mmtfPyspark.datasets.customReportService module¶

customReportService.py

This class uses RCSB PDB Tabular Report RESTful webservices to retrieve metadata and annotations for all current entries in the ProteinDataBank.

References¶

List of supported fieldnames: http://www.rcsb.org/pdb/results/reportField.do
The RCSB Protein Data Bank:redesignedwebsiteandwebservices2011NucleicAcidsRes.39:D392-D401. https://dx.doi.org/10.1093/nar/gkq1021

Retrieve PubMedCentral, PubMedID, and Depositiondate:

>>> ds = customReportService.get_dataset("pmc","pubmedId","depositionDate")
>>> ds.printSchema()
>>> ds.show(5)

get_dataset(columnNames)[source]¶

Returns a dataset with the specified columns for all current PDB entires. See <a href=”https://www.rcsb.org/pdb/results/reportField.do”> for a list of supported filed names

Parameters:

Parameters:	columnNames : str, list names of columns for the dataset
Returns:	dataset dataset with the specified columns

columnNames : str, list

names of columns for the dataset

Returns:

dataset

dataset with the specified columns