Index

_

__init__() (accounts.forms.SignUpPersonForm method) (animals.forms.UpdateAnimalForm method) (biosample.forms.CreateUserForm method) (biosample.tasks.retrieval.FetchStatusHelper method) (biosample.tasks.submission.SplitSubmissionHelper method) (biosample.tasks.submission.SubmissionHelper method) (common.fields.ProtectedFileField method) (common.fields.ProtectedImageField method) (common.forms.RequestFormMixin method) (common.tasks.BaseTask method) (common.tasks.exclusive_task method) (crbanim.helpers.CRBAnimReader method) (excel.helpers.ExcelTemplateReader method) (samples.forms.UpdateSampleForm method) (validation.helpers.MetaDataValidation method)

A

AboutSubmissionView (class in uid.views) AboutUploadingView (class in uid.views) AboutView (class in uid.views) abstract (biosample.models.BaseSubmission.Meta attribute) Account (class in biosample.models) Account.DoesNotExist Account.MultipleObjectsReturned account_found() (biosample.views.AccountMixin method) (biosample.views.RegisterMixin method) account_not_found() (biosample.views.AccountMixin method) (biosample.views.TokenMixin method) account_set (biosample.models.ManagedTeam attribute) AccountMixin (class in biosample.views) accounts.forms module accounts.models module accounts.views module action (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (common.tasks.BaseTask attribute) (common.tasks.NotifyAdminTaskMixin attribute) (crbanim.tasks.ImportCRBAnimTask attribute) (cryoweb.tasks.ImportCryowebTask attribute) (excel.tasks.ImportTemplateTask attribute) (samples.tasks.BatchDeleteSamples attribute) (samples.tasks.BatchUpdateSamples attribute) (submissions.tasks.ImportGenericTaskMixin attribute) (submissions.tasks.SubmissionTaskMixin attribute) activate() (accounts.views.ActivationView method) ActivationComplete (class in accounts.views) ActivationView (class in accounts.views) add_biosample_user_to_team() (biosample.views.CreateUserView method) add_samples() (biosample.tasks.submission.SubmissionHelper method) add_to_submission_data() (biosample.tasks.submission.SplitSubmissionHelper method) ajax_required() (in module common.views) AjaxTemplateView (class in common.views) all_count (validation.models.ValidationSummary attribute)

Animal (class in uid.models) Animal.DoesNotExist Animal.MultipleObjectsReturned AnimalResource (class in submissions.helpers) AnimalResource.Meta (class in submissions.helpers) animals (validation.models.ValidationResult attribute) animals.forms module animals.tasks module animals.views module annotate_breed() (in module zooma.helpers) annotate_country() (in module zooma.helpers) annotate_develstage() (in module zooma.helpers) annotate_func (zooma.tasks.AnnotateTaskMixin attribute) annotate_func() (zooma.tasks.AnnotateBreeds static method) (zooma.tasks.AnnotateCountries static method) (zooma.tasks.AnnotateDevelStage static method) (zooma.tasks.AnnotateOrganismPart static method) (zooma.tasks.AnnotatePhysioStage static method) (zooma.tasks.AnnotateSpecies static method) annotate_generic() (in module zooma.helpers) annotate_organismpart() (in module zooma.helpers) annotate_physiostage() (in module zooma.helpers) annotate_specie() (in module zooma.helpers) AnnotateAll (class in zooma.tasks) AnnotateBreeds (class in zooma.tasks) AnnotateBreedsView (class in zooma.views) AnnotateCountries (class in zooma.tasks) AnnotateCountriesView (class in zooma.views) AnnotateDevelStage (class in zooma.tasks) AnnotateDevelStageView (class in zooma.views) AnnotateOrganismPart (class in zooma.tasks) AnnotateOrganismPartView (class in zooma.views) AnnotatePhysioStage (class in zooma.tasks) AnnotatePhysioStageView (class in zooma.views) AnnotateSpecies (class in zooma.tasks) AnnotateSpeciesView (class in zooma.views) AnnotateTaskMixin (class in zooma.tasks) AnnotateViewMixin (class in zooma.views) AsyncIOMixin (class in common.tests)

B

base_dir (common.tests.DataSourceMixinTestCase attribute) base_fields (accounts.forms.PersonForm attribute) (accounts.forms.SignUpPersonForm attribute) (accounts.forms.SignUpUserForm attribute) (accounts.forms.UserForm attribute) (animals.forms.UpdateAnimalForm attribute) (biosample.forms.CreateUserForm attribute) (biosample.forms.GenerateTokenForm attribute) (biosample.forms.RegisterUserForm attribute) (biosample.forms.SubmitForm attribute) (language.forms.SpecieSynonymForm attribute) (samples.forms.UpdateSampleForm attribute) base_location (common.storage.ProtectedFileSystemStorage attribute) base_url (common.storage.ProtectedFileSystemStorage attribute) BaseMixin (class in uid.mixins) BaseSubmission (class in biosample.models) BaseSubmission.Meta (class in biosample.models) BaseTask (class in common.tasks) batch_update() (submissions.tasks.BatchUpdateMixin method) BatchDeleteAnimals (class in animals.tasks)

BatchDeleteSamples (class in samples.tasks) BatchUpdateAnimals (class in animals.tasks) BatchUpdateMixin (class in submissions.tasks) BatchUpdateSamples (class in samples.tasks) biosample.forms module biosample.helpers module biosample.models module biosample.tasks.cleanup module biosample.tasks.retrieval module biosample.tasks.submission module biosample.views module biosample_id (biosample.models.OrphanSample attribute) BioSampleMixin (class in uid.mixins)

C

call_zooma() (in module zooma.helpers) can_delete() (uid.mixins.BioSampleMixin method) (uid.models.Submission method) can_edit() (uid.mixins.BioSampleMixin method) (uid.models.Submission method) can_submit() (uid.models.Submission method) check_accuracies() (excel.helpers.ExcelTemplateReader method) check_biosample_id_target() (validation.helpers.MetaDataValidation method) check_columns() (excel.helpers.ExcelTemplateReader method) check_countries() (crbanim.helpers.CRBAnimReader method) (excel.helpers.ExcelTemplateReader method) (in module cryoweb.helpers) check_duplicates() (validation.helpers.MetaDataValidation method) check_errors() (common.tests.DataSourceMixinTestCase method) check_message() (common.tests.WebSocketMixin method) check_message_not_called() (common.tests.WebSocketMixin method) check_messages() (common.tests.MessageMixinTestCase method) check_orphan_sample() (in module biosample.tasks.cleanup) check_relationship() (validation.helpers.MetaDataValidation method) check_ruleset() (validation.helpers.MetaDataValidation method) check_samples() (in module biosample.tasks.cleanup) check_sex() (crbanim.helpers.CRBAnimReader method) (excel.helpers.ExcelTemplateReader method) check_sheets() (excel.helpers.ExcelTemplateReader method) check_specie_by_synonym() (language.models.SpecieSynonym class method) check_species() (crbanim.helpers.CRBAnimReader method) (excel.helpers.ExcelTemplateReader method) (in module cryoweb.helpers) check_species_in_animal_sheet() (excel.helpers.ExcelTemplateReader method) check_species_synonyms() (in module language.helpers) check_submission_status() (biosample.tasks.retrieval.FetchStatusHelper method) check_synonyms() (language.models.SpecieSynonym class method) check_UID() (in module crbanim.helpers) (in module cryoweb.helpers) check_usi_structure() (validation.helpers.MetaDataValidation method) clean() (animals.forms.UpdateAnimalForm method) (samples.forms.UpdateSampleForm method) clean_cryoweb_database() (in module cryoweb.tasks) clean_password2() (biosample.forms.CreateUserForm method) cleanupregistration() (in module common.tasks) CleanUpTask (class in biosample.tasks.cleanup) clearsessions() (in module common.tasks) common.constants module common.fields module

common.forms module common.helpers module common.storage module common.tasks module common.tests module common.views module complete() (biosample.tasks.retrieval.FetchStatusHelper method) Confidence (class in uid.models) construct_validation_message() (in module validation.helpers) content_object (biosample.models.SubmissionData attribute) (validation.models.ValidationResult attribute) content_type (biosample.models.SubmissionData attribute) (validation.models.ValidationResult attribute) content_type_id (biosample.models.SubmissionData attribute) (validation.models.ValidationResult attribute) country (language.views.CountryMixin attribute) CountryMixin (class in language.views) crbanim.helpers module crbanim.tasks module CRBAnimImportError CRBAnimReader (class in crbanim.helpers) create_biosample_team() (biosample.views.CreateUserView method) create_biosample_user() (biosample.views.CreateUserView method) create_key() (in module accounts.models) create_new_activation_key() (accounts.models.MyRegistrationProfile method) create_or_update_sample() (biosample.tasks.submission.SubmissionHelper method) create_specie_synonym() (in module language.helpers) create_submission() (biosample.tasks.submission.SplitSubmissionHelper method) (biosample.tasks.submission.SubmissionHelper method) created_at (biosample.models.BaseSubmission attribute) CreateUserForm (class in biosample.forms) CreateUserView (class in biosample.views) cryoweb.helpers module cryoweb.tasks module cryoweb_import() (in module cryoweb.helpers) CryoWebImportError

D

DashBoardView (class in uid.views) data_source_id() (uid.mixins.BioSampleMixin property) DataSourceMixinTestCase (class in common.tests) deal_with_errors() (biosample.views.CreateUserView method) debug_task() (common.tasks.BaseTask method) declared_fields (accounts.forms.PersonForm attribute) (accounts.forms.SignUpPersonForm attribute) (accounts.forms.SignUpUserForm attribute) (accounts.forms.UserForm attribute) (animals.forms.UpdateAnimalForm attribute) (biosample.forms.CreateUserForm attribute) (biosample.forms.GenerateTokenForm attribute) (biosample.forms.RegisterUserForm attribute) (biosample.forms.SubmitForm attribute) (language.forms.SpecieSynonymForm attribute) (samples.forms.UpdateSampleForm attribute) dehydrate_status() (submissions.helpers.AnimalResource method) (submissions.helpers.SampleResource method) delete() (animals.views.DeleteAnimalView method) (samples.views.DeleteSampleView method) DeleteAnimalView (class in animals.views) DeleteMaterialMixin (class in common.views) DeleteSampleView (class in samples.views) description (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) (crbanim.tasks.ImportCRBAnimTask attribute) (cryoweb.tasks.ImportCryowebTask attribute) (excel.tasks.ImportTemplateTask attribute) (samples.tasks.BatchDeleteSamples attribute) (samples.tasks.BatchUpdateSamples attribute) (zooma.tasks.AnnotateAll attribute) (zooma.tasks.AnnotateBreeds attribute) (zooma.tasks.AnnotateCountries attribute) (zooma.tasks.AnnotateDevelStage attribute) (zooma.tasks.AnnotateOrganismPart attribute) (zooma.tasks.AnnotatePhysioStage attribute) (zooma.tasks.AnnotateSpecies attribute)

descripttion (zooma.tasks.AnnotateTaskMixin attribute) DetailAnimalView (class in animals.views) DetailMaterialMixin (class in common.views) DetailSampleView (class in samples.views) dict_class (zooma.views.AnnotateBreedsView attribute) (zooma.views.AnnotateCountriesView attribute) (zooma.views.AnnotateDevelStageView attribute) (zooma.views.AnnotateOrganismPartView attribute) (zooma.views.AnnotatePhysioStageView attribute) (zooma.views.AnnotateSpeciesView attribute) (zooma.views.AnnotateViewMixin attribute) DictBase (class in uid.models) DictBreed (class in uid.models) DictBreed.DoesNotExist DictBreed.MultipleObjectsReturned DictCountry (class in uid.models) DictCountry.DoesNotExist DictCountry.MultipleObjectsReturned DictDevelStage (class in uid.models) DictDevelStage.DoesNotExist DictDevelStage.MultipleObjectsReturned DictPhysioStage (class in uid.models) DictPhysioStage.DoesNotExist DictPhysioStage.MultipleObjectsReturned DictRole (class in uid.models) DictRole.DoesNotExist DictRole.MultipleObjectsReturned DictSex (class in uid.models) DictSex.DoesNotExist DictSex.MultipleObjectsReturned DictSpecie (class in uid.models) dictspecie (language.models.SpecieSynonym attribute) DictSpecie.DoesNotExist DictSpecie.MultipleObjectsReturned dictspecie_id (language.models.SpecieSynonym attribute) DictUberon (class in uid.models) DictUberon.DoesNotExist DictUberon.MultipleObjectsReturned dispatch() (biosample.views.AccountMixin method) (biosample.views.GenerateTokenView method) (common.views.AjaxTemplateView method) (common.views.DeleteMaterialMixin method) (common.views.UpdateMaterialMixin method) dst_path (common.tests.DataSourceMixinTestCase attribute)

E

EnumMixin (class in common.constants) error_count (validation.models.ValidationSummary attribute) error_messages (biosample.forms.CreateUserForm attribute) eval_columns() (crbanim.helpers.CRBAnimReader method) excel.helpers module

excel.tasks module ExcelImportError ExcelTemplateReader (class in excel.helpers) exclusive_task (class in common.tasks) export_order (submissions.helpers.AnimalResource.Meta attribute) (submissions.helpers.SampleResource.Meta attribute)

F

fecth_biosample() (in module biosample.tasks.cleanup) fetch_queryset() (biosample.tasks.retrieval.FetchStatusTask method) fetch_status() (biosample.tasks.retrieval.FetchStatusTask method) fetch_url() (in module biosample.tasks.cleanup) FetchStatusHelper (class in biosample.tasks.retrieval) FetchStatusTask (class in biosample.tasks.retrieval) fields (accounts.forms.PersonForm.Meta attribute) (accounts.forms.SignUpPersonForm.Meta attribute) (accounts.forms.SignUpUserForm.Meta attribute) (accounts.forms.UserForm.Meta attribute) (animals.forms.UpdateAnimalForm.Meta attribute) (biosample.forms.RegisterUserForm.Meta attribute) (language.forms.SpecieSynonymForm.Meta attribute) (samples.forms.UpdateSampleForm.Meta attribute) (submissions.helpers.AnimalResource attribute) (submissions.helpers.AnimalResource.Meta attribute) (submissions.helpers.SampleResource attribute) (submissions.helpers.SampleResource.Meta attribute) fill_uid_animal() (in module crbanim.helpers) fill_uid_animals() (in module cryoweb.helpers) fill_uid_breed() (in module crbanim.helpers) fill_uid_breeds() (in module cryoweb.helpers) fill_uid_sample() (in module crbanim.helpers) fill_uid_samples() (in module cryoweb.helpers) filter_by_column_values() (crbanim.helpers.CRBAnimReader method) filter_managed_biosamples() (in module biosample.tasks.cleanup) finalize() (biosample.tasks.retrieval.FetchStatusHelper method) find_storage_type() (in module crbanim.helpers) form_class (accounts.views.MyAccountView attribute) (accounts.views.SignUpView attribute) (animals.views.UpdateAnimalView attribute) (biosample.views.CreateUserView attribute) (biosample.views.GenerateTokenView attribute) (biosample.views.RegisterUserView attribute) (biosample.views.SubmitView attribute) (common.tests.FormMixinTestCase attribute) (language.views.UpdateSpeciesView attribute) (samples.views.UpdateSampleView attribute) (uid.views.UpdateOrganizationView attribute)

form_classes (accounts.forms.MyAccountForm attribute) (accounts.forms.SignUpForm attribute) form_invalid() (accounts.views.MyAccountView method) (accounts.views.SignUpView method) (biosample.views.MyFormMixin method) (common.views.FormInvalidMixin method) form_valid() (accounts.views.ResendActivationView method) (accounts.views.SignUpView method) (biosample.views.CreateUserView method) (biosample.views.GenerateTokenView method) (biosample.views.RegisterUserView method) (biosample.views.SubmitView method) (common.views.UpdateMaterialMixin method) format_attribute() (in module common.helpers) (uid.models.DictBase method) (uid.models.DictBreed method) FormInvalidMixin (class in common.views) FormMixinTestCase (class in common.tests) found_at (biosample.models.OrphanSample attribute) function (language.models.Replace attribute)

G

gene_bank_country() (uid.mixins.BioSampleMixin property) gene_bank_name() (uid.mixins.BioSampleMixin property) GeneralMixinTestCase (class in common.tests) generate_token() (biosample.views.MyFormMixin method) GenerateTokenForm (class in biosample.forms) GenerateTokenView (class in biosample.views) get() (accounts.views.ActivationView method) (zooma.views.AnnotateViewMixin method) get_admin_emails() (in module common.helpers) get_animal_from_sample() (excel.helpers.ExcelTemplateReader method) get_animal_records() (excel.helpers.ExcelTemplateReader method) get_animal_specie_and_breed() (in module cryoweb.helpers) get_attributes() (uid.mixins.BioSampleMixin method) (uid.models.Animal method) (uid.models.Sample method) get_auth() (in module biosample.helpers) get_biosamples() (in module biosample.tasks.cleanup) get_breed_from_animal() (excel.helpers.ExcelTemplateReader method) get_breed_records() (excel.helpers.ExcelTemplateReader method) get_by_synonym() (uid.models.DictSpecie class method) get_context_data() (biosample.views.TokenView method) (common.views.DetailMaterialMixin method) (language.views.CountryMixin method) (uid.views.DashBoardView method) (uid.views.SummaryView method) (zooma.views.OntologiesReportView method) get_deleted_objects() (in module common.helpers) get_dialect() (crbanim.helpers.CRBAnimReader class method) get_father_relationship() (uid.models.Animal method) get_form() (common.views.UpdateMaterialMixin method) get_form_kwargs() (accounts.views.MyAccountView method) (accounts.views.SignUpView method) (biosample.views.CreateUserView method) (biosample.views.MyFormMixin method) (common.views.FormInvalidMixin method) (common.views.UpdateMaterialMixin method) get_initial() (animals.views.UpdateAnimalView method) (biosample.views.TokenMixin method) (samples.views.UpdateSampleView method)

get_manager_auth() (in module biosample.helpers) get_mother_relationship() (uid.models.Animal method) get_next_by_created_at() (biosample.models.BaseSubmission method) (biosample.models.OrphanSubmission method) (biosample.models.Submission method) get_next_by_found_at() (biosample.models.OrphanSample method) get_next_by_updated_at() (biosample.models.BaseSubmission method) (biosample.models.OrphanSubmission method) (biosample.models.Submission method) get_object() (accounts.views.MyAccountView method) (uid.views.UpdateOrganizationView method) get_orphan_samples() (in module biosample.tasks.cleanup) get_previous_by_created_at() (biosample.models.BaseSubmission method) (biosample.models.OrphanSubmission method) (biosample.models.Submission method) get_previous_by_found_at() (biosample.models.OrphanSample method) get_previous_by_updated_at() (biosample.models.BaseSubmission method) (biosample.models.OrphanSubmission method) (biosample.models.Submission method) get_queryset() (common.views.OwnerMixin method) (language.views.CountryMixin method) get_relationship() (uid.models.Animal method) get_sample_records() (excel.helpers.ExcelTemplateReader method) get_sheet_records() (excel.helpers.ExcelTemplateReader method) get_specie_check_synonyms() (uid.models.DictSpecie class method) get_status_display() (biosample.models.BaseSubmission method) (biosample.models.OrphanSample method) get_success_url() (accounts.views.ActivationView method) (accounts.views.MyAccountView method) (biosample.views.MyFormMixin method) (biosample.views.SubmitView method) (common.views.DeleteMaterialMixin method) (language.views.UpdateSpeciesView method) get_teams() (biosample.models.ManagedTeam class method) get_uid_submission() (submissions.tasks.SubmissionTaskMixin method) get_unknown_count() (validation.models.ValidationSummary method) get_uploaded_file_path() (uid.models.Submission method) get_value() (common.constants.EnumMixin class method) get_value_by_desc() (common.constants.EnumMixin class method) get_value_display() (common.constants.EnumMixin class method)

H

http_method_names (zooma.views.AnnotateViewMixin attribute)

I

id (biosample.models.Account attribute) (biosample.models.ManagedTeam attribute) (biosample.models.OrphanSample attribute) (biosample.models.OrphanSubmission attribute) (biosample.models.Submission attribute) (biosample.models.SubmissionData attribute) (language.models.SpecieSynonym attribute) (validation.models.ValidationResult attribute) (validation.models.ValidationSummary attribute) ignore (biosample.models.OrphanSample attribute) ignore_result (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute)

image_timedelta() (in module common.helpers) import_data_from_file() (crbanim.tasks.ImportCRBAnimTask method) (cryoweb.tasks.ImportCryowebTask method) (excel.tasks.ImportTemplateTask method) ImportCRBAnimTask (class in crbanim.tasks) ImportCryowebTask (class in cryoweb.tasks) ImportGenericTaskMixin (class in submissions.tasks) ImportTemplateTask (class in excel.tasks) IndexView (class in uid.views) InvalidFormMixinTestCase (class in common.tests) is_target_in_message() (in module submissions.helpers) is_valid() (crbanim.helpers.CRBAnimReader class method) issues_count (validation.models.ValidationSummary attribute) item_cls (animals.tasks.BatchUpdateAnimals attribute) (samples.tasks.BatchUpdateSamples attribute) (submissions.tasks.BatchUpdateMixin attribute)

L

language (language.models.SpecieSynonym attribute) language.forms module language.helpers module language.models module language.views module

language_id (language.models.SpecieSynonym attribute) ListAnimalView (class in animals.views) ListMaterialMixin (class in common.views) ListSampleView (class in samples.views) ListSpeciesView (class in language.views) lock_id (zooma.tasks.AnnotateOrganismPart attribute) LoginMixinTestCase (class in common.tests)

M

mail_to_owner() (submissions.tasks.SubmissionTaskMixin method) MailAlreadyRegisteredException ManagedTeam (class in biosample.models) ManagedTeam.DoesNotExist ManagedTeam.MultipleObjectsReturned mandatory_columns (crbanim.helpers.CRBAnimReader attribute) mapped_breed() (uid.models.DictBreed property) mapped_breed_term() (uid.models.DictBreed property) mark_fail() (biosample.tasks.submission.SubmissionHelper method) mark_submission() (biosample.tasks.submission.SubmissionHelper method) mark_success() (biosample.tasks.submission.SubmissionHelper method) max_body_size (submissions.tasks.SubmissionTaskMixin attribute) media() (accounts.forms.PersonForm property) (accounts.forms.SignUpPersonForm property) (accounts.forms.SignUpUserForm property) (accounts.forms.UserForm property) (animals.forms.UpdateAnimalForm property) (biosample.forms.CreateUserForm property) (biosample.forms.GenerateTokenForm property) (biosample.forms.RegisterUserForm property) (biosample.forms.SubmitForm property) (language.forms.SpecieSynonymForm property) (samples.forms.UpdateSampleForm property) message (biosample.models.BaseSubmission attribute) MessageMixinTestCase (class in common.tests) messages (validation.models.ValidationResult attribute) (validation.models.ValidationSummary attribute) MetaDataValidation (class in validation.helpers) missing_terms() (in module uid.models) model (accounts.forms.PersonForm.Meta attribute) (accounts.forms.SignUpPersonForm.Meta attribute) (accounts.forms.SignUpUserForm.Meta attribute) (accounts.forms.UserForm.Meta attribute) (accounts.views.MyAccountView attribute) (animals.forms.UpdateAnimalForm.Meta attribute) (animals.views.DeleteAnimalView attribute) (animals.views.DetailAnimalView attribute) (animals.views.ListAnimalView attribute) (animals.views.UpdateAnimalView attribute) (biosample.forms.RegisterUserForm.Meta attribute) (language.forms.SpecieSynonymForm.Meta attribute) (language.views.ListSpeciesView attribute) (samples.forms.UpdateSampleForm.Meta attribute) (samples.views.DeleteSampleView attribute) (samples.views.DetailSampleView attribute) (samples.views.ListSampleView attribute) (samples.views.UpdateSampleView attribute) (submissions.helpers.AnimalResource.Meta attribute) (submissions.helpers.SampleResource.Meta attribute) (uid.views.UpdateOrganizationView attribute) (zooma.tasks.AnnotateBreeds attribute) (zooma.tasks.AnnotateCountries attribute) (zooma.tasks.AnnotateDevelStage attribute) (zooma.tasks.AnnotateOrganismPart attribute) (zooma.tasks.AnnotatePhysioStage attribute) (zooma.tasks.AnnotateSpecies attribute) (zooma.tasks.AnnotateTaskMixin attribute)

model_in_submission() (biosample.tasks.submission.SplitSubmissionHelper method) module accounts.forms accounts.models accounts.views animals.forms animals.tasks animals.views biosample.forms biosample.helpers biosample.models biosample.tasks.cleanup biosample.tasks.retrieval biosample.tasks.submission biosample.views common.constants common.fields common.forms common.helpers common.storage common.tasks common.tests common.views crbanim.helpers crbanim.tasks cryoweb.helpers cryoweb.tasks excel.helpers excel.tasks language.forms language.helpers language.models language.views samples.forms samples.tasks samples.views submissions.helpers submissions.tasks uid.mixins uid.models uid.views validation.helpers validation.models zooma.helpers zooma.tasks zooma.views MyAccountForm (class in accounts.forms) MyAccountView (class in accounts.views) MyFormMixin (class in biosample.views) MyRegistrationManager (class in accounts.models) MyRegistrationProfile (class in accounts.models) MyRegistrationProfile.DoesNotExist MyRegistrationProfile.MultipleObjectsReturned

N

name (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.models.Account attribute) (biosample.models.ManagedTeam attribute) (biosample.models.OrphanSample attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) Name (class in uid.models) name (common.tasks.BaseTask attribute) (crbanim.tasks.ImportCRBAnimTask attribute) (cryoweb.tasks.ImportCryowebTask attribute) (excel.tasks.ImportTemplateTask attribute) (samples.tasks.BatchDeleteSamples attribute) (samples.tasks.BatchUpdateSamples attribute) (zooma.tasks.AnnotateAll attribute) (zooma.tasks.AnnotateBreeds attribute) (zooma.tasks.AnnotateCountries attribute) (zooma.tasks.AnnotateDevelStage attribute) (zooma.tasks.AnnotateOrganismPart attribute) (zooma.tasks.AnnotatePhysioStage attribute) (zooma.tasks.AnnotateSpecies attribute) (zooma.tasks.AnnotateTaskMixin attribute)

name_limit (biosample.models.SubmissionData attribute) (validation.models.ValidationResult attribute) NotifyAdminTaskMixin (class in common.tasks)

O

object_id (biosample.models.SubmissionData attribute) (validation.models.ValidationResult attribute) objects (accounts.models.MyRegistrationProfile attribute) (biosample.models.Account attribute) (biosample.models.ManagedTeam attribute) (biosample.models.OrphanSample attribute) (biosample.models.OrphanSubmission attribute) (biosample.models.Submission attribute) (biosample.models.SubmissionData attribute) (language.models.SpecieSynonym attribute) (validation.models.ValidationResult attribute) (validation.models.ValidationSummary attribute) on_failure() (common.tasks.BaseTask method) (common.tasks.NotifyAdminTaskMixin method) (submissions.tasks.SubmissionTaskMixin method) OntologiesReportView (class in zooma.views) Ontology (class in uid.models) Ontology.DoesNotExist

Ontology.MultipleObjectsReturned OntologyCacheError ordering (animals.views.ListAnimalView attribute) (language.views.ListSpeciesView attribute) (samples.views.ListSampleView attribute) Organization (class in uid.models) organization() (uid.mixins.BioSampleMixin property) Organization.DoesNotExist Organization.MultipleObjectsReturned OrphanSample (class in biosample.models) OrphanSample.DoesNotExist OrphanSample.MultipleObjectsReturned orphansample_set (biosample.models.ManagedTeam attribute) OrphanSubmission (class in biosample.models) OrphanSubmission.DoesNotExist OrphanSubmission.MultipleObjectsReturned owner() (biosample.tasks.submission.SubmissionHelper property) OwnerMixin (class in common.views) OwnerMixinTestCase (class in common.tests)

P

paginate_by (animals.views.ListAnimalView attribute) (language.views.ListSpeciesView attribute) (samples.views.ListSampleView attribute) parse_image_timedelta() (in module common.helpers) parse_json() (in module biosample.tasks.cleanup) pass_count (validation.models.ValidationSummary attribute) Person (class in uid.models) person() (uid.mixins.BioSampleMixin property) Person.DoesNotExist Person.MultipleObjectsReturned PersonForm (class in accounts.forms) PersonForm.Meta (class in accounts.forms) post() (zooma.views.AnnotateViewMixin method) print_line() (crbanim.helpers.CRBAnimReader method) priority (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute)

PrivacyView (class in uid.views) process_data() (biosample.tasks.submission.SplitSubmissionHelper method) process_model() (biosample.tasks.submission.SplitSubmissionHelper method) process_record() (in module crbanim.helpers) protected_view() (in module uid.views) ProtectedFileField (class in common.fields) ProtectedFileSystemStorage (class in common.storage) ProtectedImageField (class in common.fields) Publication (class in uid.models) Publication.DoesNotExist Publication.MultipleObjectsReturned

Q

queryset (language.views.CountryMixin attribute)

R

rate_limit (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) read_file() (crbanim.helpers.CRBAnimReader method) (excel.helpers.ExcelTemplateReader method) read_in_ruleset() (validation.helpers.MetaDataValidation method) read_samples() (biosample.tasks.submission.SubmissionHelper method) read_token() (biosample.tasks.submission.SubmissionHelper method) recover_submission() (biosample.tasks.submission.SubmissionHelper method) redis_lock() (in module common.tasks) register() (accounts.views.SignUpView method) RegisterMixin (class in biosample.views) RegisterUserForm (class in biosample.forms) RegisterUserForm.Meta (class in biosample.forms) RegisterUserView (class in biosample.views) registration_profile (accounts.views.ResendActivationView attribute) reject_on_worker_lost (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) remove_spaces() (language.models.SpecieSynonym class method) removed (biosample.models.OrphanSample attribute) removed_at (biosample.models.OrphanSample attribute) render_form_submitted_template() (accounts.views.ResendActivationView method) Replace (class in language.models) (class in uid.models)

request_stack (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) RequestFormMixin (class in common.forms) resend_activation_mail() (accounts.models.MyRegistrationManager method) ResendActivationView (class in accounts.views) reset() (validation.models.ValidationSummary method) reset_all_count() (validation.models.ValidationSummary method) response (common.tests.StatusMixinTestCase attribute) RetrievalCompleteTask (class in biosample.tasks.retrieval) ruleset (validation.helpers.MetaDataValidation attribute) RulesetError run() (animals.tasks.BatchDeleteAnimals method) (animals.tasks.BatchUpdateAnimals method) (biosample.tasks.cleanup.CleanUpTask method) (biosample.tasks.cleanup.SearchOrphanTask method) (biosample.tasks.retrieval.FetchStatusTask method) (biosample.tasks.retrieval.RetrievalCompleteTask method) (biosample.tasks.submission.SplitSubmissionTask method) (biosample.tasks.submission.SubmissionCompleteTask method) (biosample.tasks.submission.SubmitTask method) (cryoweb.tasks.ImportCryowebTask method) (samples.tasks.BatchDeleteSamples method) (samples.tasks.BatchUpdateSamples method) (submissions.tasks.ImportGenericTaskMixin method) (zooma.tasks.AnnotateAll method) (zooma.tasks.AnnotateBreeds method) (zooma.tasks.AnnotateCountries method) (zooma.tasks.AnnotateDevelStage method) (zooma.tasks.AnnotateOrganismPart method) (zooma.tasks.AnnotatePhysioStage method) (zooma.tasks.AnnotateSpecies method) (zooma.tasks.AnnotateTaskMixin method)

S

Sample (class in uid.models) Sample.DoesNotExist Sample.MultipleObjectsReturned sample_has_errors() (biosample.tasks.retrieval.FetchStatusHelper method) SampleResource (class in submissions.helpers) SampleResource.Meta (class in submissions.helpers) samples (validation.models.ValidationResult attribute) samples.forms module samples.tasks module samples.views module samples_count (biosample.models.BaseSubmission attribute) samples_status (biosample.models.BaseSubmission attribute) sanitize_url() (in module crbanim.helpers) SearchOrphanTask (class in biosample.tasks.cleanup) send_mail_to_admins() (in module common.helpers) send_message() (in module submissions.helpers) (submissions.tasks.SubmissionTaskMixin method) send_message_to_websocket() (in module common.helpers) serializer (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) setUp() (common.tests.AsyncIOMixin method) (common.tests.WebSocketMixin method) setUpClass() (common.tests.DataSourceMixinTestCase class method) SignUpForm (class in accounts.forms) SignUpPersonForm (class in accounts.forms) SignUpPersonForm.Meta (class in accounts.forms) SignUpUserForm (class in accounts.forms) SignUpUserForm.Meta (class in accounts.forms) SignUpView (class in accounts.views) specie() (uid.mixins.BioSampleMixin property) SpecieSynonym (class in language.models) SpecieSynonym.DoesNotExist SpecieSynonym.MultipleObjectsReturned SpecieSynonymForm (class in language.forms) SpecieSynonymForm.Meta (class in language.forms) SplitSubmissionHelper (class in biosample.tasks.submission) SplitSubmissionTask (class in biosample.tasks.submission) start_submission() (biosample.tasks.submission.SubmissionHelper method) (biosample.views.SubmitView method) status (biosample.models.BaseSubmission attribute) (biosample.models.OrphanSample attribute) (validation.models.ValidationResult attribute)

StatusMixinTestCase (class in common.tests) store_errors_even_if_ignored (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) submission (biosample.models.OrphanSample attribute) (biosample.models.SubmissionData attribute) Submission (class in biosample.models) (class in uid.models) submission (validation.models.ValidationResult attribute) (validation.models.ValidationSummary attribute) Submission.DoesNotExist, [1] Submission.MultipleObjectsReturned, [1] submission_data (biosample.models.OrphanSubmission attribute) (biosample.models.Submission attribute) submission_has_issues() (biosample.tasks.retrieval.FetchStatusHelper method) submission_id (biosample.models.OrphanSample attribute) (biosample.models.SubmissionData attribute) (biosample.views.SubmitView attribute) (validation.models.ValidationResult attribute) (validation.models.ValidationSummary attribute) submission_model (common.tests.DataSourceMixinTestCase attribute) SubmissionCompleteTask (class in biosample.tasks.submission) SubmissionData (class in biosample.models) SubmissionData.DoesNotExist SubmissionData.MultipleObjectsReturned SubmissionError SubmissionHelper (class in biosample.tasks.submission) submissions.helpers module submissions.tasks module SubmissionTaskMixin (class in submissions.tasks) SubmitForm (class in biosample.forms) SubmitTask (class in biosample.tasks.submission) SubmitView (class in biosample.views) success_url (accounts.views.ActivationView attribute) (accounts.views.MyAccountView attribute) (accounts.views.SignUpView attribute) (biosample.views.MyFormMixin attribute) (language.views.UpdateSpeciesView attribute) (uid.views.UpdateOrganizationView attribute) success_url_message (biosample.views.CreateUserView attribute) (biosample.views.GenerateTokenView attribute) (biosample.views.MyFormMixin attribute) (biosample.views.RegisterUserView attribute) SummaryView (class in uid.views)

T

task_class (zooma.views.AnnotateBreedsView attribute) (zooma.views.AnnotateCountriesView attribute) (zooma.views.AnnotateDevelStageView attribute) (zooma.views.AnnotateOrganismPartView attribute) (zooma.views.AnnotatePhysioStageView attribute) (zooma.views.AnnotateSpeciesView attribute) (zooma.views.AnnotateViewMixin attribute) task_name (zooma.views.AnnotateBreedsView attribute) (zooma.views.AnnotateCountriesView attribute) (zooma.views.AnnotateDevelStageView attribute) (zooma.views.AnnotateOrganismPartView attribute) (zooma.views.AnnotatePhysioStageView attribute) (zooma.views.AnnotateSpeciesView attribute) (zooma.views.AnnotateViewMixin attribute) team (biosample.models.Account attribute) (biosample.models.OrphanSample attribute) team_id (biosample.models.Account attribute) (biosample.models.OrphanSample attribute) team_name() (biosample.tasks.submission.SubmissionHelper property) tearDown() (common.tests.AsyncIOMixin method) (common.tests.WebSocketMixin method) tearDownClass() (common.tests.DataSourceMixinTestCase class method) template_name (accounts.views.ActivationComplete attribute) (accounts.views.ActivationView attribute) (accounts.views.MyAccountView attribute) (accounts.views.SignUpView attribute) (animals.views.DeleteAnimalView attribute) (animals.views.DetailAnimalView attribute) (animals.views.ListAnimalView attribute) (animals.views.UpdateAnimalView attribute) (biosample.views.CreateUserView attribute) (biosample.views.GenerateTokenView attribute) (biosample.views.RegisterUserView attribute) (biosample.views.SubmitView attribute) (biosample.views.TokenView attribute) (language.views.ListSpeciesView attribute) (language.views.UpdateSpeciesView attribute) (samples.views.DeleteSampleView attribute) (samples.views.DetailSampleView attribute) (samples.views.ListSampleView attribute) (samples.views.UpdateSampleView attribute) (uid.views.AboutSubmissionView attribute) (uid.views.AboutUploadingView attribute) (uid.views.AboutView attribute) (uid.views.DashBoardView attribute) (uid.views.IndexView attribute) (uid.views.PrivacyView attribute) (uid.views.SummaryView attribute) (uid.views.TermsView attribute) (uid.views.UpdateOrganizationView attribute) (zooma.views.OntologiesReportView attribute)

TermsView (class in uid.views) test_contains_form() (common.tests.FormMixinTestCase method) test_csrf() (common.tests.FormMixinTestCase method) test_form_errors() (common.tests.InvalidFormMixinTestCase method) test_ownership() (common.tests.OwnerMixinTestCase method) test_status_code() (common.tests.StatusMixinTestCase method) test_unathenticated() (common.tests.LoginMixinTestCase method) to_biosample() (uid.mixins.BioSampleMixin method) (uid.models.Animal method) (uid.models.Sample method) TokenMixin (class in biosample.views) TokenView (class in biosample.views) track_started (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute) truncate() (uid.mixins.BaseMixin class method) truncate_database() (in module uid.models) truncate_filled_tables() (in module uid.models) type (validation.models.ValidationSummary attribute) typing (animals.tasks.BatchDeleteAnimals attribute) (animals.tasks.BatchUpdateAnimals attribute) (biosample.tasks.cleanup.CleanUpTask attribute) (biosample.tasks.cleanup.SearchOrphanTask attribute) (biosample.tasks.retrieval.FetchStatusTask attribute) (biosample.tasks.retrieval.RetrievalCompleteTask attribute) (biosample.tasks.submission.SplitSubmissionTask attribute) (biosample.tasks.submission.SubmissionCompleteTask attribute) (biosample.tasks.submission.SubmitTask attribute) (common.tasks.BaseTask attribute)

U

uid.mixins module uid.models module uid.views module uid2biosample() (in module common.helpers) uid_report() (in module uid.models) uid_submission (biosample.models.Submission attribute) uid_submission_id (biosample.models.Submission attribute) update_message() (biosample.tasks.retrieval.RetrievalCompleteTask method) (biosample.tasks.submission.SubmissionCompleteTask method) update_submission_status() (submissions.tasks.SubmissionTaskMixin method) update_validationsummary() (biosample.tasks.retrieval.RetrievalCompleteTask method) UpdateAnimalForm (class in animals.forms) UpdateAnimalForm.Meta (class in animals.forms) UpdateAnimalView (class in animals.views) updated_at (biosample.models.BaseSubmission attribute)

UpdateMaterialMixin (class in common.views) UpdateOrganizationView (class in uid.views) UpdateSampleForm (class in samples.forms) UpdateSampleForm.Meta (class in samples.forms) UpdateSampleView (class in samples.views) UpdateSpeciesView (class in language.views) upload_crbanim() (in module crbanim.helpers) upload_cryoweb() (in module cryoweb.helpers) upload_datasource() (common.tests.DataSourceMixinTestCase method) upload_method (common.tests.DataSourceMixinTestCase attribute) upload_template() (in module excel.helpers) uploaded_file (common.tests.DataSourceMixinTestCase attribute) url (common.tests.LoginMixinTestCase attribute) user (biosample.models.Account attribute) user_id (biosample.models.Account attribute) UserForm (class in accounts.forms) UserForm.Meta (class in accounts.forms) usi_submission_name (biosample.models.BaseSubmission attribute) usi_submission_name() (biosample.tasks.submission.SubmissionHelper property)

V

validate() (validation.helpers.MetaDataValidation method) validation.helpers module validation.models module validation_known_count (validation.models.ValidationSummary attribute) ValidationResult (class in validation.models) validationresult() (uid.models.Name property)

ValidationResult.DoesNotExist ValidationResult.MultipleObjectsReturned validationresult_class (animals.views.UpdateAnimalView attribute) (common.views.UpdateMaterialMixin attribute) (samples.views.UpdateSampleView attribute) ValidationSummary (class in validation.models) ValidationSummary.DoesNotExist ValidationSummary.MultipleObjectsReturned

W

warning_count (validation.models.ValidationSummary attribute)

WebSocketMixin (class in common.tests) word (language.models.SpecieSynonym attribute)

Z

zooma.helpers module zooma.tasks module

zooma.views module