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name: Clone Count Update | ||
|
||
on: | ||
schedule: | ||
- cron: "10 0 * * SUN" | ||
workflow_dispatch: | ||
|
||
jobs: | ||
build: | ||
runs-on: ubuntu-latest | ||
|
||
steps: | ||
- uses: actions/checkout@v3 | ||
with: | ||
ref: clone_count | ||
|
||
- name: gh login | ||
run: echo "${{ secrets.SECRET_TOKEN }}" | gh auth login --with-token | ||
|
||
- name: parse latest clone count | ||
run: | | ||
curl --user "${{ github.actor }}:${{ secrets.SECRET_TOKEN }}" \ | ||
-H "Accept: application/vnd.github.v3+json" \ | ||
https://api.github.com/repos/${{ github.repository }}/traffic/clones \ | ||
> clone.json | ||
- name: create gist and download previous count | ||
id: set_id | ||
run: | | ||
if gh secret list | grep -q "GIST_ID" | ||
then | ||
echo "GIST_ID found" | ||
echo "GIST=${{ secrets.GIST_ID }}" >> $GITHUB_OUTPUT | ||
curl https://gist.githubusercontent.com/${{ github.actor }}/${{ secrets.GIST_ID }}/raw/clone.json > clone_before.json | ||
if cat clone_before.json | grep '404: Not Found'; then | ||
echo "GIST_ID not valid anymore. Creating another gist..." | ||
gist_id=$(gh gist create clone.json | awk -F / '{print $NF}') | ||
echo $gist_id | gh secret set GIST_ID | ||
echo "GIST=$gist_id" >> $GITHUB_OUTPUT | ||
cp clone.json clone_before.json | ||
git rm --ignore-unmatch CLONE.md | ||
fi | ||
else | ||
echo "GIST_ID not found. Creating a gist..." | ||
gist_id=$(gh gist create clone.json | awk -F / '{print $NF}') | ||
echo $gist_id | gh secret set GIST_ID | ||
echo "GIST=$gist_id" >> $GITHUB_OUTPUT | ||
cp clone.json clone_before.json | ||
fi | ||
- name: update clone.json | ||
run: | | ||
curl https://raw.githubusercontent.com/MShawon/github-clone-count-badge/master/main.py > main.py | ||
python3 main.py | ||
- name: Update gist with latest count | ||
run: | | ||
content=$(sed -e 's/\\/\\\\/g' -e 's/\t/\\t/g' -e 's/\"/\\"/g' -e 's/\r//g' "clone.json" | sed -E ':a;N;$!ba;s/\r{0,1}\n/\\n/g') | ||
echo '{"description": "${{ github.repository }} clone statistics", "files": {"clone.json": {"content": "'"$content"'"}}}' > post_clone.json | ||
curl -s -X PATCH \ | ||
--user "${{ github.actor }}:${{ secrets.SECRET_TOKEN }}" \ | ||
-H "Content-Type: application/json" \ | ||
-d @post_clone.json https://api.github.com/gists/${{ steps.set_id.outputs.GIST }} > /dev/null 2>&1 |
39 changes: 39 additions & 0 deletions
39
PhysIO/examples/tapas_physio_example_bids_cpulse3t_spm_job.m
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matlabbatch{1}.spm.tools.physio.save_dir = {'physio_out'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.vendor = 'BIDS'; | ||
matlabbatch{1}.spm.tools.physio.log_files.cardiac = {'sub-s998_task-random_run-99_physio.tsv'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.respiration = {''}; | ||
matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {''}; | ||
matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = []; | ||
matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = []; | ||
matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'first'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 16; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 1.45; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 0; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 474; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 9; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = 0.090625; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = 0; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.scan_timing_log = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'PPU'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.load_from_logfile = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.05 2]; | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false; | ||
matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt'; | ||
matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat'; | ||
matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none'; | ||
matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.yes.method = 'hilbert'; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.yes.delays = 0; | ||
matlabbatch{1}.spm.tools.physio.model.hrv.yes.delays = 0; | ||
matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.movement.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.other.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.verbose.level = 2; | ||
matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = 'physio.jpeg'; | ||
matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false; |
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matlabbatch{1}.spm.tools.physio.save_dir = {'physio_out'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.vendor = 'BIDS'; | ||
matlabbatch{1}.spm.tools.physio.log_files.cardiac = {'sub-s999_task-random_run-99_physio.tsv.gz'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.respiration = {''}; | ||
matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {''}; | ||
matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = []; | ||
matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = 0; | ||
matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'first'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 16; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 1.45; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 0; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 408; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 9; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.scan_timing_log = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'PPU'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.min = 0.4; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.file = 'initial_cpulse_kRpeakfile.mat'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.max_heart_rate_bpm = 90; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.01 2]; | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false; | ||
matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt'; | ||
matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat'; | ||
matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none'; | ||
matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.hrv.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.movement.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.other.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.verbose.level = 2; | ||
matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = ''; | ||
matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false; |
40 changes: 40 additions & 0 deletions
40
PhysIO/examples/tapas_physio_example_biopac_txt_ppu3t_spm_job.m
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matlabbatch{1}.spm.tools.physio.save_dir = {'physio_out'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.vendor = 'Biopac_Txt'; | ||
matlabbatch{1}.spm.tools.physio.log_files.cardiac = {'Biopac_Physio_Data_Export.txt'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.respiration = {'Biopac_Physio_Data_Export.txt'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {'Biopac_Physio_Data_Export.txt'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = []; | ||
matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = 0; | ||
matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'last'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 36; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 3; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 0; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 100; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 18; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.scan_timing_log = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'ECG'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.min = 0.4; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.file = 'initial_cpulse_kRpeakfile.mat'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.max_heart_rate_bpm = 90; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.01 2]; | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false; | ||
matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt'; | ||
matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat'; | ||
matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none'; | ||
matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.hrv.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.movement.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.other.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.verbose.level = 2; | ||
matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = ''; | ||
matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false; |
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matlabbatch{1}.spm.tools.physio.save_dir = {'physio_out'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.vendor = 'GE'; | ||
matlabbatch{1}.spm.tools.physio.log_files.cardiac = {'ECGData_epiRT_phys_0921201215_38_08'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.respiration = {'RespData_epiRT_phys_0921201215_38_08'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {''}; | ||
matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = 0.025; | ||
matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = 0; | ||
matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'last'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 35; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = 35; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 1.925; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 0; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 434; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 17; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.nominal = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'PPU'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.min = 0.4; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.file = 'initial_cpulse_kRpeakfile.mat'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.max_heart_rate_bpm = 90; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.01 2]; | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false; | ||
matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt'; | ||
matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat'; | ||
matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none'; | ||
matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.hrv.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.movement.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.other.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.verbose.level = 2; | ||
matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = ''; | ||
matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false; |
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% Script tapas_physio_example_multi_subjects(input) | ||
% Shows how to generalize single-subject batch for all subjects | ||
% | ||
% | ||
% See also tapas_physio_new | ||
|
||
% Author: Lars Kasper | ||
% Created: 2015-07-31 | ||
% Copyright (C) 2015 TNU, Institute for Biomedical Engineering, | ||
% University of Zurich and ETH Zurich. | ||
% | ||
% This file is part of the TAPAS PhysIO Toolbox, which is released under the terms of the GNU General Public | ||
% License (GPL), version 3. You can redistribute it and/or modify it under the terms of the GPL | ||
% (either version 3 or, at your option, any later version). For further details, see the file | ||
% COPYING or <http://www.gnu.org/licenses/>. | ||
|
||
|
||
%% # MOD - Change parameters to your needs in this section %%%%%%%%%%%%%%%% | ||
|
||
% set 1 to look at batch, to 0 for running it for all subjects | ||
doReviewBatch = false; | ||
|
||
pathStudy = '/Users/kasperla/studies/physiotest'; | ||
|
||
dirSubjectArray = { | ||
'subject10' | ||
'subject11' | ||
}; | ||
|
||
pathStudy = '/Users/kasperla/Documents/code/matlab/smoothing_trunk/PhysIOToolbox/examples/Philips'; | ||
dirSubjectArray = { | ||
'ECG3T' | ||
'ECG3T' | ||
}; | ||
|
||
% folder, where multiple_regressors, physio.mat and output figures are saved, | ||
% typically analysis folder of the subject | ||
dirOutput = 'glm'; | ||
|
||
filePhysCardiac = 'SCANPHYSLOG.log'; | ||
filePhysRespiratory = 'SCANPHYSLOG.log'; | ||
fileRealignmentPar = 'rp_fmri.txt'; | ||
jobfile = 'tapas_physio_example_spm_job_ECG3T.m'; | ||
|
||
|
||
|
||
%% # END MOD Loop over subjects, filling in subject-specific data | ||
|
||
nSubjects = numel(dirSubjectArray); | ||
spm('defaults', 'FMRI'); | ||
|
||
for iSubject = 1:nSubjects | ||
|
||
% load template matlabbatch | ||
clear matlabbatch | ||
run(jobfile); | ||
physio = matlabbatch{1}.spm.tools.physio; | ||
|
||
% construct subject-specific data | ||
pathSubject = fullfile(pathStudy, dirSubjectArray{nSubjects}); | ||
fullpathFilePhysCardiac = fullfile(pathSubject, filePhysCardiac); | ||
fullpathFilePhysRespiratory = fullfile(pathSubject, filePhysRespiratory); | ||
fullpathFileRealignment = fullfile(pathSubject, fileRealignmentPar); | ||
|
||
% overwrite matlabbatch structure parameters | ||
physio.save_dir = {pathSubject}; | ||
physio.log_files.cardiac = {fullpathFilePhysCardiac}; | ||
physio.log_files.respiration = {fullpathFilePhysRespiratory}; | ||
physio.log_files.scan_timing = {}; | ||
|
||
physio.model.movement.yes.file_realignment_parameters = ... | ||
{fullpathFileRealignment}; | ||
|
||
% run/examine job for this subject | ||
matlabbatch{1}.spm.tools.physio = physio; | ||
|
||
if doReviewBatch | ||
spm_jobman('interactive', matlabbatch); | ||
else | ||
spm_jobman('run', matlabbatch); | ||
end | ||
end |
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45
PhysIO/examples/tapas_physio_example_philips_ecg3t_spm_job.m
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matlabbatch{1}.spm.tools.physio.save_dir = {'physio_out'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.vendor = 'Philips'; | ||
matlabbatch{1}.spm.tools.physio.log_files.cardiac = {'SCANPHYSLOG.log'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.respiration = {'SCANPHYSLOG.log'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {'SCANPHYSLOG.log'}; | ||
matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = []; | ||
matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = 0; | ||
matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'last'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 37; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 2.5; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 3; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 495; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 19; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.gradient_log.grad_direction = 'y'; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.gradient_log.zero = 0.4; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.gradient_log.slice = 0.45; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.gradient_log.vol = []; | ||
matlabbatch{1}.spm.tools.physio.scan_timing.sync.gradient_log.vol_spacing = []; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'ECG'; | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.load_from_logfile = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]); | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.01 2]; | ||
matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false; | ||
matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt'; | ||
matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat'; | ||
matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none'; | ||
matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4; | ||
matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1; | ||
matlabbatch{1}.spm.tools.physio.model.rvt.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.hrv.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.model.movement.yes.file_realignment_parameters = {'rp_fMRI.txt'}; | ||
matlabbatch{1}.spm.tools.physio.model.movement.yes.order = 6; | ||
matlabbatch{1}.spm.tools.physio.model.movement.yes.censoring_method = 'MAXVAL'; | ||
matlabbatch{1}.spm.tools.physio.model.movement.yes.censoring_threshold = [3 Inf]; | ||
matlabbatch{1}.spm.tools.physio.model.other.no = struct([]); | ||
matlabbatch{1}.spm.tools.physio.verbose.level = 2; | ||
matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = 'PhysIO_output.fig'; | ||
matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false; |
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