├── .circleci ├── config.yml ├── remove_examples.sh ├── run_dataset_and_copy_files.sh └── setup_bash.sh ├── .git-blame-ignore-revs ├── .git_archival.txt ├── .gitattributes ├── .github ├── config.yml ├── dependabot.yml ├── pull_request_template.md ├── release.yaml └── workflows │ ├── automerge.yml │ ├── autopush.yml │ ├── circleci-redirector.yml │ ├── release.yml │ └── tests.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CONTRIBUTING.md ├── LICENSE.txt ├── Makefile ├── README.md ├── codecov.yml ├── docs ├── build-docs.sh ├── hooks.py ├── mkdocs.yml ├── overrides │ └── main.html ├── source │ ├── .gitignore │ ├── assets │ │ ├── favicon.ico │ │ └── mne.svg │ ├── changes.md │ ├── css │ │ └── extra.css │ ├── dev.md.inc │ ├── examples │ │ └── gen_examples.py │ ├── features │ │ └── gen_steps.py │ ├── getting_started │ │ ├── basic_usage.md │ │ ├── freesurfer.md │ │ └── install.md │ ├── governance.md │ ├── index.md │ ├── javascripts │ │ └── tablesort.js │ ├── settings │ │ └── gen_settings.py │ ├── tags.md │ ├── v1.0.md.inc │ ├── v1.1.md.inc │ ├── v1.2.md.inc │ ├── v1.3.md.inc │ ├── v1.4.md.inc │ ├── v1.5.md.inc │ ├── v1.6.md.inc │ ├── v1.7.md.inc │ ├── v1.8.md.inc │ ├── v1.9.md.inc │ └── vX.Y.md.inc └── templates │ └── python │ └── material │ └── attribute.html.jinja ├── ignore_words.txt ├── mne_bids_pipeline ├── __init__.py ├── _config.py ├── _config_import.py ├── _config_template.py ├── _config_utils.py ├── _decoding.py ├── _docs.py ├── _download.py ├── _import_data.py ├── _io.py ├── _logging.py ├── _main.py ├── _parallel.py ├── _reject.py ├── _report.py ├── _run.py ├── _viz.py ├── steps │ ├── __init__.py │ ├── freesurfer │ │ ├── _01_recon_all.py │ │ ├── _02_coreg_surfaces.py │ │ ├── __init__.py │ │ └── contrib │ │ │ ├── LICENSE │ │ │ ├── README │ │ │ ├── run.py │ │ │ └── version │ ├── init │ │ ├── _01_init_derivatives_dir.py │ │ ├── _02_find_empty_room.py │ │ └── __init__.py │ ├── preprocessing │ │ ├── _01_data_quality.py │ │ ├── _02_head_pos.py │ │ ├── _03_maxfilter.py │ │ ├── _04_frequency_filter.py │ │ ├── _05_regress_artifact.py │ │ ├── _06a1_fit_ica.py │ │ ├── _06a2_find_ica_artifacts.py │ │ ├── _06b_run_ssp.py │ │ ├── _07_make_epochs.py │ │ ├── _08a_apply_ica.py │ │ ├── _08b_apply_ssp.py │ │ ├── _09_ptp_reject.py │ │ └── __init__.py │ ├── sensor │ │ ├── _01_make_evoked.py │ │ ├── _02_decoding_full_epochs.py │ │ ├── _03_decoding_time_by_time.py │ │ ├── _04_time_frequency.py │ │ ├── _05_decoding_csp.py │ │ ├── _06_make_cov.py │ │ ├── _99_group_average.py │ │ └── __init__.py │ └── source │ │ ├── _01_make_bem_surfaces.py │ │ ├── _02_make_bem_solution.py │ │ ├── _03_setup_source_space.py │ │ ├── _04_make_forward.py │ │ ├── _05_make_inverse.py │ │ ├── _99_group_average.py │ │ └── __init__.py ├── tests │ ├── __init__.py │ ├── configs │ │ ├── README.md │ │ ├── __init__.py │ │ ├── config_ERP_CORE.py │ │ ├── config_MNE_funloc_data.py │ │ ├── config_MNE_phantom_KIT_data.py │ │ ├── config_ds000117.py │ │ ├── config_ds000246.py │ │ ├── config_ds000247.py │ │ ├── config_ds000248_FLASH_BEM.py │ │ ├── config_ds000248_T1_BEM.py │ │ ├── config_ds000248_base.py │ │ ├── config_ds000248_coreg_surfaces.py │ │ ├── config_ds000248_ica.py │ │ ├── config_ds000248_no_mri.py │ │ ├── config_ds001810.py │ │ ├── config_ds001971.py │ │ ├── config_ds003104.py │ │ ├── config_ds003392.py │ │ ├── config_ds003775.py │ │ ├── config_ds004107.py │ │ ├── config_ds004229.py │ │ └── config_eeg_matchingpennies.py │ ├── conftest.py │ ├── datasets.py │ ├── ds000247_scans.tsv │ ├── ds001971_participants.tsv │ ├── freesurfer-license.txt │ ├── sub-010_ses-t1_scans.tsv │ ├── test_cli.py │ ├── test_documented.py │ ├── test_functions.py │ ├── test_run.py │ └── test_validation.py └── typing.py └── pyproject.toml /.circleci/config.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mne-tools/mne-bids-pipeline/HEAD/.circleci/config.yml 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