stack (this can occur if, for example, the stack contains a mix of 8-bit and 16-bit images). These internal images are always 128 pixels square, regardless of the image size options set.