Model-free deconvolution with pySPFM

import os
from glob import glob

from repo2data.repo2data import Repo2Data

# Install the data if running locally, or point to cached data if running on neurolibre
DATA_REQ_FILE = os.path.join("../binder/data_requirement.json")

# Download data
repo2data = Repo2Data(DATA_REQ_FILE)
data_path = repo2data.install()
data_path = os.path.abspath(data_path[0])

---- repo2data starting ----
/opt/hostedtoolcache/Python/3.10.14/x64/lib/python3.10/site-packages/repo2data
Config from file :
../binder/data_requirement.json
Destination:
./../data/multi-echo-data-analysis

Info : ./../data/multi-echo-data-analysis already downloaded

func_dir = os.path.join(data_path, "func/")
data_files = [
    os.path.join(
        func_dir,
        "sub-04570_task-rest_echo-1_space-scanner_desc-partialPreproc_bold.nii.gz",
    ),
    os.path.join(
        func_dir,
        "sub-04570_task-rest_echo-2_space-scanner_desc-partialPreproc_bold.nii.gz",
    ),
    os.path.join(
        func_dir,
        "sub-04570_task-rest_echo-3_space-scanner_desc-partialPreproc_bold.nii.gz",
    ),
    os.path.join(
        func_dir,
        "sub-04570_task-rest_echo-4_space-scanner_desc-partialPreproc_bold.nii.gz",
    ),
]
echo_times = [12.0, 28.0, 44.0, 60.0]
mask_file = os.path.join(
    func_dir, "sub-04570_task-rest_space-scanner_desc-brain_mask.nii.gz"
)
confounds_file = os.path.join(
    func_dir, "sub-04570_task-rest_desc-confounds_timeseries.tsv"
)

out_dir = os.path.join(data_path, "pySPFM")

from pySPFM import pySPFM

pySPFM.pySPFM(
    data_fn=data_files,
    mask_fn=mask_file,
    output_filename=os.path.join(out_dir, "out"),
    tr=2.47,
    out_dir=out_dir,
    te=echo_times,
)

---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
Cell In[3], line 1
----> 1 from pySPFM import pySPFM
      3 pySPFM.pySPFM(
      4     data_fn=data_files,
      5     mask_fn=mask_file,
   (...)
      9     te=echo_times,
     10 )

ImportError: cannot import name 'pySPFM' from 'pySPFM' (/opt/hostedtoolcache/Python/3.10.14/x64/lib/python3.10/site-packages/pySPFM/__init__.py)

The pySPFM workflow writes out a number of files.

out_files = sorted(glob(os.path.join(out_dir, "*")))
out_files = [os.path.basename(f) for f in out_files]
print("\n".join(out_files))