CircleCI update of dev docs (69973).

mne-tools · Dec 3, 2024 · 46505b4 · 46505b4
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diff --git a/dev/.buildinfo b/dev/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 1d00df5e4771852ab4a433b2849e59b5
+config: ab1b3ab7475fe6f8f83bd602821066b0
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/dev/_downloads/026dba7c40f82dd13c8dbe1e76d1c49b/eeg_on_scalp.zip b/dev/_downloads/026dba7c40f82dd13c8dbe1e76d1c49b/eeg_on_scalp.zip
diff --git a/dev/_downloads/02cf1be5b3ddec9678f6e2bdf213c3d8/10_background_freesurfer.zip b/dev/_downloads/02cf1be5b3ddec9678f6e2bdf213c3d8/10_background_freesurfer.zip
diff --git a/dev/_downloads/0523d380061e932f7195a51f01a94325/decoding_csp_eeg.zip b/dev/_downloads/0523d380061e932f7195a51f01a94325/decoding_csp_eeg.zip
diff --git a/dev/_downloads/0578d334ebb8e8884400c31a495013af/multi_dipole_model.zip b/dev/_downloads/0578d334ebb8e8884400c31a495013af/multi_dipole_model.zip
diff --git a/dev/_downloads/07dbd7ca99f60fd84f78f3bf43a9c430/20_cluster_1samp_spatiotemporal.zip b/dev/_downloads/07dbd7ca99f60fd84f78f3bf43a9c430/20_cluster_1samp_spatiotemporal.zip
diff --git a/dev/_downloads/07fcc19ba03226cd3d83d4e40ec44385/auto_examples_python.zip b/dev/_downloads/07fcc19ba03226cd3d83d4e40ec44385/auto_examples_python.zip
diff --git a/dev/_downloads/08ab668cce2b084c6559c3fb244a0041/80_fix_bem_in_blender.zip b/dev/_downloads/08ab668cce2b084c6559c3fb244a0041/80_fix_bem_in_blender.zip
diff --git a/dev/_downloads/0912ee7392c410218f2eccf5ccd7e04d/15_handling_bad_channels.zip b/dev/_downloads/0912ee7392c410218f2eccf5ccd7e04d/15_handling_bad_channels.zip
diff --git a/dev/_downloads/0d538b72403145478a5df61c17f8cea4/compute_csd.zip b/dev/_downloads/0d538b72403145478a5df61c17f8cea4/compute_csd.zip
diff --git a/dev/_downloads/0e53926b5699aad5bcf0e97b3e711a2b/xdawn_denoising.zip b/dev/_downloads/0e53926b5699aad5bcf0e97b3e711a2b/xdawn_denoising.zip
diff --git a/dev/_downloads/0f9245932e4f57533dec69f2e23c7d31/dics_source_power.zip b/dev/_downloads/0f9245932e4f57533dec69f2e23c7d31/dics_source_power.zip
diff --git a/dev/_downloads/10aa8b85452e5902ece9bc1b9d3cb443/80_brainstorm_phantom_elekta.zip b/dev/_downloads/10aa8b85452e5902ece9bc1b9d3cb443/80_brainstorm_phantom_elekta.zip
diff --git a/dev/_downloads/114052dc17a22b976328bfd7e3d8008e/epochs_metadata.zip b/dev/_downloads/114052dc17a22b976328bfd7e3d8008e/epochs_metadata.zip
diff --git a/dev/_downloads/11ea01d2fb3a6bf066076aecc9204f81/xhemi.zip b/dev/_downloads/11ea01d2fb3a6bf066076aecc9204f81/xhemi.zip
diff --git a/dev/_downloads/1242d47b65d952f9f80cf19fb9e5d76e/35_eeg_no_mri.ipynb b/dev/_downloads/1242d47b65d952f9f80cf19fb9e5d76e/35_eeg_no_mri.ipynb
@@ -33,7 +33,7 @@
       },
       "outputs": [],
       "source": [
-        "(raw_fname,) = eegbci.load_data(subjects=1, runs=[6])\nraw = mne.io.read_raw_edf(raw_fname, preload=True)\n\n# Clean channel names to be able to use a standard 1005 montage\nnew_names = dict(\n    (ch_name, ch_name.rstrip(\".\").upper().replace(\"Z\", \"z\").replace(\"FP\", \"Fp\"))\n    for ch_name in raw.ch_names\n)\nraw.rename_channels(new_names)\n\n# Read and set the EEG electrode locations, which are already in fsaverage's\n# space (MNI space) for standard_1020:\nmontage = mne.channels.make_standard_montage(\"standard_1005\")\nraw.set_montage(montage)\nraw.set_eeg_reference(projection=True)  # needed for inverse modeling\n\n# Check that the locations of EEG electrodes is correct with respect to MRI\nmne.viz.plot_alignment(\n    raw.info,\n    src=src,\n    eeg=[\"original\", \"projected\"],\n    trans=trans,\n    show_axes=True,\n    mri_fiducials=True,\n    dig=\"fiducials\",\n)"
+        "(raw_fname,) = eegbci.load_data(subjects=1, runs=[6])\nraw = mne.io.read_raw_edf(raw_fname, preload=True)\n\n# Clean channel names to be able to use a standard 1005 montage\neegbci.standardize(raw)\n\n# Read and set the EEG electrode locations, which are already in fsaverage's\n# space (MNI space) for standard_1020:\nmontage = mne.channels.make_standard_montage(\"standard_1005\")\nraw.set_montage(montage)\nraw.set_eeg_reference(projection=True)  # needed for inverse modeling\n\n# Check that the locations of EEG electrodes is correct with respect to MRI\nmne.viz.plot_alignment(\n    raw.info,\n    src=src,\n    eeg=[\"original\", \"projected\"],\n    trans=trans,\n    show_axes=True,\n    mri_fiducials=True,\n    dig=\"fiducials\",\n)"
       ]
     },
     {

diff --git a/dev/_downloads/124c28fc1534f484880d98cb19fb3745/evoked_topomap.zip b/dev/_downloads/124c28fc1534f484880d98cb19fb3745/evoked_topomap.zip
diff --git a/dev/_downloads/132ef04aec6eceaa644422bd14d914d0/30_strf.zip b/dev/_downloads/132ef04aec6eceaa644422bd14d914d0/30_strf.zip
diff --git a/dev/_downloads/13cef42ecbb48b6558fafba87d6d5e15/compute_mne_inverse_raw_in_label.zip b/dev/_downloads/13cef42ecbb48b6558fafba87d6d5e15/compute_mne_inverse_raw_in_label.zip
diff --git a/dev/_downloads/14b88083a9665fd7d197ec4da4909998/60_visualize_stc.zip b/dev/_downloads/14b88083a9665fd7d197ec4da4909998/60_visualize_stc.zip
diff --git a/dev/_downloads/15fcdfe6713b0de7e9193735fa8e3326/cluster_stats_evoked.zip b/dev/_downloads/15fcdfe6713b0de7e9193735fa8e3326/cluster_stats_evoked.zip
diff --git a/dev/_downloads/176fb5f23743764e5e89c48310227efa/read_noise_covariance_matrix.zip b/dev/_downloads/176fb5f23743764e5e89c48310227efa/read_noise_covariance_matrix.zip
diff --git a/dev/_downloads/18d97cd3fffa515d634eccf0fa7463d8/muscle_ica.zip b/dev/_downloads/18d97cd3fffa515d634eccf0fa7463d8/muscle_ica.zip
diff --git a/dev/_downloads/1b0a24dc48056481602ceb47d3c51472/20_erp_stats.zip b/dev/_downloads/1b0a24dc48056481602ceb47d3c51472/20_erp_stats.zip
diff --git a/dev/_downloads/1f772df4c69aa646b7ab05ecd6973f9f/opm_data.zip b/dev/_downloads/1f772df4c69aa646b7ab05ecd6973f9f/opm_data.zip
diff --git a/dev/_downloads/2062291ff333a21a58c4380a2e76608b/mne_cov_power.zip b/dev/_downloads/2062291ff333a21a58c4380a2e76608b/mne_cov_power.zip
diff --git a/dev/_downloads/209129e1a4a0aaa0c44d0c33d04aab07/meg_sensors.zip b/dev/_downloads/209129e1a4a0aaa0c44d0c33d04aab07/meg_sensors.zip
diff --git a/dev/_downloads/2101a37b001dcecde01881e3d2a03284/source_space_morphing.zip b/dev/_downloads/2101a37b001dcecde01881e3d2a03284/source_space_morphing.zip
diff --git a/dev/_downloads/21beec4b998cf221479485310f05e95e/channel_epochs_image.zip b/dev/_downloads/21beec4b998cf221479485310f05e95e/channel_epochs_image.zip
diff --git a/dev/_downloads/21eaf8da9f1e3cf45ca2926ba74908a7/brain.zip b/dev/_downloads/21eaf8da9f1e3cf45ca2926ba74908a7/brain.zip
diff --git a/dev/_downloads/22abda5cc6b6a4578a0bc676a8af240a/decoding_unsupervised_spatial_filter.zip b/dev/_downloads/22abda5cc6b6a4578a0bc676a8af240a/decoding_unsupervised_spatial_filter.zip
diff --git a/dev/_downloads/23bbc8f84db157bad91a26c97c9bb140/60_cluster_rmANOVA_spatiotemporal.zip b/dev/_downloads/23bbc8f84db157bad91a26c97c9bb140/60_cluster_rmANOVA_spatiotemporal.zip
diff --git a/dev/_downloads/2491b116d19d4ff787e0124e44f99b97/70_cluster_rmANOVA_time_freq.zip b/dev/_downloads/2491b116d19d4ff787e0124e44f99b97/70_cluster_rmANOVA_time_freq.zip
diff --git a/dev/_downloads/24d7423f355eb7d2714470bf73ed699e/50_epochs_to_data_frame.zip b/dev/_downloads/24d7423f355eb7d2714470bf73ed699e/50_epochs_to_data_frame.zip
diff --git a/dev/_downloads/24e558bbd075756b5991fdb479c8a6f9/roi_erpimage_by_rt.zip b/dev/_downloads/24e558bbd075756b5991fdb479c8a6f9/roi_erpimage_by_rt.zip
diff --git a/dev/_downloads/27527bed1920c1500e546cf408e7c9a9/40_artifact_correction_ica.zip b/dev/_downloads/27527bed1920c1500e546cf408e7c9a9/40_artifact_correction_ica.zip
diff --git a/dev/_downloads/280dcbe1e4f0d0cd0a74af7136b74080/read_xdf.zip b/dev/_downloads/280dcbe1e4f0d0cd0a74af7136b74080/read_xdf.zip
diff --git a/dev/_downloads/298ce5c4785f3bdc910e7f44e7e4ef9c/10_array_objs.zip b/dev/_downloads/298ce5c4785f3bdc910e7f44e7e4ef9c/10_array_objs.zip
diff --git a/dev/_downloads/29f02e9894de010e2674b20ba137b35b/simulate_raw_data.zip b/dev/_downloads/29f02e9894de010e2674b20ba137b35b/simulate_raw_data.zip
diff --git a/dev/_downloads/2b6b75dcc7ad69de9bee7902c97280c5/95_phantom_KIT.zip b/dev/_downloads/2b6b75dcc7ad69de9bee7902c97280c5/95_phantom_KIT.zip
diff --git a/dev/_downloads/2bed11730735963926f25198a73319a4/dics_epochs.zip b/dev/_downloads/2bed11730735963926f25198a73319a4/dics_epochs.zip
diff --git a/dev/_downloads/2dab62878555c7ee97836ae2ad20e63f/source_power_spectrum_opm.zip b/dev/_downloads/2dab62878555c7ee97836ae2ad20e63f/source_power_spectrum_opm.zip
diff --git a/dev/_downloads/2dbf04a8bcff70f4617098570490d94c/15_baseline_regression.zip b/dev/_downloads/2dbf04a8bcff70f4617098570490d94c/15_baseline_regression.zip
diff --git a/dev/_downloads/2e0c8185be4ca365aea8dbac1b22a19d/find_ref_artifacts.zip b/dev/_downloads/2e0c8185be4ca365aea8dbac1b22a19d/find_ref_artifacts.zip
diff --git a/dev/_downloads/31291a7e35d5e25958a9521e669396d8/temporal_whitening.zip b/dev/_downloads/31291a7e35d5e25958a9521e669396d8/temporal_whitening.zip
diff --git a/dev/_downloads/3308649bf2a5fe41b018fb29ceb2aa75/20_visualize_epochs.zip b/dev/_downloads/3308649bf2a5fe41b018fb29ceb2aa75/20_visualize_epochs.zip
diff --git a/dev/_downloads/33b783f59964f3b4ae1891b7c0bbe76e/topo_customized.zip b/dev/_downloads/33b783f59964f3b4ae1891b7c0bbe76e/topo_customized.zip
diff --git a/dev/_downloads/33bffe2ab0070e7c72d43b2a215eb256/mixed_norm_inverse.zip b/dev/_downloads/33bffe2ab0070e7c72d43b2a215eb256/mixed_norm_inverse.zip
diff --git a/dev/_downloads/3455a0b623abee20f14fd83522664424/movement_compensation.zip b/dev/_downloads/3455a0b623abee20f14fd83522664424/movement_compensation.zip
diff --git a/dev/_downloads/35041203343b7d3602af0b393782438e/80_opm_processing.zip b/dev/_downloads/35041203343b7d3602af0b393782438e/80_opm_processing.zip
diff --git a/dev/_downloads/367f0df4ad9566d5055182cd4cf45a43/forward_sensitivity_maps.zip b/dev/_downloads/367f0df4ad9566d5055182cd4cf45a43/forward_sensitivity_maps.zip
diff --git a/dev/_downloads/36ad7dc3b76a79cadfd35e7d94d6c0f1/snr_estimate.zip b/dev/_downloads/36ad7dc3b76a79cadfd35e7d94d6c0f1/snr_estimate.zip
diff --git a/dev/_downloads/380c9331b37396105eaf5c2ceaf2feb8/60_maxwell_filtering_sss.zip b/dev/_downloads/380c9331b37396105eaf5c2ceaf2feb8/60_maxwell_filtering_sss.zip
diff --git a/dev/_downloads/38a9fd088b9c6dc413b1c088b7d481fa/25_background_filtering.zip b/dev/_downloads/38a9fd088b9c6dc413b1c088b7d481fa/25_background_filtering.zip
diff --git a/dev/_downloads/3a805b41afea57ebaea280d01cd2d200/source_power_spectrum.zip b/dev/_downloads/3a805b41afea57ebaea280d01cd2d200/source_power_spectrum.zip
diff --git a/dev/_downloads/3b2f5a68e63624474f001b965478253b/20_rejecting_bad_data.zip b/dev/_downloads/3b2f5a68e63624474f001b965478253b/20_rejecting_bad_data.zip
diff --git a/dev/_downloads/3cb23ad4d9386d2c2afeaf65aa8fe447/psf_ctf_label_leakage.zip b/dev/_downloads/3cb23ad4d9386d2c2afeaf65aa8fe447/psf_ctf_label_leakage.zip
diff --git a/dev/_downloads/3ff7a67820dd24695ef8dd58e9ba098e/35_eeg_no_mri.zip b/dev/_downloads/3ff7a67820dd24695ef8dd58e9ba098e/35_eeg_no_mri.zip
diff --git a/dev/_downloads/40fb426f471d84efd14892632c39b36b/rap_music.zip b/dev/_downloads/40fb426f471d84efd14892632c39b36b/rap_music.zip
diff --git a/dev/_downloads/42be32944415ebca28cf4e7dcd8fb0c9/source_simulator.zip b/dev/_downloads/42be32944415ebca28cf4e7dcd8fb0c9/source_simulator.zip
diff --git a/dev/_downloads/4343cd20f9b87ff500be0312900e150d/30_epochs_metadata.zip b/dev/_downloads/4343cd20f9b87ff500be0312900e150d/30_epochs_metadata.zip
diff --git a/dev/_downloads/443cff2d5593347b07e4980593f19c2d/35_artifact_correction_regression.zip b/dev/_downloads/443cff2d5593347b07e4980593f19c2d/35_artifact_correction_regression.zip
diff --git a/dev/_downloads/44d49ad3cb0c4d433f1253ad7dce1143/sensor_regression.zip b/dev/_downloads/44d49ad3cb0c4d433f1253ad7dce1143/sensor_regression.zip
diff --git a/dev/_downloads/44dff2a6563cbb26d0eb5118a36af2b1/eog_regression.zip b/dev/_downloads/44dff2a6563cbb26d0eb5118a36af2b1/eog_regression.zip
diff --git a/dev/_downloads/46897a1f2cad35269c25c685caac4f4b/vector_mne_solution.zip b/dev/_downloads/46897a1f2cad35269c25c685caac4f4b/vector_mne_solution.zip
diff --git a/dev/_downloads/4726ce22836f018022970d7eff07f389/decoding_time_generalization_conditions.zip b/dev/_downloads/4726ce22836f018022970d7eff07f389/decoding_time_generalization_conditions.zip
diff --git a/dev/_downloads/474890d44ae12ac810c7558a426bce47/time_frequency_global_field_power.zip b/dev/_downloads/474890d44ae12ac810c7558a426bce47/time_frequency_global_field_power.zip
diff --git a/dev/_downloads/47800e1594e578b313b738641a748c24/20_reading_eeg_data.zip b/dev/_downloads/47800e1594e578b313b738641a748c24/20_reading_eeg_data.zip
diff --git a/dev/_downloads/4897de481d0bb1452c044609a71698cd/30_filtering_resampling.zip b/dev/_downloads/4897de481d0bb1452c044609a71698cd/30_filtering_resampling.zip
diff --git a/dev/_downloads/4a09f776e23171b4a3b6eef33b3d7712/topo_compare_conditions.zip b/dev/_downloads/4a09f776e23171b4a3b6eef33b3d7712/topo_compare_conditions.zip
diff --git a/dev/_downloads/4a63cbb104a9262aad434cc582453975/mne_helmet.zip b/dev/_downloads/4a63cbb104a9262aad434cc582453975/mne_helmet.zip
diff --git a/dev/_downloads/4b971c508ae67cd8f7c494b209000e0e/10_overview.zip b/dev/_downloads/4b971c508ae67cd8f7c494b209000e0e/10_overview.zip
diff --git a/dev/_downloads/51d992e8b745a9058c2a7c3bf2b649c0/evoked_arrowmap.zip b/dev/_downloads/51d992e8b745a9058c2a7c3bf2b649c0/evoked_arrowmap.zip
diff --git a/dev/_downloads/53e6100b0240035551268af697098d6d/decoding_spoc_CMC.zip b/dev/_downloads/53e6100b0240035551268af697098d6d/decoding_spoc_CMC.zip
diff --git a/dev/_downloads/55097430b88d390a6b239776031423ec/50_beamformer_lcmv.zip b/dev/_downloads/55097430b88d390a6b239776031423ec/50_beamformer_lcmv.zip
diff --git a/dev/_downloads/560ef534f446dd9235bb1aa4ac8f282c/ssp_projs_sensitivity_map.zip b/dev/_downloads/560ef534f446dd9235bb1aa4ac8f282c/ssp_projs_sensitivity_map.zip
diff --git a/dev/_downloads/5683f2a10a6863030a88b895fe5c764e/custom_inverse_solver.zip b/dev/_downloads/5683f2a10a6863030a88b895fe5c764e/custom_inverse_solver.zip
diff --git a/dev/_downloads/5795c46f650fba4cbcbd07e5eb413b28/virtual_evoked.zip b/dev/_downloads/5795c46f650fba4cbcbd07e5eb413b28/virtual_evoked.zip
diff --git a/dev/_downloads/57deb5252b1365c26ca4199a4a06f363/70_reading_eyetracking_data.zip b/dev/_downloads/57deb5252b1365c26ca4199a4a06f363/70_reading_eyetracking_data.zip
diff --git a/dev/_downloads/596a381ac96ec4f044bb1ab8e82bad55/80_dics.zip b/dev/_downloads/596a381ac96ec4f044bb1ab8e82bad55/80_dics.zip
diff --git a/dev/_downloads/5a7e52a7b5eb82ccbd65e1214b187dc7/ssd_spatial_filters.zip b/dev/_downloads/5a7e52a7b5eb82ccbd65e1214b187dc7/ssd_spatial_filters.zip
diff --git a/dev/_downloads/5c13a45c3b4092575b84a50128fca878/20_ui_events.zip b/dev/_downloads/5c13a45c3b4092575b84a50128fca878/20_ui_events.zip
diff --git a/dev/_downloads/5d33befc0a58f5a5b3419bbeb5f0ff54/time_frequency_mixed_norm_inverse.zip b/dev/_downloads/5d33befc0a58f5a5b3419bbeb5f0ff54/time_frequency_mixed_norm_inverse.zip
diff --git a/dev/_downloads/5d70998411a5a9b1885556d8dbd3589f/35_eeg_no_mri.py b/dev/_downloads/5d70998411a5a9b1885556d8dbd3589f/35_eeg_no_mri.py
@@ -39,7 +39,7 @@
 src = fs_dir / "bem" / "fsaverage-ico-5-src.fif"
 bem = fs_dir / "bem" / "fsaverage-5120-5120-5120-bem-sol.fif"
 
-##############################################################################
+# %%
 # Load the data
 # ^^^^^^^^^^^^^
 #
@@ -52,11 +52,7 @@
 raw = mne.io.read_raw_edf(raw_fname, preload=True)
 
 # Clean channel names to be able to use a standard 1005 montage
-new_names = dict(
-    (ch_name, ch_name.rstrip(".").upper().replace("Z", "z").replace("FP", "Fp"))
-    for ch_name in raw.ch_names
-)
-raw.rename_channels(new_names)
+eegbci.standardize(raw)
 
 # Read and set the EEG electrode locations, which are already in fsaverage's
 # space (MNI space) for standard_1020:
@@ -75,7 +71,7 @@
     dig="fiducials",
 )
 
-##############################################################################
+# %%
 # Setup source space and compute forward
 # ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
 
@@ -84,7 +80,7 @@
 )
 fwd
 
-##############################################################################
+# %%
 # From here on, standard inverse imaging methods can be used!
 #
 # Infant MRI surrogates
@@ -96,15 +92,15 @@
 info = mne.create_info(ch_names, 1000.0, "eeg")
 raw = mne.io.RawArray(data, info)
 
-##############################################################################
+# %%
 # Get an infant MRI template
 # ^^^^^^^^^^^^^^^^^^^^^^^^^^
 # To use an infant head model for M/EEG data, you can use
 # :func:`mne.datasets.fetch_infant_template` to download an infant template:
 
 subject = mne.datasets.fetch_infant_template("6mo", subjects_dir, verbose=True)
 
-##############################################################################
+# %%
 # It comes with several helpful built-in files, including a 10-20 montage
 # in the MRI coordinate frame, which can be used to compute the
 # MRI<->head transform ``trans``:
@@ -115,7 +111,7 @@
 raw.set_montage(mon)
 print(trans)
 
-##############################################################################
+# %%
 # There are also BEM and source spaces:
 
 bem_dir = subjects_dir / subject / "bem"
@@ -125,7 +121,7 @@
 fname_bem = bem_dir / f"{subject}-5120-5120-5120-bem-sol.fif"
 bem = mne.read_bem_solution(fname_bem)
 
-##############################################################################
+# %%
 # You can ensure everything is as expected by plotting the result:
 fig = mne.viz.plot_alignment(
     raw.info,
@@ -141,7 +137,7 @@
 )
 mne.viz.set_3d_view(fig, 25, 70, focalpoint=[0, -0.005, 0.01])
 
-##############################################################################
+# %%
 # From here, standard forward and inverse operators can be computed
 #
 # If you have digitized head positions or MEG data, consider using

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