command line use of Neuron2-APP2 #44
Description
Hello,
I'm having trouble passing parameters to the APP2 plugin via the command line.
If I don't pass any parameters by not using the -p or /p then APP2 uses reasonable default parameters For example running: Vaa3D-x.exe /x vn2 /f app2 /i "C:\Users\Desktop\Peng V3D test data\neuron01.tif" /o "C:\Users\Desktop\Peng V3D test data\test.swc"
Results in:
##Vaa3D-Neuron-APP2 v2.621
#channel = 0
#bkg_thresh = 10
#length_thresh = 5
#SR_ratio = 0.333333 .... etc and a reasonable swc trace
However, when I add the /p command, APP2 switches to using different parameters, but not those specified in the /p string
Running: Vaa3D-x.exe /x vn2 /f app2 /i "C:\Users\Luke_H\Desktop\Peng V3D test data\neuron01.tif" /o "C:\Users\Luke_H\Desktop\Peng V3D test data\test.swc" /p [NULL [1 [10 [1 [1 [0 [1 [5 [1][0][0]]]]]]]]]
Results in:
##Vaa3D-Neuron-APP2 v2.621
#channel = 0
#bkg_thresh = -1
#length_thresh = 0
#SR_ratio = 0.333333
#is_gsdt = 0
#is_gap = 0
#cnn_type = 2 etc and a hyperbranched swc
This command is based on the information provided by Vaa3D-x.exe /x vn2 /f help
Is there a different way to pass the parameters? Or has something changed in APP2 since the last help information from this plugin was created?
I think this is a fantastic tool and hope there is an easy solution to this.
Many thanks!
Luke