caffe_unet was not found about unet-segmentation HOT 3 CLOSED

Did you start Fiji from shell or via double-click from file browser? The double-click option does not load your .bashrc, so that PATH and LD_LIBRARY_PATH are not setup. If this is the case you have four options:

1. Start Fiji from the shell for which caffe and caffe_unet work
2. Set PATH and LD_LIBRARY_PATH global for local X sessions (For some window managers, adding a file ~/.profile with content . ~/.bashrc is already sufficient). However, I cannot give clear instructions, because it depends on the used window manager
3. Write a small wrapper script to start Fiji that first sets up your paths and then calls the ImageJ-linux64 binary, and then double click this script instead of the ImageJ-linux64 binary.
4. Check "Use remote host", enter as hostname localhost and as credentials your username and password

from unet-segmentation.

In case it's not the LIBRARY path issue as Thorsten pointed out, I think I recall encountering this issue and had to fix it by issuing a:
sudo apt-get remove caffe-tools-cuda

from unet-segmentation.

Many thanks Thorsten. I had indeed launched Fiji from the file browser. Running it from the shell solved all my problems.

from unet-segmentation.