uploader.models.BioSample

class uploader.models.BioSample(*args, **kwargs)[source]

Model biological sample and collection method.

visit

The visit that this sample belongs to.

Type:: django.models.ForeignKey of Visit

sample_cid

Sample ID provided by center responsible for sample collection.

Type:: django.models.CharField, optional

sample_study_id

Sample study ID.

Type:: django.models.CharField, optional

sample_study_name

Sample study name.

Type:: django.models.CharField, optional

sample_type

The type of biosample e.g., nasal swab, pharyngeal swab, urine, etc.

Type:: django.models.ForeignKey of BioSampleType

sample_processing

Sample processing description.

Type:: django.models.CharField, optional

sample_extraction

Sample extraction description.

Type:: django.models.CharField, optional

sample_extraction_tube

Sample extraction tube brand name.

Type:: django.models.CharField, optional

centrifuge_time

Extraction tube centrifuge time [seconds].

Type:: django.models.IntegerField, optional

centrifuge_rpm

Extraction tube centrifuge RPM.

Type:: django.models.IntegerField, optional

freezing_temp

Freezing temperature [C].

Type:: django.models.FloatField, optional

thawing_temp

Thawing temperature [C].

Type:: django.models.FloatField, optional

thawing_time

Thawing time [minutes].

Type:: django.models.FloatField, optional

freezing_time

Freezing time [days].

Type:: django.models.FloatField, optional

__init__(*args, **kwargs)

Methods

`__init__`(args, *kwargs)
`adelete`([using, keep_parents])
`arefresh_from_db`([using, fields, from_queryset])
`asave`(*args[, force_insert, force_update, ...])
`check`(**kwargs)
`clean`()	Hook for doing any extra model-wide validation after clean() has been called on every field by self.clean_fields.
`clean_fields`([exclude])	Clean all fields and raise a ValidationError containing a dict of all validation errors if any occur.
`date_error_message`(lookup_type, field_name, ...)
`delete`([using, keep_parents])
`from_db`(db, field_names, values)
`full_clean`([exclude, validate_unique, ...])	Call clean_fields(), clean(), validate_unique(), and validate_constraints() on the model.
`get_column_names`([help_text])
`get_constraints`()
`get_deferred_fields`()	Return a set containing names of deferred fields for this instance.
`get_next_by_created_at`(*[, field, is_next])
`get_next_by_updated_at`(*[, field, is_next])
`get_previous_by_created_at`(*[, field, is_next])
`get_previous_by_updated_at`(*[, field, is_next])
`parse_fields_from_pandas_series`(series)	Parse the pandas series for field values returning a dict.
`prepare_database_save`(field)
`refresh_from_db`([using, fields, from_queryset])	Reload field values from the database.
`save`(*args[, force_insert, force_update, ...])	Save the current instance.
`save_base`([raw, force_insert, force_update, ...])	Handle the parts of saving which should be done only once per save, yet need to be done in raw saves, too.
`serializable_value`(field_name)	Return the value of the field name for this instance.
`unique_error_message`(model_class, unique_check)
`validate_constraints`([exclude])
`validate_unique`([exclude])	Check unique constraints on the model and raise ValidationError if any failed.

Attributes

`center`
`centrifuge_rpm`	A wrapper for a deferred-loading field.
`centrifuge_time`	A wrapper for a deferred-loading field.
`created_at`	A wrapper for a deferred-loading field.
`freezing_temp`	A wrapper for a deferred-loading field.
`freezing_time`	A wrapper for a deferred-loading field.
`id`	A wrapper for a deferred-loading field.
`objects`
`pk`
`sample_cid`	A wrapper for a deferred-loading field.
`sample_extraction`	A wrapper for a deferred-loading field.
`sample_extraction_tube`	A wrapper for a deferred-loading field.
`sample_processing`	A wrapper for a deferred-loading field.
`sample_study_id`	A wrapper for a deferred-loading field.
`sample_study_name`	A wrapper for a deferred-loading field.
`sample_type`	Accessor to the related object on the forward side of a many-to-one or one-to-one (via ForwardOneToOneDescriptor subclass) relation.
`sample_type_id`
`spectral_data`	Accessor to the related objects manager on the reverse side of a many-to-one relation.
`thawing_temp`	A wrapper for a deferred-loading field.
`thawing_time`	A wrapper for a deferred-loading field.
`updated_at`	A wrapper for a deferred-loading field.
`visit`	Accessor to the related object on the forward side of a many-to-one or one-to-one (via ForwardOneToOneDescriptor subclass) relation.
`visit_id`