Thanks for sending that.
I don't think this is a Python issue.
*Something* is funny with how the options are being read in. The reason that the "Bad drive" occurs is because "-do_clean" gets inserted where it shouldn't, and the option to insert a value at that location is not used.
Additionally, comparing your terminal output to mine, I see that even this information is not being interpreted correctly: "-ulay_range_nz 0 1300". Basically, that should lead to this line in the output:
++ Ulay to be visualized within user range:
[0, 1300]
... because the ulay range is being explicitly stated. However, in yours, it looks like this:
++ Ulay to be visualized within user range:
[0%, 98%] -> [0.000000, 1367.000000]
... which is the default behavior if the utilized option were not being used.
*So*, this is mysterious. And somehow a shell issue, I think.
I made an update to @chauffeur_afni that will allow some more verbose output. Could you please go to the same Bootcamp dir, AFNI_data6/FT_analysis/FT, and copy+paste the following:
curl -O https://raw.githubusercontent.com/afni/afni/f72a8d64acba0a26eb4292bdb326bf300bae2615/src/scripts_install/%40chauffeur_afni
Then, can you run these *slightly* modified chauffeur commands (each now contains "-echo" as the first option, and also they are executed with "tcsh ./@chauffeur_afni ..." to specify that this specific version of the program should be used), and save the output of each to a log in the same way as before (redirecting, appropriate to what shell you are running)?:
tcsh ./@chauffeur_afni -echo \
-ulay FT_anat+orig.HEAD \
-olay FT_anat+orig.HEAD \
-ulay_range_nz 0 1300 \
-func_range 1300 \
-box_focus_slices AMASK_FOCUS_ULAY \
-cbar gray_scale \
-pbar_posonly \
-pbar_saveim TEST1.pbar.jpg \
-pbar_comm_range "test1 text" \
-pbar_for dset \
-prefix TEST1 \
-save_ftype JPEG \
-blowup 4 \
-opacity 9 \
-montx 7 -monty 1 \
-montgap 1 -montcolor black \
-set_xhairs OFF -label_mode 1 -label_size 3 \
-do_clean
tcsh ./@chauffeur_afni -echo \
-ulay FT_anat+orig.HEAD \
-olay FT_anat+orig.HEAD \
-ulay_range_nz 0 1300 \
-func_range 1300 \
-box_focus_slices AMASK_FOCUS_ULAY \
-cbar gray_scale \
-pbar_posonly \
-pbar_comm_range "test2 text" \
-pbar_for dset \
-prefix TEST2 \
-save_ftype JPEG \
-blowup 4 \
-opacity 9 \
-montx 7 -monty 1 \
-montgap 1 -montcolor black \
-set_xhairs OFF -label_mode 1 -label_size 3 \
-do_clean
These outputs will be verbose. Could you please email me the text files of them (I will email you so you have my email).
Thanks,
pt
