My data were previously processed with fmriprep.
I’ve used the participant_prep on my subjects, resampled my masks,
both successful. However, when I attempt participant_test, I receive an
error that the chnk[sic] length is incorrect. If I select individual
participants, the number can change (despite the protocol being the same
for everyone). Each subject has one session of four runs of 238 volumes
each, for a total of 952 volumes. The chnk length is always a multiple
of 238, but not 952 as it should be (I think). It is sometimes 1904, or
2856, etc.
For each subject I ran
`./mvpa 01` etc. for each subject 01-15, which ran the script:
```
docker run -i --rm \
-v /Users/john/CloudStation/School/Research/fmri/aim1:/data:ro \
-v
/Users/john/CloudStation/School/Research/fmri/aim1/derivatives/pymvpa:/outputs
\
bids/pymvpa \
--skip_bids_validator \
/data /outputs participant_prep -k ao -p $*
```
Then ran:
`./mvpa2 -c altdev famsalt famssame intalt intsame` which calls the
following script:
```
#!/bin/bash
docker run -i --rm \
-v /Users/john/CloudStation/School/Research/fmri/aim1:/data:ro \
-v
/Users/john/CloudStation/School/Research/fmri/aim1/derivatives/pymvpa:/outputs
\
bids/pymvpa \
--skip_bids_validator \
/data /outputs participant_test -k ao $*
```
Which produced deprecation warnings and the following error:
```
WARNING: Detected incorrect (nan) scl_ fields. Resetting to
scl_slope=1.0 and scl_inter=0.0
* Please note: warnings are printed only once, but underlying problem
might occur many times *
Traceback (most recent call last):
File "/code/run.py", line 281, in <module>
fds.sa['chnks'] = chunks_labels # we call this sample attribute
'chnks' so later it won't be mistaken for
File "/usr/lib/python2.7/dist-packages/mvpa2/base/collections.py",
line 599, in __setitem__
str(self)))
ValueError: Collectable 'chnks' with length [2856] does not match the
required length [952] of collection '<SampleAttributesCollection:
time_coords,time_indices>'.
```
I would greatly appreciate any help or pointers to online info.
John T. Johnson
PhD Candidate - Cognitive Motor Control Laboratory
Lab TA NEURO 4001 Capstone
School of Biological Sciences
Georgia Institute of Technology
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