PyOpenWorm.data_trans.wormbase module¶

class PyOpenWorm.data_trans.wormbase.MuscleWormBaseCSVTranslator(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataTranslator

Input type(s): PyOpenWorm.data_trans.wormbase.WormBaseCSVDataSource

Output type(s): PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

URI: http://openworm.org/entities/translators/MuscleWormBaseCSVTranslator

input_type¶: alias of WormBaseCSVDataSource

output_type¶: alias of PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

translate(self, data_source)[source]¶: Upload muscles and the neurons that connect to them

class PyOpenWorm.data_trans.wormbase.NeuronWormBaseCSVTranslator(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataTranslator

Input type(s): PyOpenWorm.data_trans.wormbase.WormBaseCSVDataSource

Output type(s): PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

URI: http://openworm.org/entities/translators/NeuronWormBaseCSVTranslator

input_type¶: alias of WormBaseCSVDataSource

output_type¶: alias of PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

translate(self, data_source)[source]¶: Notionally, this method takes a data source, which is translated into some other data source. There doesn’t necessarily need to be an input data source.

class PyOpenWorm.data_trans.wormbase.WormBaseCSVDataSource(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataSource

CSV file name : DatatypeProperty

Attribute: csv_file_name

Header column names : DatatypeProperty

Attribute: csv_header

CSV field delimiter : DatatypeProperty

Attribute: csv_field_delimiter

File name : DatatypeProperty

Attribute: file_name

MD5 hash : DatatypeProperty

Attribute: md5

SHA-256 hash : DatatypeProperty

Attribute: sha256

SHA-512 hash : DatatypeProperty

Attribute: sha512

Input source : ObjectProperty

Attribute: source

The data source that was translated into this one

Translation : ObjectProperty

Attribute: translation

Information about the translation process that created this object

Description : DatatypeProperty

Attribute: description

Free-text describing the data source

class PyOpenWorm.data_trans.wormbase.WormbaseIonChannelCSVDataSource(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataSource

CSV file name : DatatypeProperty

Attribute: csv_file_name

Header column names : DatatypeProperty

Attribute: csv_header

CSV field delimiter : DatatypeProperty

Attribute: csv_field_delimiter

File name : DatatypeProperty

Attribute: file_name

MD5 hash : DatatypeProperty

Attribute: md5

SHA-256 hash : DatatypeProperty

Attribute: sha256

SHA-512 hash : DatatypeProperty

Attribute: sha512

Input source : ObjectProperty

Attribute: source

The data source that was translated into this one

Translation : ObjectProperty

Attribute: translation

Information about the translation process that created this object

Description : DatatypeProperty

Attribute: description

Free-text describing the data source

class PyOpenWorm.data_trans.wormbase.WormbaseIonChannelCSVTranslator(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataTranslator

Input type(s): PyOpenWorm.data_trans.wormbase.WormbaseIonChannelCSVDataSource

Output type(s): PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

URI: http://openworm.org/entities/translators/WormbaseIonChannelCSVTranslator

input_type¶: alias of WormbaseIonChannelCSVDataSource

output_type¶: alias of PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

translate(self, data_source)[source]¶: Notionally, this method takes a data source, which is translated into some other data source. There doesn’t necessarily need to be an input data source.

class PyOpenWorm.data_trans.wormbase.WormbaseTextMatchCSVDataSource(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataSource

initial_cell_column : DatatypeProperty

Attribute: initial_cell_column

The index of the first column with a cell name

cell_type : DatatypeProperty

Attribute: cell_type

The type of cell to be produced

CSV file name : DatatypeProperty

Attribute: csv_file_name

Header column names : DatatypeProperty

Attribute: csv_header

CSV field delimiter : DatatypeProperty

Attribute: csv_field_delimiter

File name : DatatypeProperty

Attribute: file_name

MD5 hash : DatatypeProperty

Attribute: md5

SHA-256 hash : DatatypeProperty

Attribute: sha256

SHA-512 hash : DatatypeProperty

Attribute: sha512

Input source : ObjectProperty

Attribute: source

The data source that was translated into this one

Translation : ObjectProperty

Attribute: translation

Information about the translation process that created this object

Description : DatatypeProperty

Attribute: description

Free-text describing the data source

class PyOpenWorm.data_trans.wormbase.WormbaseTextMatchCSVTranslator(**kwargs)[source]¶

Bases: PyOpenWorm.data_trans.csv_ds.CSVDataTranslator

Input type(s): PyOpenWorm.data_trans.wormbase.WormbaseTextMatchCSVDataSource

Output type(s): PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

URI: http://openworm.org/entities/translators/WormbaseTextMatchCSVTranslator

input_type¶: alias of WormbaseTextMatchCSVDataSource

output_type¶: alias of PyOpenWorm.data_trans.data_with_evidence_ds.DataWithEvidenceDataSource

translate(self, data_source)[source]¶: Notionally, this method takes a data source, which is translated into some other data source. There doesn’t necessarily need to be an input data source.