Index

Symbols

--all-methods megaqc-routes command line option, [1] --cert <cert> megaqc-run command line option, [1] --debugger megaqc-run command line option, [1] --eager-loading megaqc-run command line option, [1] --extra-files <extra_files> megaqc-run command line option, [1] --host <host> megaqc-run command line option, [1] --key <key> megaqc-run command line option, [1] --lazy-loader megaqc-run command line option, [1] --no-debugger megaqc-run command line option, [1] --no-reload megaqc-run command line option, [1]

--port <port> megaqc-run command line option, [1] --reload megaqc-run command line option, [1] --sort <sort> megaqc-routes command line option, [1] --version megaqc command line option, [1] --with-threads megaqc-run command line option, [1] --without-threads megaqc-run command line option, [1] -h megaqc-run command line option, [1] -p megaqc-run command line option, [1] -s megaqc-routes command line option, [1]

A

about() (in module megaqc.public.views) active (megaqc.user.forms.AdminForm attribute) (megaqc.user.models.User attribute) add_operator() (in module megaqc.rest_api.filters) ADMIN (megaqc.rest_api.utils.Permission attribute) admin() (in module megaqc.public.views) admin_add_users() (in module megaqc.api.views)

admin_delete_users() (in module megaqc.api.views) admin_update_users() (in module megaqc.api.views) AdminForm (class in megaqc.user.forms) aggregate_new_parameters() (in module megaqc.api.utils) api_perms() (in module megaqc.rest_api.utils) api_token (megaqc.user.models.User attribute) APP_DIR (megaqc.settings.Config attribute)

B

build_filter() (in module megaqc.api.utils)

build_filter_query() (in module megaqc.rest_api.filters)

C

CACHE_TYPE (megaqc.settings.Config attribute) (megaqc.settings.DevConfig attribute) category_name (megaqc.model.models.PlotCategory attribute) change_password() (in module megaqc.user.views) check_admin() (in module megaqc.api.views) check_password() (megaqc.user.models.User method) check_user() (in module megaqc.api.views) choose_plot_type() (in module megaqc.public.views) comparisons() (in module megaqc.public.views) concat_clauses() (in module megaqc.rest_api.filters) Config (class in megaqc.settings) config_dataset (megaqc.model.models.PlotConfig attribute) config_id (megaqc.model.models.PlotCategory attribute) (megaqc.model.models.PlotConfig attribute) (megaqc.model.models.PlotData attribute) config_name (megaqc.model.models.PlotConfig attribute) config_translate() (in module megaqc.api.utils) config_type (megaqc.model.models.PlotConfig attribute)

confirm (megaqc.user.forms.PasswordChangeForm attribute) (megaqc.user.forms.RegisterForm attribute) ControlLimitSchema (class in megaqc.rest_api.schemas) count_queued_uploads() (in module megaqc.api.views) count_samples() (in module megaqc.api.views) create() (megaqc.database.CRUDMixin class method) create_app() (in module megaqc.app) create_dashboard() (in module megaqc.public.views) create_megaqc_app() (in module megaqc.cli) create_object() (megaqc.rest_api.views.UserList method) created_at (megaqc.model.models.Dashboard attribute) (megaqc.model.models.PlotFavourite attribute) (megaqc.model.models.Report attribute) (megaqc.model.models.Upload attribute) (megaqc.user.models.User attribute) CRUDMixin (class in megaqc.database) csrf (megaqc.user.forms.RegisterForm.Meta attribute) CurrentUser (class in megaqc.rest_api.views)

D

Dashboard (class in megaqc.model.models) (class in megaqc.rest_api.views) dashboard_id (megaqc.model.models.Dashboard attribute) DashboardList (class in megaqc.rest_api.views) DashboardRelationship (class in megaqc.rest_api.views) dashboards (megaqc.user.models.User attribute) DashboardSchema (class in megaqc.rest_api.schemas) DashboardSchema.Meta (class in megaqc.rest_api.schemas) data (megaqc.model.models.Dashboard attribute) (megaqc.model.models.PlotCategory attribute) (megaqc.model.models.PlotConfig attribute) (megaqc.model.models.PlotData attribute) (megaqc.model.models.PlotFavourite attribute) (megaqc.model.models.Sample attribute) data_id (megaqc.model.models.SampleDataType attribute) data_key (megaqc.model.models.SampleDataType attribute) data_layer (megaqc.rest_api.views.CurrentUser attribute) (megaqc.rest_api.views.Dashboard attribute) (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataType attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlot attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FavouritePlotRelationship attribute) (megaqc.rest_api.views.Filter attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.FilterRelationship attribute) (megaqc.rest_api.views.Report attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaRelationship attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.ReportRelationship attribute) (megaqc.rest_api.views.Sample attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleDataRelationship attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.SampleRelationship attribute) (megaqc.rest_api.views.Upload attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UploadRelationship attribute) (megaqc.rest_api.views.User attribute) (megaqc.rest_api.views.UserList attribute) (megaqc.rest_api.views.UserRelationship attribute) data_section (megaqc.model.models.SampleDataType attribute) data_type (megaqc.model.models.SampleData attribute) DataType (class in megaqc.rest_api.views) DataTypeList (class in megaqc.rest_api.views) DB_NAME (megaqc.settings.DevConfig attribute) (megaqc.settings.TestConfig attribute)

DB_PATH (megaqc.settings.Config attribute) (megaqc.settings.DevConfig attribute) (megaqc.settings.TestConfig attribute) DEBUG (megaqc.settings.DevConfig attribute) (megaqc.settings.ProdConfig attribute) (megaqc.settings.TestConfig attribute) DEBUG_TB_ENABLED (megaqc.settings.Config attribute) (megaqc.settings.DevConfig attribute) (megaqc.settings.ProdConfig attribute) (megaqc.settings.TestConfig attribute) DEBUG_TB_INTERCEPT_REDIRECTS (megaqc.settings.Config attribute) decorators (megaqc.rest_api.views.CurrentUser attribute) (megaqc.rest_api.views.Dashboard attribute) (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataType attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlot attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FavouritePlotRelationship attribute) (megaqc.rest_api.views.Filter attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.FilterRelationship attribute) (megaqc.rest_api.views.Report attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaRelationship attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.ReportRelationship attribute) (megaqc.rest_api.views.Sample attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleDataRelationship attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.SampleRelationship attribute) (megaqc.rest_api.views.TrendSeries attribute) (megaqc.rest_api.views.Upload attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UploadRelationship attribute) (megaqc.rest_api.views.User attribute) (megaqc.rest_api.views.UserList attribute) (megaqc.rest_api.views.UserRelationship attribute) delete() (megaqc.database.CRUDMixin method) (megaqc.rest_api.views.PermissionsMixin method) delete_dashboard() (in module megaqc.api.views) delete_plot_favourite() (in module megaqc.api.views) delete_report() (in module megaqc.api.views) delete_report_data() (in module megaqc.api.utils) description (megaqc.model.models.PlotFavourite attribute) DevConfig (class in megaqc.settings) distributions() (in module megaqc.public.views)

E

edit_filters() (in module megaqc.public.views) edit_reports() (in module megaqc.public.views) email (megaqc.user.forms.AdminForm attribute) (megaqc.user.forms.RegisterForm attribute) (megaqc.user.models.User attribute)

encode_to_numeric() (in module megaqc.rest_api.plot) enforce_admin() (megaqc.user.models.User method) ENV (megaqc.settings.DevConfig attribute) (megaqc.settings.ProdConfig attribute) EXTRA_CONFIG (megaqc.settings.Config attribute) extract_query_data() (in module megaqc.rest_api.plot)

F

fav_users (megaqc.model.models.PlotConfig attribute) favourite_plotconfigs (megaqc.user.models.User attribute) favourite_plots (megaqc.user.models.User attribute) FavouritePlot (class in megaqc.rest_api.views) FavouritePlotList (class in megaqc.rest_api.views) FavouritePlotRelationship (class in megaqc.rest_api.views) FavouritePlotSchema (class in megaqc.rest_api.schemas) FavouritePlotSchema.Meta (class in megaqc.rest_api.schemas) Filter (class in megaqc.rest_api.views) filter_json() (megaqc.model.models.SampleFilter property) FilterGroupList (class in megaqc.rest_api.views) FilterGroupSchema (class in megaqc.rest_api.schemas)

FilterGroupSchema.Meta (class in megaqc.rest_api.schemas) FilterList (class in megaqc.rest_api.views) FilterObjectSchema (class in megaqc.rest_api.schemas) FilterReference (class in megaqc.rest_api.fields) FilterRelationship (class in megaqc.rest_api.views) filters (megaqc.user.models.User attribute) first_name (megaqc.user.forms.AdminForm attribute) (megaqc.user.forms.RegisterForm attribute) (megaqc.user.models.User attribute) flash_errors() (in module megaqc.utils) flatten_dicts() (in module megaqc.rest_api.content) full_name (megaqc.user.models.User attribute)

G

generate_comparison_plot() (in module megaqc.api.utils) generate_distribution_plot() (in module megaqc.api.utils) generate_hash() (in module megaqc.api.utils) generate_report_plot() (in module megaqc.api.utils) generate_trend_plot() (in module megaqc.api.utils) get() (megaqc.rest_api.views.CurrentUser method) (megaqc.rest_api.views.PermissionsMixin method) (megaqc.rest_api.views.TrendSeries method) (megaqc.rest_api.views.UserList method) get_by_id() (megaqc.database.SurrogatePK class method) get_collection() (megaqc.rest_api.views.FilterGroupList method) (megaqc.rest_api.views.ReportMetaTypeList method) get_comparison_plot() (in module megaqc.api.views) get_dashboard() (in module megaqc.api.views) get_dashboard_data() (in module megaqc.api.utils) get_dashboards() (in module megaqc.api.utils) get_distribution_plot() (in module megaqc.api.views) get_favourite_plot() (in module megaqc.api.views) get_favourite_plot_data() (in module megaqc.api.utils) get_filter_from_data() (in module megaqc.api.utils) get_filters() (in module megaqc.api.views) get_id() (megaqc.user.models.User method) get_keys() (megaqc.model.models.ReportMeta class method) (megaqc.model.models.SampleDataType class method) get_or_create() (megaqc.database.CRUDMixin class method)

get_outliers() (megaqc.rest_api.outlier.GrubbsDetector method) (megaqc.rest_api.outlier.OutlierDetector method) (megaqc.rest_api.outlier.ZScoreDetector method) get_plot_favourites() (in module megaqc.api.utils) get_plot_types() (in module megaqc.api.utils) get_queued_uploads() (in module megaqc.api.utils) get_report_metadata_fields() (in module megaqc.api.utils) get_report_plot() (in module megaqc.api.views) get_reports() (in module megaqc.api.views) get_reports_data() (in module megaqc.api.utils) get_resource_links() (megaqc.rest_api.schemas.OptionalLinkSchema method) get_sample_data() (in module megaqc.api.views) get_sample_fields_values() (in module megaqc.api.utils) get_sample_meta_fields() (in module megaqc.api.views) get_sample_metadata_fields() (in module megaqc.api.utils) get_samples() (in module megaqc.api.utils) get_samples_per_report() (in module megaqc.api.views) get_schema_kwargs() (megaqc.rest_api.views.UploadList method) (megaqc.rest_api.views.UserList method) get_timeline_sample_data() (in module megaqc.api.utils) get_trend_plot() (in module megaqc.api.views) get_unique_filename() (in module megaqc.rest_api.utils) get_upload_dir() (in module megaqc.rest_api.utils) get_user_filters() (in module megaqc.api.utils) GrubbsDetector (class in megaqc.rest_api.outlier)

H

handle_multiqc_data() (in module megaqc.api.views)

handle_report_data() (in module megaqc.api.utils) home() (in module megaqc.public.views)

I

id (megaqc.database.SurrogatePK attribute) init_db() (in module megaqc.database) init_scheduler() (in module megaqc.scheduler) is_active() (megaqc.user.models.User method) is_admin (megaqc.user.forms.AdminForm attribute) (megaqc.user.models.User attribute)

is_authenticated() (megaqc.user.models.User method) is_public (megaqc.model.models.Dashboard attribute) (megaqc.model.models.SampleFilter attribute) isolation_forest_trend() (in module megaqc.rest_api.plot) IsolationForestSchema (class in megaqc.rest_api.schemas)

J

JOBS (megaqc.settings.Config attribute)

json_to_csv() (in module megaqc.rest_api.content) JsonString (class in megaqc.rest_api.fields)

L

last_name (megaqc.user.forms.AdminForm attribute) (megaqc.user.forms.RegisterForm attribute) (megaqc.user.models.User attribute) list_dashboard() (in module megaqc.public.views) load_user() (in module megaqc.public.views)

LOG_LEVEL (megaqc.settings.Config attribute) (megaqc.settings.DevConfig attribute) (megaqc.settings.TestConfig attribute) login() (in module megaqc.public.views) LoginForm (class in megaqc.public.forms) logout() (in module megaqc.public.views)

M

maha_distance() (in module megaqc.rest_api.plot) main() (in module megaqc.cli) manage_users() (in module megaqc.user.views) megaqc module megaqc command line option --version, [1] megaqc-routes command line option --all-methods, [1] --sort <sort>, [1] -s, [1] megaqc-run command line option --cert <cert>, [1] --debugger, [1] --eager-loading, [1] --extra-files <extra_files>, [1] --host <host>, [1] --key <key>, [1] --lazy-loader, [1] --no-debugger, [1] --no-reload, [1] --port <port>, [1] --reload, [1] --with-threads, [1] --without-threads, [1] -h, [1] -p, [1] megaqc.api module megaqc.api.constants module megaqc.api.utils module megaqc.api.views module megaqc.app module megaqc.cli module megaqc.commands module megaqc.compat module megaqc.database module megaqc.extensions module megaqc.model module megaqc.model.models module megaqc.public module megaqc.public.forms module megaqc.public.views module megaqc.report_plot module megaqc.report_plot.views module megaqc.rest_api module megaqc.rest_api.content module megaqc.rest_api.fields module megaqc.rest_api.filters module megaqc.rest_api.outlier module megaqc.rest_api.plot module megaqc.rest_api.schemas module megaqc.rest_api.utils module megaqc.rest_api.views module megaqc.rest_api.webarg_parser module megaqc.scheduler module megaqc.settings module megaqc.user module megaqc.user.forms module megaqc.user.models module megaqc.user.views module megaqc.utils module megaqc.utils.settings module

megaqc.wsgi module megaqc_date_type() (in module megaqc.commands) message (megaqc.model.models.Upload attribute) meta (megaqc.model.models.Report attribute) methods (megaqc.rest_api.views.CurrentUser attribute) (megaqc.rest_api.views.Dashboard attribute) (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataType attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlot attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FavouritePlotRelationship attribute) (megaqc.rest_api.views.Filter attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.FilterRelationship attribute) (megaqc.rest_api.views.Report attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaRelationship attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.ReportRelationship attribute) (megaqc.rest_api.views.Sample attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleDataRelationship attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.SampleRelationship attribute) (megaqc.rest_api.views.TrendSeries attribute) (megaqc.rest_api.views.Upload attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UploadRelationship attribute) (megaqc.rest_api.views.User attribute) (megaqc.rest_api.views.UserList attribute) (megaqc.rest_api.views.UserRelationship attribute) Model (class in megaqc.database) model (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) ModelAssociation (class in megaqc.rest_api.fields) modified_at (megaqc.model.models.Dashboard attribute) (megaqc.model.models.Upload attribute) module megaqc megaqc.api megaqc.api.constants megaqc.api.utils megaqc.api.views megaqc.app megaqc.cli megaqc.commands megaqc.compat megaqc.database megaqc.extensions megaqc.model megaqc.model.models megaqc.public megaqc.public.forms megaqc.public.views megaqc.report_plot megaqc.report_plot.views megaqc.rest_api megaqc.rest_api.content megaqc.rest_api.fields megaqc.rest_api.filters megaqc.rest_api.outlier megaqc.rest_api.plot megaqc.rest_api.schemas megaqc.rest_api.utils megaqc.rest_api.views megaqc.rest_api.webarg_parser megaqc.scheduler megaqc.settings megaqc.user megaqc.user.forms megaqc.user.models megaqc.user.views megaqc.utils megaqc.utils.settings megaqc.wsgi mqc_add_config() (in module megaqc.utils.settings) mqc_cl_config() (in module megaqc.utils.settings) mqc_load_config() (in module megaqc.utils.settings) mqc_load_userconfig() (in module megaqc.utils.settings) multiqc_config() (in module megaqc.user.views)

N

name (megaqc.user.models.Role attribute) NestedQueryFlaskParser (class in megaqc.rest_api.webarg_parser)

nice_name (megaqc.model.models.SampleDataType attribute) NONUSER (megaqc.rest_api.utils.Permission attribute) not_implemented() (in module megaqc.public.views)

O

OptionalLinkSchema (class in megaqc.rest_api.schemas) opts (megaqc.rest_api.schemas.ControlLimitSchema attribute) (megaqc.rest_api.schemas.DashboardSchema attribute) (megaqc.rest_api.schemas.FavouritePlotSchema attribute) (megaqc.rest_api.schemas.FilterGroupSchema attribute) (megaqc.rest_api.schemas.FilterObjectSchema attribute) (megaqc.rest_api.schemas.IsolationForestSchema attribute) (megaqc.rest_api.schemas.OptionalLinkSchema attribute) (megaqc.rest_api.schemas.PlotSchema attribute) (megaqc.rest_api.schemas.RawMeasurementSchema attribute) (megaqc.rest_api.schemas.ReportMetaSchema attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema attribute) (megaqc.rest_api.schemas.ReportSchema attribute) (megaqc.rest_api.schemas.SampleDataSchema attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema attribute) (megaqc.rest_api.schemas.SampleFilterSchema attribute) (megaqc.rest_api.schemas.SampleSchema attribute) (megaqc.rest_api.schemas.TrendInputSchema attribute) (megaqc.rest_api.schemas.TrendSchema attribute) (megaqc.rest_api.schemas.UploadSchema attribute) (megaqc.rest_api.schemas.UserSchema attribute)

order_sample_filters() (in module megaqc.public.views) OutlierDetector (class in megaqc.rest_api.outlier)

P

parse_querystring() (megaqc.rest_api.webarg_parser.NestedQueryFlaskParser method) password (megaqc.public.forms.LoginForm attribute) (megaqc.user.forms.PasswordChangeForm attribute) (megaqc.user.forms.RegisterForm attribute) (megaqc.user.models.User attribute) PasswordChangeForm (class in megaqc.user.forms) patch() (megaqc.rest_api.views.PermissionsMixin method) path (megaqc.model.models.Upload attribute) Permission (class in megaqc.rest_api.utils) PermissionsMixin (class in megaqc.rest_api.views) plot_category_id (megaqc.model.models.PlotCategory attribute) (megaqc.model.models.PlotData attribute) plot_data_id (megaqc.model.models.PlotData attribute) plot_favourite() (in module megaqc.public.views) plot_favourite_id (megaqc.model.models.PlotFavourite attribute) plot_favourites() (in module megaqc.public.views) plot_type (megaqc.model.models.PlotFavourite attribute)

PlotCategory (class in megaqc.model.models) PlotConfig (class in megaqc.model.models) PlotData (class in megaqc.model.models) PlotFavourite (class in megaqc.model.models) PlotSchema (class in megaqc.rest_api.schemas) PlotSchema.Meta (class in megaqc.rest_api.schemas) post() (megaqc.rest_api.views.PermissionsMixin method) (megaqc.rest_api.views.UploadList method) (megaqc.rest_api.views.UserList method) post_schema_kwargs() (megaqc.rest_api.views.UserList method) postgres_create_database() (in module megaqc.database) postgres_create_user() (in module megaqc.database) primary_key() (megaqc.database.CRUDMixin property) primary_key_columns() (megaqc.database.CRUDMixin class method) primary_key_name() (megaqc.database.CRUDMixin class method) ProdConfig (class in megaqc.settings) profile() (in module megaqc.user.views) PROJECT_ROOT (megaqc.settings.Config attribute)

Q

queue_multiqc_data() (in module megaqc.api.views)

queued_uploads() (in module megaqc.public.views)

R

RawMeasurementSchema (class in megaqc.rest_api.schemas) register() (in module megaqc.public.views) register_blueprints() (in module megaqc.app) register_commands() (in module megaqc.app) register_errorhandlers() (in module megaqc.app) register_extensions() (in module megaqc.app) register_shellcontext() (in module megaqc.app) RegisterForm (class in megaqc.user.forms) RegisterForm.Meta (class in megaqc.user.forms) Relationship (class in megaqc.rest_api.schemas) remove_empty_id() (megaqc.rest_api.schemas.OptionalLinkSchema method) Report (class in megaqc.model.models) (class in megaqc.rest_api.views) report (megaqc.model.models.ReportMeta attribute) (megaqc.model.models.Sample attribute) (megaqc.model.models.SampleData attribute) report_filter_fields() (in module megaqc.api.views) report_hash (megaqc.model.models.Report attribute) report_id (megaqc.model.models.PlotCategory attribute) (megaqc.model.models.PlotData attribute) (megaqc.model.models.Report attribute) (megaqc.model.models.ReportMeta attribute) (megaqc.model.models.Sample attribute) (megaqc.model.models.SampleData attribute) report_meta_id (megaqc.model.models.ReportMeta attribute)

report_meta_key (megaqc.model.models.ReportMeta attribute) report_meta_value (megaqc.model.models.ReportMeta attribute) report_plot() (in module megaqc.public.views) ReportList (class in megaqc.rest_api.views) ReportMeta (class in megaqc.model.models) (class in megaqc.rest_api.views) ReportMetaList (class in megaqc.rest_api.views) ReportMetaRelationship (class in megaqc.rest_api.views) ReportMetaSchema (class in megaqc.rest_api.schemas) ReportMetaSchema.Meta (class in megaqc.rest_api.schemas) ReportMetaTypeList (class in megaqc.rest_api.views) ReportMetaTypeSchema (class in megaqc.rest_api.schemas) ReportMetaTypeSchema.Meta (class in megaqc.rest_api.schemas) ReportRelationship (class in megaqc.rest_api.views) reports (megaqc.user.models.User attribute) ReportSchema (class in megaqc.rest_api.schemas) ReportSchema.Meta (class in megaqc.rest_api.schemas) request_parsers (megaqc.rest_api.views.UploadList attribute) reset_password() (in module megaqc.api.views) (megaqc.user.models.User method) rgb_to_rgba() (in module megaqc.rest_api.plot) Role (class in megaqc.user.models) role_id (megaqc.user.models.Role attribute) roles (megaqc.user.models.User attribute) round_date() (in module megaqc.rest_api.filters)

S

salt (megaqc.user.models.User attribute) Sample (class in megaqc.model.models) (class in megaqc.rest_api.views) sample (megaqc.model.models.SampleData attribute) sample_data (megaqc.model.models.Report attribute) (megaqc.model.models.SampleDataType attribute) sample_data_id (megaqc.model.models.SampleData attribute) sample_data_type_id (megaqc.model.models.SampleData attribute) (megaqc.model.models.SampleDataType attribute) sample_filter_data (megaqc.model.models.SampleFilter attribute) sample_filter_id (megaqc.model.models.SampleFilter attribute) sample_filter_name (megaqc.model.models.SampleFilter attribute) sample_filter_tag (megaqc.model.models.SampleFilter attribute) sample_id (megaqc.model.models.PlotData attribute) (megaqc.model.models.Sample attribute) (megaqc.model.models.SampleData attribute) sample_name (megaqc.model.models.Sample attribute) SampleData (class in megaqc.model.models) (class in megaqc.rest_api.views) SampleDataList (class in megaqc.rest_api.views) SampleDataRelationship (class in megaqc.rest_api.views) SampleDataSchema (class in megaqc.rest_api.schemas) SampleDataSchema.Meta (class in megaqc.rest_api.schemas) SampleDataType (class in megaqc.model.models) SampleDataTypeSchema (class in megaqc.rest_api.schemas) SampleDataTypeSchema.Meta (class in megaqc.rest_api.schemas) SampleFilter (class in megaqc.model.models) SampleFilterSchema (class in megaqc.rest_api.schemas) SampleFilterSchema.Meta (class in megaqc.rest_api.schemas) SampleList (class in megaqc.rest_api.views) SampleRelationship (class in megaqc.rest_api.views) samples (megaqc.model.models.Report attribute) SampleSchema (class in megaqc.rest_api.schemas) SampleSchema.Meta (class in megaqc.rest_api.schemas) save() (megaqc.database.CRUDMixin method) save_dashboard() (in module megaqc.api.views) save_dashboard_data() (in module megaqc.api.utils) save_filters() (in module megaqc.api.views) save_plot_favourite() (in module megaqc.api.views) save_plot_favourite_data() (in module megaqc.api.utils) SCHEDULER_API_ENABLED (megaqc.settings.Config attribute) Schema (in module megaqc.rest_api.schemas) schema (megaqc.model.models.SampleDataType attribute) (megaqc.rest_api.views.CurrentUser attribute) (megaqc.rest_api.views.Dashboard attribute) (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataType attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlot attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FavouritePlotRelationship attribute) (megaqc.rest_api.views.Filter attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.FilterRelationship attribute) (megaqc.rest_api.views.Report attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaRelationship attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.ReportRelationship attribute) (megaqc.rest_api.views.Sample attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleDataRelationship attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.SampleRelationship attribute) (megaqc.rest_api.views.Upload attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UploadRelationship attribute) (megaqc.rest_api.views.User attribute) (megaqc.rest_api.views.UserList attribute) (megaqc.rest_api.views.UserRelationship attribute) schema_json() (megaqc.model.models.SampleDataType property) SECRET_KEY (megaqc.settings.Config attribute) self_url (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.PlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute)

self_url_kwargs (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.PlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) self_url_many (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.PlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) self_view (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) self_view_kwargs (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) self_view_many (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) SERVER_NAME (megaqc.settings.Config attribute) set_password() (in module megaqc.api.views) (megaqc.user.models.User method) sqla_session (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute) SQLALCHEMY_DATABASE (megaqc.settings.Config attribute) (megaqc.settings.ProdConfig attribute) SQLALCHEMY_DBMS (megaqc.settings.Config attribute) (megaqc.settings.DevConfig attribute) (megaqc.settings.ProdConfig attribute) (megaqc.settings.TestConfig attribute) SQLALCHEMY_ECHO (megaqc.settings.DevConfig attribute) SQLALCHEMY_HOST (megaqc.settings.Config attribute) (megaqc.settings.ProdConfig attribute) SQLALCHEMY_PASS (megaqc.settings.Config attribute) (megaqc.settings.ProdConfig attribute) SQLALCHEMY_RECORD_QUERIES (megaqc.settings.DevConfig attribute) SQLALCHEMY_TRACK_MODIFICATIONS (megaqc.settings.Config attribute) SQLALCHEMY_USER (megaqc.settings.Config attribute) (megaqc.settings.ProdConfig attribute) status (megaqc.model.models.Upload attribute) store_report_data() (in module megaqc.api.utils) strict (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) SurrogatePK (class in megaqc.database)

T

test() (in module megaqc.api.views) test_post() (in module megaqc.api.views) TestConfig (class in megaqc.settings) TESTING (megaqc.settings.TestConfig attribute) timeline_sample_data() (in module megaqc.api.views) title (megaqc.model.models.Dashboard attribute) (megaqc.model.models.PlotFavourite attribute) trend_data() (in module megaqc.rest_api.plot) TrendInputSchema (class in megaqc.rest_api.schemas) trends() (in module megaqc.public.views) TrendSchema (class in megaqc.rest_api.schemas) TrendSeries (class in megaqc.rest_api.views) type() (megaqc.model.models.SampleDataType property)

type_ (megaqc.rest_api.schemas.DashboardSchema.Meta attribute) (megaqc.rest_api.schemas.FavouritePlotSchema.Meta attribute) (megaqc.rest_api.schemas.FilterGroupSchema.Meta attribute) (megaqc.rest_api.schemas.PlotSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaSchema.Meta attribute) (megaqc.rest_api.schemas.ReportMetaTypeSchema.Meta attribute) (megaqc.rest_api.schemas.ReportSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataSchema.Meta attribute) (megaqc.rest_api.schemas.SampleDataTypeSchema.Meta attribute) (megaqc.rest_api.schemas.SampleFilterSchema.Meta attribute) (megaqc.rest_api.schemas.SampleSchema.Meta attribute) (megaqc.rest_api.schemas.UploadSchema.Meta attribute) (megaqc.rest_api.schemas.UserSchema.Meta attribute)

U

univariate_trend_data() (in module megaqc.rest_api.plot) unknown (megaqc.rest_api.schemas.PlotSchema.Meta attribute) update() (megaqc.database.CRUDMixin method) update_db_uri() (megaqc.settings.Config method) update_dict() (in module megaqc.utils.settings) update_fav_report_plot_type() (in module megaqc.api.utils) update_fav_sample_field() (in module megaqc.api.utils) update_favourite_plot() (in module megaqc.api.views) update_filters() (in module megaqc.api.views) update_user_filter() (in module megaqc.api.utils) Upload (class in megaqc.model.models) (class in megaqc.rest_api.views) UPLOAD_FOLDER (megaqc.settings.Config attribute) upload_id (megaqc.model.models.Upload attribute) upload_reports_job() (in module megaqc.scheduler) uploaded_at (megaqc.model.models.Report attribute) UploadList (class in megaqc.rest_api.views) UploadRelationship (class in megaqc.rest_api.views) uploads (megaqc.user.models.User attribute) UploadSchema (class in megaqc.rest_api.schemas) UploadSchema.Meta (class in megaqc.rest_api.schemas) User (class in megaqc.rest_api.views) (class in megaqc.user.models)

user (megaqc.model.models.Dashboard attribute) (megaqc.model.models.PlotFavourite attribute) (megaqc.model.models.Report attribute) (megaqc.model.models.SampleFilter attribute) (megaqc.model.models.Upload attribute) USER (megaqc.rest_api.utils.Permission attribute) user (megaqc.user.models.Role attribute) user_id (megaqc.model.models.Dashboard attribute) (megaqc.model.models.PlotFavourite attribute) (megaqc.model.models.Report attribute) (megaqc.model.models.SampleFilter attribute) (megaqc.model.models.Upload attribute) (megaqc.user.forms.AdminForm attribute) (megaqc.user.models.Role attribute) (megaqc.user.models.User attribute) USER_REGISTRATION_APPROVAL (megaqc.settings.Config attribute) UserList (class in megaqc.rest_api.views) username (megaqc.public.forms.LoginForm attribute) (megaqc.user.forms.AdminForm attribute) (megaqc.user.forms.RegisterForm attribute) (megaqc.user.models.User attribute) UserRelationship (class in megaqc.rest_api.views) UserSchema (class in megaqc.rest_api.schemas) UserSchema.Meta (class in megaqc.rest_api.schemas)

V

validate() (megaqc.public.forms.LoginForm method) (megaqc.user.forms.AdminForm method) (megaqc.user.forms.PasswordChangeForm method) (megaqc.user.forms.RegisterForm method) value (megaqc.model.models.SampleData attribute) view (megaqc.rest_api.views.CurrentUser attribute) (megaqc.rest_api.views.Dashboard attribute) (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataType attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlot attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FavouritePlotRelationship attribute) (megaqc.rest_api.views.Filter attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.Report attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaRelationship attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.ReportRelationship attribute) (megaqc.rest_api.views.Sample attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleDataRelationship attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.TrendSeries attribute) (megaqc.rest_api.views.Upload attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UploadRelationship attribute) (megaqc.rest_api.views.User attribute) (megaqc.rest_api.views.UserList attribute) (megaqc.rest_api.views.UserRelationship attribute)

view_dashboard() (in module megaqc.public.views) view_kwargs (megaqc.rest_api.views.DashboardList attribute) (megaqc.rest_api.views.DashboardRelationship attribute) (megaqc.rest_api.views.DataTypeList attribute) (megaqc.rest_api.views.FavouritePlotList attribute) (megaqc.rest_api.views.FilterGroupList attribute) (megaqc.rest_api.views.FilterList attribute) (megaqc.rest_api.views.ReportList attribute) (megaqc.rest_api.views.ReportMeta attribute) (megaqc.rest_api.views.ReportMetaList attribute) (megaqc.rest_api.views.ReportMetaTypeList attribute) (megaqc.rest_api.views.SampleData attribute) (megaqc.rest_api.views.SampleDataList attribute) (megaqc.rest_api.views.SampleList attribute) (megaqc.rest_api.views.UploadList attribute) (megaqc.rest_api.views.UserList attribute)

W

WTF_CSRF_ENABLED (megaqc.settings.DevConfig attribute) (megaqc.settings.TestConfig attribute)

Z

ZScoreDetector (class in megaqc.rest_api.outlier)