Hi,
I'm attempting to use the align_epi2anat procedure. But, I'm getting errors and the "-child_epi" subcommand doesn't seem to be working. Is there anything obviously wrong with my syntax?
I have pasted the later part of the screen output with some error notices. Is there anything in there that tells you what might be wrong?
Thanks.
Darren
syntax:
#!/usr/bin/env tcsh
# To prog for talairaching and aligning datasets
foreach id ( 07 )
@auto_tlrc -base ~/abin/TT_N27+tlrc -input s"$id"anat+orig
align_epi_anat.py -big_move \
-anat s"$id"anat+orig -epi s"$id"hum1R_tshift_card+orig \
-epi_base median -child_epi s"$id"hum"?"R_tshift_card+orig.HEAD \
-AddEdge -epi2anat -suffix al2anat \
-tlrc_apar s"$id"anat_at+tlrc
end
Last part of the Screen Output:
#Script is running:
3dNotes -h "align_epi_anat.py -big_move -anat s07anat+orig -epi \
s07hum1R_tshift_card+orig -epi_base median -child_epi \
s07hum?R_tshift_card+orig.HEAD -AddEdge -epi2anat -suffix al2anat \
-tlrc_apar s07anat_at+tlrc" s07hum1R_tshift_cardal2anat+orig
*+ WARNING: Over-writing dataset ./s07hum1R_tshift_cardal2anat+orig.HEAD
#++ Removing all the temporary files
#Script is running:
rm -f __tt_s07hum1R_tshift_card*
#Script is running:
rm -f __tt_s07anat*
#++ Parent /home/newfmri/HSC2007Projects/s07/session/humour/s07hum1R_tshift_card+orig: Child: /home/newfmri/HSC2007Projects/s07/session/humour/s07hum?R_tshift_card+orig
#Script is running (command trimmed):
3dAttribute TAXIS_OFFSETS s07hum?R_tshift_card+orig
#++ Can not do time shifting of slices. Data is already time shifted
Error: Second index j=1 is >= to number of elements (1) in 0th line of output
Traceback (most recent call last):
File "/home/newfmri/abin/align_epi_anat.py", line 2454, in ?
ps.process_child_epi(child_epi)
File "/home/newfmri/abin/align_epi_anat.py", line 2304, in process_child_epi
child.epi_ts, child.epi_vr, child.epi_ns = \
File "/home/newfmri/abin/align_epi_anat.py", line 2056, in process_epi
if(ps.dry_run() or \
File "/home/newfmri/abin/afni_base.py", line 405, in dset_dims
dl = [int(com.val(0,0)), int(com.val(0,1)), int(com.val(0,2)), int(com.val(0,3))]
TypeError: int() argument must be a string or a number
