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EM hole finder

Added by Jason van Rooyen over 10 years ago

Hi,

This may be a silly question but where do I find the EM_hole_finder interface in the appion website?

I have successfully installed EM_hole_finder and tested it with the included test.py script on my remote processing host. However, I cannot find where to launch it from within the interface.

Thanks in advance,
Jason


Replies (4)

RE: EM hole finder - Added by Amber Herold over 10 years ago

Good question! We do not call it EM_hole_finder in the GUI so I can see the difficulty.

You'll want to go to "Region Mask Creation" in the pipeline.
Select "Run Automated Masking".
Then select the 3rd masking procedure available in the list, "Auto Masking". You will see em_hole_finder in the description of the procedure.

RE: EM hole finder - Added by Jason van Rooyen over 10 years ago

Thanks Amber.

I found it after setting 'HIDE_FEATURE' to false in config.php

RE: EM hole finder - Added by Amber Herold over 10 years ago

Aha. I see, that is a mistake on my end. This feature is ready to go and should not be hidden.

RE: EM hole finder - Added by Jason van Rooyen over 10 years ago

One more thing; I had to set "proc = subprocess.Popen(commandline, shell=True, executable="/bin/bash")" in automasker.py because "source" is only used in my default bash shell.

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