A C D E F G I J M O P R S T U W
All Classes All Packages

A

add(K, V) - Method in class org.rcsb.mmtf.spark.utils.TwoWayHashmap

Add a new key value pair

Atom - Class in org.rcsb.mmtf.spark.data

Class to enclose Atom level information.

Atom() - Constructor for class org.rcsb.mmtf.spark.data.Atom

AtomDataset - Class in org.rcsb.mmtf.spark.data

Wrapper using JavaRDD and Dataset of Atom

AtomDataset(JavaRDD<Atom>) - Constructor for class org.rcsb.mmtf.spark.data.AtomDataset

Public constructor from a JavaRDD of Atom

AtomDataset(JavaRDD<Atom>, String) - Constructor for class org.rcsb.mmtf.spark.data.AtomDataset

Construct a table with a given table name.

atomNameList(String[]) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the array of atom names allowed.

atomNameList(List<String>) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the list of atom names allowed.

AtomSelectObject - Class in org.rcsb.mmtf.spark.data

Class to make selections of atoms to be considered for inter-atom contacts.

AtomSelectObject() - Constructor for class org.rcsb.mmtf.spark.data.AtomSelectObject

Empty constructor sets the defaults.

AtomSelectObject(String[], String[], String[], boolean, String) - Constructor for class org.rcsb.mmtf.spark.data.AtomSelectObject

Constructor for the atom select object that takes all the input

C

cache() - Method in class org.rcsb.mmtf.spark.data.AtomDataset

Cache the data.

cache() - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Cache the data.

cache() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Cache the underlying RDD.

call(Integer) - Method in class org.rcsb.mmtf.spark.mappers.FlatMapIntList

call(Integer) - Method in class org.rcsb.mmtf.spark.mappers.MapToPairs

call(String) - Method in class org.rcsb.mmtf.spark.mappers.GetData

call(StructureDataInterface) - Method in class org.rcsb.mmtf.spark.mappers.MapToAtoms

call(StructureDataInterface) - Method in class org.rcsb.mmtf.spark.mappers.MapToGroups

call(Tuple2<String, byte[]>) - Method in class org.rcsb.mmtf.spark.mappers.StringByteToTextByteWriter

call(Tuple2<String, StructureDataInterface>) - Method in class org.rcsb.mmtf.spark.mappers.GenerateSegments

ChainExample - Class in org.rcsb.mmtf.spark.examples

An example of taking a list of PDB IDs, pulling them from the MMTF server and returning a SegmentDataRDD of their calpha chains.

ChainExample() - Constructor for class org.rcsb.mmtf.spark.examples.ChainExample

CHANGELOG_LOCATION - Static variable in class org.rcsb.mmtf.spark.utils.SparkUtils

The URL to find the Changelog for MMTF.

charged(boolean) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set whether charged elements spuld be found

CheckPdbIdExists - Class in org.rcsb.mmtf.spark.examples

Check a given PDB exists in a hadoop sequence file

CheckPdbIdExists() - Constructor for class org.rcsb.mmtf.spark.examples.CheckPdbIdExists

combineDirToFile(File, String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Join a Spark output dir of text files into a single text file.

Contact - Class in org.rcsb.mmtf.spark.data

A bean to store Atom Atom contact information.

Contact() - Constructor for class org.rcsb.mmtf.spark.data.Contact

convertToDataFrame(JavaRDD<T>, Class<T>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Convert a JavaRDD to a Dataframe (Spark 2.0.0 Dataset(Row) = Dataframe) of the same type.

convertToDataset(JavaRDD<T>, Class<T>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Convert a JavaRDD to a Dataset of the same type.

D

downloadPdb(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Function to download the PDB and place it on the file system.

DownloadPdb - Class in org.rcsb.mmtf.spark.examples

Simple example of how to download the PDB.

DownloadPdb() - Constructor for class org.rcsb.mmtf.spark.examples.DownloadPdb

E

elementNameList(String[]) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the array of element names allowed.

elementNameList(List<String>) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the list of element names allowed.

F

filePath(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Set the file path of the Hadoop file to read.

filterLength(int, int) - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Filter the RDD based on a minimum and maximum length.

filterMaxLength(int) - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Filter the RDD based on a maximum length.

filterMinLength(int) - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Filter the RDD based on a minimum length.

filterResolution(double) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Filter the StructureDataRDD based on resolution.

filterResolution(double, double) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Filter the StructureDataRDD based on resolution.

filterRfree(double) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Filter the StructureDataRDD based on R-free.

filterRfree(double, double) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Filter the StructureDataRDD based on R-free.

findNonRedundantSet(double) - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Filter the segments so a non-redundant set is available.

findUpdates(String, Date) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Find the updates from the change logs using.

FlatMapIntList - Class in org.rcsb.mmtf.spark.mappers

Converts an Integer into a list of integers.

FlatMapIntList() - Constructor for class org.rcsb.mmtf.spark.mappers.FlatMapIntList

FragmentExample - Class in org.rcsb.mmtf.spark.examples

An example generating fragments from the whole PDB and then clustering them.

FragmentExample() - Constructor for class org.rcsb.mmtf.spark.examples.FragmentExample

FULL_LOCATION - Static variable in class org.rcsb.mmtf.spark.utils.SparkUtils

The URL to find the Hadoop sequence file for the full version of MMTF.

G

generateAtomSelectObject(List<String>, List<String>, boolean, List<String>, String) - Method in class org.rcsb.mmtf.spark.utils.SparkUtils

Utility function to generate an AtomSelectObject.

GenerateMoments - Class in org.rcsb.mmtf.spark.mappers

Generate the USR moments for a given Point3d array.

GenerateMoments() - Constructor for class org.rcsb.mmtf.spark.mappers.GenerateMoments

GenerateSegments - Class in org.rcsb.mmtf.spark.mappers

A mapper from StructureDataInterface to the Point3d[] of the calpha coordinates.

GenerateSegments(Integer) - Constructor for class org.rcsb.mmtf.spark.mappers.GenerateSegments

Constructor of the class.

getAtom_number() - Method in class org.rcsb.mmtf.spark.data.Atom

getAtomNameList() - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

getAtomOne() - Method in class org.rcsb.mmtf.spark.data.Contact

getAtoms() - Method in class org.rcsb.mmtf.spark.data.Group

getAtoms() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Get the atoms in the StructureDataRDD as an AtomDataset.

getAtomTwo() - Method in class org.rcsb.mmtf.spark.data.Contact

getBackward(V) - Method in class org.rcsb.mmtf.spark.utils.TwoWayHashmap

Get a value using a key in the backward way.

getCalpha() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Get the Point3d of the C-alpha co-ordinate data as lightweight point 3d objects.

getCalpha(StructureDataInterface, int, int) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the calpha as a Point3d.

getCalphaChains(String[]) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the Calpha chains for a few structures as a SegmentDataRDD.

getChain_id() - Method in class org.rcsb.mmtf.spark.data.Atom

getCharge() - Method in class org.rcsb.mmtf.spark.data.Atom

getComparisonMatrix(int) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get a JavaPairRDD of Integers to do a half matrix comparison.

getConf() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the SparkConf for this run.

getCoordinates() - Method in class org.rcsb.mmtf.spark.data.Segment

GetData - Class in org.rcsb.mmtf.spark.mappers

Create an RDD by pulling data from the MMTF servers.

GetData() - Constructor for class org.rcsb.mmtf.spark.mappers.GetData

getDataAsByteArray(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Helper function to get the data for a PDB id as an gzip compressed byte array.

getDataframe() - Method in class org.rcsb.mmtf.spark.data.AtomDataset

getDataframe() - Method in class org.rcsb.mmtf.spark.data.ResultsSet

getDistance() - Method in class org.rcsb.mmtf.spark.data.Contact

getElement() - Method in class org.rcsb.mmtf.spark.data.Atom

getElementNameList() - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

getFilePath() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the path to the Hadoop sequence file to read.

getForward(K) - Method in class org.rcsb.mmtf.spark.utils.TwoWayHashmap

Get a value using a key in the conventional way.

getFragments(int) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Get the Point3d of the C-alpha co-ordinate data as lightweight point 3d objects.

getFromList(List<String>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Generate a JavaPairRDD of String (PDB ID) and Value StructureDataInterface from a list of PDB ids

getFullPdbFile() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the path for where the full PDB file will be stored.

getGroup_name() - Method in class org.rcsb.mmtf.spark.data.Atom

getGroup_number() - Method in class org.rcsb.mmtf.spark.data.Atom

getGroupName() - Method in class org.rcsb.mmtf.spark.data.Group

getGroupNameList() - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

getGroupNumber() - Method in class org.rcsb.mmtf.spark.data.Group

getGroupType() - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

getHadoopBase() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the base path of where to store Hadoop data.

getHalfCartesian(JavaPairRDD<K, V>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get a half cartesian - using the first part of the input RDD as a string key.

getHalfCartesian(JavaPairRDD<K, V>, int) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get a half cartesian - using the first part of the input RDD as a string key.

getJavaPairRdd() - Method in class org.rcsb.mmtf.spark.data.MmtfStructureData

getJavaRdd() - Method in class org.rcsb.mmtf.spark.data.SegmentClusters

Get the JavaPairRDD for this class.

getJavaRdd() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Get the JavaPairRDD of String StructureDataInterface for this instance

getJavaRdd(Dataset<T>, Class<T>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get a JavaRDD from a Dataset.

getLengthDist() - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Get the length distribution of this RDD.

getMmtfStructureRdd(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get a JavaPairRDD of String MmtfStructure from a file path

getMoments(Point3d[]) - Static method in class org.rcsb.mmtf.spark.mappers.GenerateMoments

Generate the USR moments for a given input array of 3D points.

getName() - Method in class org.rcsb.mmtf.spark.data.Atom

getPdb_id() - Method in class org.rcsb.mmtf.spark.data.Atom

getRdd() - Method in class org.rcsb.mmtf.spark.data.AtomDataset

getReduced() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Covert the StructureDataRDD to the reduced format.

getSegmentRDD() - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Get the JavaPairRDD of the String Segment data.

getSequence() - Method in class org.rcsb.mmtf.spark.data.Segment

getSparkContext() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the JavaSparkContext for this run.

getSparkContext(SparkConf) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the JavaSparkContext for this run.

getSparkSession() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the SparkSession for this run

getSqlContext() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the SQLContext for producing datasets and data frames.

getStructureDataRdd(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get an JavaPairRDD of String StructureDataInterface from a file path.

getStructureObj(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Get the StructureDataRDD from a file path.

getTableName() - Method in class org.rcsb.mmtf.spark.data.AtomDataset

getTableName() - Method in class org.rcsb.mmtf.spark.data.ResultsSet

getX() - Method in class org.rcsb.mmtf.spark.data.Atom

getY() - Method in class org.rcsb.mmtf.spark.data.Atom

getZ() - Method in class org.rcsb.mmtf.spark.data.Atom

Group - Class in org.rcsb.mmtf.spark.data

A basic group representation.

Group() - Constructor for class org.rcsb.mmtf.spark.data.Group

groupBySequence() - Method in class org.rcsb.mmtf.spark.data.SegmentDataRDD

Group by sequence identity.

groupNameList(String[]) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the array of group names allowed.

groupNameList(List<String>) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the list of group names allowed.

groupType(String) - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

Set the type of group allowed.

gzipCompress(byte[]) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Compress a byte array using Gzip.

I

isCharged() - Method in class org.rcsb.mmtf.spark.data.AtomSelectObject

J

joinAndSave(JavaPairRDD<Text, BytesWritable>, JavaPairRDD<Text, BytesWritable>, String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Join two RDDs together into one larger one and save it as a new file

joinDatasets(JavaPairRDD<Text, BytesWritable>, JavaPairRDD<Text, BytesWritable>) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Join two RDDs together into one larger one.

M

main(String[]) - Static method in class org.rcsb.mmtf.spark.examples.ChainExample

The main function to take the input IDs.

main(String[]) - Static method in class org.rcsb.mmtf.spark.examples.CheckPdbIdExists

Main function to check if a given file is in the PDB file and to check if all can be parsed.

main(String[]) - Static method in class org.rcsb.mmtf.spark.examples.DownloadPdb

Simple example of how to download the PDB.

main(String[]) - Static method in class org.rcsb.mmtf.spark.examples.FragmentExample

Function to fragment and group those fragments based on sequence identity.

main(String[]) - Static method in class org.rcsb.mmtf.spark.examples.UpdatePdb

The main method to run the example.

MapToAtoms - Class in org.rcsb.mmtf.spark.mappers

Flat map a StructureDataInterface to it's underlying atoms.

MapToAtoms() - Constructor for class org.rcsb.mmtf.spark.mappers.MapToAtoms

MapToGroups - Class in org.rcsb.mmtf.spark.mappers

Map a StructureDataInterface to its groups.

MapToGroups() - Constructor for class org.rcsb.mmtf.spark.mappers.MapToGroups

MapToPairs - Class in org.rcsb.mmtf.spark.mappers

Map the individual numbers to pairs of integers - to do half matrix comparisons.

MapToPairs(int) - Constructor for class org.rcsb.mmtf.spark.mappers.MapToPairs

Constructor takes the to

MmtfStructureData - Class in org.rcsb.mmtf.spark.data

Class to hold the undecoded MmtfStructure data.

MmtfStructureData(String) - Constructor for class org.rcsb.mmtf.spark.data.MmtfStructureData

Constructor from a file.

MmtfStructureData(JavaPairRDD<String, MmtfStructure>) - Constructor for class org.rcsb.mmtf.spark.data.MmtfStructureData

Constructor from am RDD

O

org.rcsb.mmtf.spark.data - package org.rcsb.mmtf.spark.data

org.rcsb.mmtf.spark.examples - package org.rcsb.mmtf.spark.examples

org.rcsb.mmtf.spark.mappers - package org.rcsb.mmtf.spark.mappers

org.rcsb.mmtf.spark.utils - package org.rcsb.mmtf.spark.utils

P

parseDate(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Parse the date as it is stored in the String.

R

readHadoopFile(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Read a hadoop sequence file to a Strign byte[] pair.

REDUCED_LOCATION - Static variable in class org.rcsb.mmtf.spark.utils.SparkUtils

The URL to find the Hadoop sequence file for the reduced version of MMTF.

ResultsSet - Class in org.rcsb.mmtf.spark.data

A convenience wrapper for a Spark results set.

ResultsSet(Dataset<Row>, String) - Constructor for class org.rcsb.mmtf.spark.data.ResultsSet

Construct a Dataset from a DatasetRow normally as a result of another query.

S

sample(double) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Allow the user to sample the data.

saveToFile(String) - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Save the data as a Hadoop sequence file.

Segment - Class in org.rcsb.mmtf.spark.data

Simple data structure for segments of proteins, e.g.

Segment(String, Point3d[]) - Constructor for class org.rcsb.mmtf.spark.data.Segment

Constructor for the Segment object.

SegmentClusters - Class in org.rcsb.mmtf.spark.data

A class to consider clusters of segmenets.

SegmentClusters(JavaPairRDD<String, Iterable<Segment>>) - Constructor for class org.rcsb.mmtf.spark.data.SegmentClusters

Constructor of FragmentClusters.

SegmentDataRDD - Class in org.rcsb.mmtf.spark.data

A class to hold information and utilities around Segment information.

SegmentDataRDD(JavaPairRDD<String, Segment>) - Constructor for class org.rcsb.mmtf.spark.data.SegmentDataRDD

A constructor for the class.

selectSubset(String, float) - Method in class org.rcsb.mmtf.spark.utils.SparkUtils

Select a subset of the PDB in a fast and efficient way.

selectSubset(String, List<String>) - Method in class org.rcsb.mmtf.spark.utils.SparkUtils

Select a subset of the PDB in a fast and efficient way.

setAtom_number(int) - Method in class org.rcsb.mmtf.spark.data.Atom

setAtomOne(Atom) - Method in class org.rcsb.mmtf.spark.data.Contact

setAtoms(List<Atom>) - Method in class org.rcsb.mmtf.spark.data.Group

setAtomTwo(Atom) - Method in class org.rcsb.mmtf.spark.data.Contact

setChain_id(String) - Method in class org.rcsb.mmtf.spark.data.Atom

setCharge(short) - Method in class org.rcsb.mmtf.spark.data.Atom

setDataframe(Dataset<Row>) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

setDataframe(Dataset<Row>) - Method in class org.rcsb.mmtf.spark.data.ResultsSet

setDistance(float) - Method in class org.rcsb.mmtf.spark.data.Contact

setElement(String) - Method in class org.rcsb.mmtf.spark.data.Atom

setGroup_name(String) - Method in class org.rcsb.mmtf.spark.data.Atom

setGroup_number(int) - Method in class org.rcsb.mmtf.spark.data.Atom

setGroupName(String) - Method in class org.rcsb.mmtf.spark.data.Group

setGroupNumber(int) - Method in class org.rcsb.mmtf.spark.data.Group

setName(String) - Method in class org.rcsb.mmtf.spark.data.Atom

setPdb_id(String) - Method in class org.rcsb.mmtf.spark.data.Atom

setRdd(JavaRDD<Atom>) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

setTableName(String) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

setTableName(String) - Method in class org.rcsb.mmtf.spark.data.ResultsSet

setX(float) - Method in class org.rcsb.mmtf.spark.data.Atom

setY(float) - Method in class org.rcsb.mmtf.spark.data.Atom

setZ(float) - Method in class org.rcsb.mmtf.spark.data.Atom

show() - Method in class org.rcsb.mmtf.spark.data.AtomDataset

Show the first few lines of the data.

show() - Method in class org.rcsb.mmtf.spark.data.ResultsSet

Show the first 20 lines of the dataset.

show(int) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

Show the first few X lines of the data.

show(int) - Method in class org.rcsb.mmtf.spark.data.ResultsSet

Show the first N lines of the dataset.

shutdown() - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Gently shutdown at the end of a run.

size() - Method in class org.rcsb.mmtf.spark.data.SegmentClusters

Get the number of clusters available.

size() - Method in class org.rcsb.mmtf.spark.data.StructureDataRDD

Get the number of entries in the RDD.

SparkUtils - Class in org.rcsb.mmtf.spark.utils

A class of Spark utility methods

SparkUtils() - Constructor for class org.rcsb.mmtf.spark.utils.SparkUtils

sql(String) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

Perform SQL on the underlying data.

sql(String) - Method in class org.rcsb.mmtf.spark.data.ResultsSet

Perform an SQL query on the dataset.

sql(String, String) - Method in class org.rcsb.mmtf.spark.data.AtomDataset

Perform SQL on the underlying data.

sql(String, String) - Method in class org.rcsb.mmtf.spark.data.ResultsSet

Perform an SQL query on the dataset.

StringByteToTextByteWriter - Class in org.rcsb.mmtf.spark.mappers

Converts a tuple of string and byte array, to a Text and Bytes writeable.

StringByteToTextByteWriter() - Constructor for class org.rcsb.mmtf.spark.mappers.StringByteToTextByteWriter

StructureDataRDD - Class in org.rcsb.mmtf.spark.data

A class to provide functions on a series of StructureDataInterface objects.

StructureDataRDD() - Constructor for class org.rcsb.mmtf.spark.data.StructureDataRDD

Empty constructor reads the sample data if SparkUtils has not been set with a path.

StructureDataRDD(String) - Constructor for class org.rcsb.mmtf.spark.data.StructureDataRDD

Constructor from a file.

StructureDataRDD(String[]) - Constructor for class org.rcsb.mmtf.spark.data.StructureDataRDD

Construtor from an array of PDB ids.

StructureDataRDD(List<String>) - Constructor for class org.rcsb.mmtf.spark.data.StructureDataRDD

Constructor from a list of PDB ids.

StructureDataRDD(JavaPairRDD<String, StructureDataInterface>) - Constructor for class org.rcsb.mmtf.spark.data.StructureDataRDD

Constructor from a JavaPairRDD of String and StructureDataInterface.

T

TwoWayHashmap<K,V> - Class in org.rcsb.mmtf.spark.utils

A class to have a bi-directional map.

TwoWayHashmap() - Constructor for class org.rcsb.mmtf.spark.utils.TwoWayHashmap

U

updatePdb(String) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Update the PDB data from when it was last updated.

UpdatePdb - Class in org.rcsb.mmtf.spark.examples

An example of how to update the local copy of the PDB

UpdatePdb() - Constructor for class org.rcsb.mmtf.spark.examples.UpdatePdb

W

writeDate(Date) - Static method in class org.rcsb.mmtf.spark.utils.SparkUtils

Write the date out as a string using the format we are using.

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