3Tissue / MRtrix3Tissue

MRtrix3Tissue adds capabilities for 3-Tissue CSD modelling and analysis to a complete version of MRtrix3.
https://3Tissue.github.io
Mozilla Public License 2.0
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shconv: [ERROR] unknown option "-mask" #26

Open paytocode opened 2 years ago

paytocode commented 2 years ago

My data consist of b=0 and b= 1000 with 55 gradient directions. I ran my line of code for ss3t_csd_beta1 as:

ss3t_csd_beta1 preproc_unbiased.mif wm.txt wmfod.mif gm.txt gmfod.mif csf.txt csffod.mif -mask mask_ss.mif

However, I got an error like ...

shconv: [ERROR] unknown option "-mask" ss3t_csd_beta1: [ERROR] shconv fod_csf_0.mif wresp_csf_bz.txt sh_csf_bz_1.mif -mask mask.mif (ss3t_csd_beta1:163) ss3t_csd_beta1: [ERROR] Information from failed command: ss3t_csd_beta1: shconv: [ERROR] unknown option "-mask" ss3t_csd_beta1: ss3t_csd_beta1: [ERROR] For debugging, inspect contents of scratch directory: /Volumes/data/ss3t_csd_beta1-tmp-QGUFYT/

I tried the same line of code as before without -mask:

ss3t_csd_beta1 preproc_unbiased.mif wm.txt wmfod.mif gm.txt gmfod.mif csf.txt csffod.mif

and got an error like ....

Command: sh2amp sh_csf_bz_1.mif grad_bz.txt sig_csf_bz_1.mif -gradient sh2amp: [ERROR] unknown option "-gradient"

ss3t_csd_beta1: [ERROR] sh2amp sh_csf_bz_1.mif grad_bz.txt sig_csf_bz_1.mif -gradient (ss3t_csd_beta1:166) ss3t_csd_beta1: [ERROR] Information from failed command: ss3t_csd_beta1: sh2amp: [ERROR] unknown option "-gradient" ss3t_csd_beta1: ss3t_csd_beta1: [ERROR] For debugging, inspect contents of scratch directory: /Volumes/data/ss3t_csd_beta1-tmp-SMBBST/

turuilin commented 6 months ago

Hi,I also encountered this problem. Have you solved it now?