The LSM Toolbox, a toolbox for reading and manipulating Zeiss LSM confocal images.
The LSM_Toolbox is a project aiming at the integration of common useful functions around the Zeiss lsm file format, that should enhance usability of confocal lsm files kept in their native format, thus preserving all available metadata. It uses different third party plugins like HyperVolume_Browser or Image_5D. Further documentation can be found in this slightly outdated manual.
These features have been implemented in the LSM_Toolbox version 4.0e:
As stated above the LSM_Reader continues to exist, and is directly forked from the LSM_Toolbox source code. It is squeezed to fit into the ImageJ main package. LSM_Reader does not contain metadata extraction or GUI which are features found in the toolbox.
The LSM_Toolbox is packaged as jar file.
Since v4.0e, the plugin requires LSM_Reader v4.0e or higher
Recommended (but optional) companion plugins:
(C) 2003-2009 Patrick Pirrotte, Jérôme Mutterer. LSM_Toolbox is subjected to the GPL v2 which you can read here.
The source code of LSM_Toolbox and LSM_Reader are available on GitHub.
none so far…
Use as follows: run("Show LSMToolbox","ext"); //to open an image: //Ext.lsmOpen("d:/a.lsm"); file= "d:/a.lsm" //to print out xml: xml = Ext.lsmXML(file); print(xml);
Use as follows: run("Show LSMToolbox","ext"); file= "d:/a.lsm" stamps = Ext.getTStamps(file); print(stamps);
Use as follows: run("Show LSMToolbox","ext"); file= "d:/a.lsm" events = Ext.getEvents(file); print(events);
4.0 version bump to match the file format version
Changelog of previous versions belong to the LSM_Reader plugin.
Contact Patrick or Jerome if you find any bugs or if you'd like to see a feature appear in a new release. It's easier for us to debug if you send us one of your images which cause the problem.