[OpenSPIM] A question about the Light Sheet software

[Luke Stuyvenberg]

Hi Christian,

On 03/31/14, Cristian Undurraga  wrote:
> Hi Luke,
> 
> I`m sending the file that you asked after to try to start a time lapse, specified a new directory in the desktop (new folder named "1" in the desktop).Thank you very much. The file seems to indicate that a necessary JAR file is missing for OME-TIFF output -- the most likely candidate is OpenSPIM.app/jars/bio-formats/formats-api-5.0.0.jar (the latest version available through the Fiji Updater).


Did you download the OpenSPIM package from our website? If you run the Fiji Updater (Help -> Update Fiji), it should give you a list of files that need to be updated. Most likely, you can accept the Updater's proposal by clicking "Accept changes" at the bottom; this should fix your issue.


I should be clear that this is different from updating Micro-Manager. Our plugin does not currently come with Micro-Manager, so if you download Micro-Manager's latest version from their website, you won't be able to control an OpenSPIM. The Fiji updater, on the other hand, downloads newer versions of the files OpenSPIM relies on.


If you have any questions, or if this doesn't resolve your issue, please don't hesitate to mail me and/or the list (openspim at openspim.org) again!
Thanks,
Luke