auto_warp.py fails with .gz files

AFNI Message Board
1

Hello AFNI developers,
Sorry for throwing a problem out there right before Memorial Day weekend, but I figured it was worth mentioning.
When I run auto_warp.py it fails to find “./base.nii”.
Here’s the actual command, in case that helps:
auto_warp.py -base /usr/lib/afni/bin/MNI152_2009_template_SSW.nii.gz -input /usr/lib/afni/bin/TT_N27+tlrc -output_dir /home/wgraves/data/ABIDE_local/rest_fc_v1/awpy -skull_strip_base no -skull_strip_input no

However, when I run the identical auto_warp.py command but only change the environment variable in my .afnirc file from:
AFNI_COMPRESSOR = GZIP
to NONE, it works.
I think Paul Taylor fixed this issue with afni_proc.py so that it now handles gz files. Presumably the same thing is happening here. I’d appreciate any help you can give!
Best,
Will

2

Hi, Will-

Righty-o. Code to avoid this issue when “AFNI_COMPRESSOR = GZIP” has been put into the repo, and should be available in the next build (so, whenever ver=21.01.10 is released, probably in the next short while).

–pt

3

Excellent. Thanks Paul!