U f{j@s\dZddlZddlZddlZddlmZddlmZmZed ddZ ddZ ej dS) a~ Create mne report for a folder. Examples -------- Before getting started with ``mne report``, make sure the files you want to render follow the filename conventions defined by MNE: .. highlight:: console .. cssclass:: table-bordered .. rst-class:: midvalign ============ ============================================================== Data object Filename convention (ends with) ============ ============================================================== raw -raw.fif(.gz), -raw_sss.fif(.gz), -raw_tsss.fif(.gz), _meg.fif(.gz), _eeg.fif(.gz), _ieeg.fif(.gz) events -eve.fif(.gz) epochs -epo.fif(.gz) evoked -ave.fif(.gz) covariance -cov.fif(.gz) trans -trans.fif(.gz) forward -fwd.fif(.gz) inverse -inv.fif(.gz) ============ ============================================================== To generate a barebones report from all the \*.fif files in the sample dataset, invoke the following command in a system (e.g., Bash) shell:: $ mne report --path MNE-sample-data/ --verbose On successful creation of the report, it will open the HTML in a new tab in the browser. To disable this, use the ``--no-browser`` option. TO generate a report for a single subject, give the ``SUBJECT`` name and the ``SUBJECTS_DIR`` and this will generate the MRI slices (with BEM contours overlaid on top if available):: $ mne report --path MNE-sample-data/ --subject sample --subjects-dir \ MNE-sample-data/subjects --verbose To properly render ``trans`` and ``covariance`` files, add the measurement information:: $ mne report --path MNE-sample-data/ \ --info MNE-sample-data/MEG/sample/sample_audvis-ave.fif \ --subject sample --subjects-dir MNE-sample-data/subjects --verbose To render whitened ``evoked`` files with baseline correction, add the noise covariance file:: $ mne report --path MNE-sample-data/ \ --info MNE-sample-data/MEG/sample/sample_audvis-ave.fif \ --cov MNE-sample-data/MEG/sample/sample_audvis-cov.fif --bmax 0 \ --subject sample --subjects-dir MNE-sample-data/subjects --verbose To generate the report in parallel:: $ mne report --path MNE-sample-data/ \ --info MNE-sample-data/MEG/sample/sample_audvis-ave.fif \ --subject sample --subjects-dir MNE-sample-data/subjects \ --verbose --jobs 6 For help on all the available options, do:: $ mne report --help N)Report)verboseloggercCstdt|ddS)zLog elapsed time.zReport complete in %s secondsN)rinforound)trr V/var/www/html/bwave/python/venv/lib/python3.8/site-packages/mne/commands/mne_report.py log_elapsedNsr c CsZddlm}m}|t}|jddddd|jdd d d d d |jddddd d |jddddd|jddddd|jddddd|jddd d!d|jd"d#d$d%d&|jd'd(d$d)d&|jd*d+d,d-d|jd.d/d0d1d2d3d4|jd5d6d7d8d9d4|||\}}|j}|dkr0|t d:|j }|j }|j }|j } |j} t|j} |jdk rhd;nd<} |jdk r|dtt|| d?|j| |d@dS)Az Run command.r) get_optparser_add_verbose_flagz-pz--pathpathz-Path to folder who MNE-Report must be created)desthelpz-iz--info info_fnamez-File from which info dictionary is to be readFILE)rrmetavarz-cz--cov cov_fnamez.File from which noise covariance is to be readz--bminbminz4Time at which baseline correction starts for evokedsN)rrdefaultz--bmaxbmaxz3Time at which baseline correction stops for evokedsz-dz--subjects-dir subjects_dirzThe subjects directoryz-sz --subjectsubjectzThe subject namez --no-browser no_browser store_falsez!Do not open MNE-Report in browser)ractionrz --overwrite overwritez*Overwrite html report if it already existsz-jz--jobsn_jobsz!Number of jobs to run in parallelz-mz --mri-decimint mri_decimz)Integer factor used to decimate BEM plots)typerrrz--image-formatstr image_formatZpngz+Image format to use (can be 'png' or 'svg')rTF)rrbaselinerrr$)rrr )r) open_browserr)Zmne.commands.utilsr r __file__ add_option parse_argsr print_helpsysexitrrrrr$rr rrrrrfloatrtimerZ parse_folderr save)r r parseroptionsargsrrrrrr$r rr&rrrrr%t0reportr r r runTs              r5)N) __doc__r+r.ZmneZ mne.reportrZ mne.utilsrrr r5utilsZrun_command_if_mainr r r r sD  I