help > Entering parametres for AAP2 in command line
Sep 27, 2019  02:09 PM | esteves5 - University of Toronto
Entering parametres for AAP2 in command line
Hi!
This question was also posted in General Discussion and I had the same question so I'd thought I'd post it here too.

"Parameters of APP2 for Command line of Vaa3d
Hi,
I am using the command line to run app2 to trace neuron with vaa3d. I follow this page: https://github.com/Vaa3D/Vaa3D_Wiki/wiki...
Based on the help, to call app2 in terminal we should write:

>> vaa3d -x plugin_name -f app2 -i -o -p vaa3d -x plugin_name -f app2 -i -o -p [inmarker_file [channel [bkg_thresh [b_256cube [b_RadiusFrom2D [is_gsdt [is_gap [length_thresh [is_resample][is_brightfield][is_high_intensity]]]]]]]]]
where -p is for the parameters. When I run it without parameters, it chooses default values and works well. But when I set the parameters and put inmarker_file=NULL, it does not work.
Would appreciate your help."

I also don't understand the naming for each parametre. Some are self-explanatory, but others like b_256cube, less so.

Cheers,
Sam

Threaded View

TitleAuthorDate
Entering parametres for AAP2 in command line
esteves5 Sep 27, 2019
Hanchuan Peng Dec 3, 2019
salam Jan 3, 2020