Without -grad:
ibmi@ibmi-81645:/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/test$ dwi2response tournier DWI_1.4mmiso_3000bh27_3631_B3000_1.4iso.mif response.txt
dwi2response:
dwi2response: Note that this script makes use of commands / algorithms that have relevant articles for citation. Please consult the help page (-help option) for more information.
dwi2response:
dwi2response: Generated temporary directory: /tmp/dwi2response-tmp-J3BN6J/
Command: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/test/DWI_1.4mmiso_3000bh27_3631_B3000_1.4iso.mif - -stride 0,0,0,1 | dwiextract - /tmp/dwi2response-tmp-J3BN6J/dwi.mif
[['mrconvert', '/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000', 'bei', '1.4mm', 'iso/bh27_B1000_neu/MRTrix_final/test/DWI_1.4mmiso_3000bh27_3631_B3000_1.4iso.mif', '-', '-stride', '0,0,0,1', '-quiet'], ['dwiextract', '-', '/tmp/dwi2response-tmp-J3BN6J/dwi.mif', '-quiet']]
dwi2response:
dwi2response: [ERROR] Command failed: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/test/DWI_1.4mmiso_3000bh27_3631_B3000_1.4iso.mif - -stride 0,0,0,1 | dwiextract - /tmp/dwi2response-tmp-J3BN6J/dwi.mif
dwi2response: Output of failed command:
mrconvert: [ERROR] Expected exactly 2 arguments (5 supplied)
mrconvert: [ERROR] Usage: mrconvert input output
mrconvert: [ERROR] Yours: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/test/DWI_1.4mmiso_3000bh27_3631_B3000_1.4iso.mif -
dwiextract: [ERROR] no filename supplied to standard input (broken pipe?)
dwiextract: [ERROR] error opening image "-"
dwi2response: Changing back to original directory (/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/test)
dwi2response: Deleting temporary directory /tmp/dwi2response-tmp-J3BN6J/`
With -grad:
ibmi@ibmi-81645:/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final$ dwi2response tournier data_reg_ecc.mif response.txt -grad encoding.b
dwi2response:
dwi2response: Note that this script makes use of commands / algorithms that have relevant articles for citation. Please consult the help page (-help option) for more information.
dwi2response:
dwi2response: Generated temporary directory: /tmp/dwi2response-tmp-PZ57QN/
Command: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/data_reg_ecc.mif - -stride 0,0,0,1 -grad /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/encoding.b | dwiextract - /tmp/dwi2response-tmp-PZ57QN/dwi.mif
[['mrconvert', '/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000', 'bei', '1.4mm', 'iso/bh27_B1000_neu/MRTrix_final/data_reg_ecc.mif', '-', '-stride', '0,0,0,1', '-grad', '/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000', 'bei', '1.4mm', 'iso/bh27_B1000_neu/MRTrix_final/encoding.b', '-quiet'], ['dwiextract', '-', '/tmp/dwi2response-tmp-PZ57QN/dwi.mif', '-quiet']]
dwi2response:
dwi2response: [ERROR] Command failed: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/data_reg_ecc.mif - -stride 0,0,0,1 -grad /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/encoding.b | dwiextract - /tmp/dwi2response-tmp-PZ57QN/dwi.mif
dwi2response: Output of failed command:
mrconvert: [ERROR] Expected exactly 2 arguments (8 supplied)
mrconvert: [ERROR] Usage: mrconvert input output
mrconvert: [ERROR] Yours: mrconvert /media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/data_reg_ecc.mif - bei 1.4mm iso/bh27_B1000_neu/MRTrix_final/encoding.b
dwiextract: [ERROR] no filename supplied to standard input (broken pipe?)
dwiextract: [ERROR] error opening image "-"
dwi2response: Changing back to original directory (/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final)
dwi2response: Deleting temporary directory /tmp/dwi2response-tmp-PZ57QN/
ibmi@ibmi-81645:/media/ibmi/Data/Paper_DWI_Treffen_2016.07.20_Miitwoch/Paper_DWI_Vergleich_B1000-3000 bei 1.4mm iso/bh27_B1000_neu/MRTrix_final$
I will change the folder more down the tree for future Replies.
Question: Di I have to reboot?
Hope u find something,
Ralf