adwarp.c error

AFNI Message Board
1

Hi all,

I am trying to use the adwarp -apar to created talairached HEAD and BRIK files with specific contrasts. When I type in

adwarp –apar 3dvol+tlrc –dpar C+orig (C being the specific contrast, which I created a file for already)

I get the following message:

adwarp.c Error: Cannot read anat parent dataset.

Please advise

Nicole

2

Hi, Nicole-

Hmm, I ran the following and it worked for me:


adwarp -apar FIRST_DSET+tlrc -dpar OTHER_DSET+orig -prefix OUTPUT_NAME

… so I’m not immediately sure. What is the output of


afni -ver

for you?

One possible thing to note from what is copied+pasted: those hyphens in the option names don’t look like real, ASCII hyphens; I would try deleting those characters, and retyping them (this kind of badness occurs when copy+pasting from PDFs, which usually contains weird characters).

On a larger note, though, I wonder about possibly having a more modern program to perform this process… Are you purely resampling the “-dpar …” dataset to be on the grid of the “-apar …” dataset (so, only a resampling of the grids/space names), or are you trying to warp/align/move the brain the “-dpar …” dataset to align better with the “-apar …” one? Or are you doing something different with this?

–pt

3

If you are doing nonlinear alignment as part of your alignment pipeline, then you probably don’t want to use adwarp. That only does affine and 12-piece transformations. Instead you would supply the affine and nonlinear warp transformations to 3dNwarpApply.

https://afni.nimh.nih.gov/pub/dist/doc/htmldoc/programs/3dNwarpApply_sphx.html

4

Hi Nicole,

It seems likely that you are just not specifying the correct file name, such as with a leading directory or something.

Make sure that “ls -l 3dvol+tlrc*” works, for example.

  • rick
5

The output I get is the following:

(Version AFNI_19.2.24 ‘Claudius’)

I’ve tried deleting and retyping the symbols, but unfortunately that hasn’t helped.

Thanks!

6

Hi Rick,

“ls -l 3dvol+tlrc*” did not work for this dataset, what does that indicate?

Thanks,
Nicole

7

Hi Nicole,

That means the name of the file is not correct. Just type ‘ls’ in that directory, do you see it? Or perhaps it is in a different directory.

I must wonder though, have you considered using afni_proc.py for the single subject analysis? What steps are you current using to do single subject analysis?

  • rick