I am trying to use the micaToolbox to generate calibrated pictures of lizards (see attached example images). We are unsure of whether we would be able to make the lizards still enough to generate two pictures (UV+ visible) per lizard that could be aligned, but being able to generate two calibrated pictures per lizard (in which we could measure size, pattern and reflectance according to “camera colour vision”) will probably suffice for our interests. The attached images are very preliminary, I am aware that they are out of focus, and that we changed the ISO between the UV and the visible images (which we shouldn’t do). I just wanted to see how the camera (Olympus PEN E-PM2 + Novoflex Novoflexar 35mm lens + Baader U-filter2), tripod, Spectralon 99% standard, etc worked with the lizards, and whether I could import the RAW images with the micaToolbox.
The problem is that I am getting similar error messages whenever I try to import a picture using the pathway micaToolbox>Tools>DCRAW import or the pathway micaToolbox>Generate Multispectral Image> Visible and UV.
The error messages I am getting are the same than this other question , but I couldn’t find a solution for my problem there (the pictures I am sending you are .orf files generated by shooting in RAW format). I am running micaToolbox Version 2.2.2 on ImageJ v1.51e18.
Links to images:
https://drive.google.com/file/d/1DjQdQFFPg5Sm47pEy0W6VUKO5fgNQAXV/view?usp=sharing
https://drive.google.com/file/d/1CLdtJCYhURcBIQUe8dAgkPWZ0eZE3dbV/view?usp=sharing
Thanks for your help,
Javier
Heya,
I just came across your tweet and was wondering if you could verify that you have followed the installation instructions and are not running the toolbox on FIJI?
Cheers,
Cedric
I can confirm. I just re-installed the latest version from the link you provide in this website and moved the contests of micaToolbox.zip to the Image/plugins directory. It stills produces the same errors.
I just tried one of your images and it worked fine for me. I think the issue is either that you haven’t installed everything quite correctly (use the downloads page to make sure you’ve unzipped everything to the right place, there should be an imagej/plugins/dcraw/ directory)
Make sure there are no full-stops in the file path to your raw images, and that imagej is able to read and write to that location (protected directories, virtual directories etc might not work).
Or this could be a windows/antivirus/admin rights issue. Try running ImageJ as administrator, try moving your imagej installation to somewhere else on your computer.
jt
Thanks for your help and for developing this promising tool! I have re-installed ImageJ and the Mica Toolbox following the installation instructions. My directories look li
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ke the ones at http://www.empiricalimaging.com/download/micatoolbox/
I have moved my ImageJ directory to the desktop and run it as administratorbut it still doesn’t work. How could make sure there are no full-stops on the path to my Raw Images? I copied one inside the ImageJ folder and it still doesn’t work.
Cheers,
Javier
A quick update: I tried to generate a multispectral image from my images in another computer and it works perfectly fine. There is obviously something wrong with my laptop (although I don’t know what). Thanks for your help!
Javier