UMol.Reader Class Reference

Inheritance diagram for UMol.Reader:

Classes
struct	secStruct

Public Member Functions
	Reader ()
	Reader (string fileName)
void	updateFileNames ()
UnityMolStructure	Read (bool readHet=true, bool readWater=true)
	Reads a file from local HDD and parses the data More...

Static Public Member Functions
static void	identifyStructureMolecularType (UnityMolStructure s)
	Fills the structureType field in the UnityMolStructure class based on atom names More...
static Reader	GuessReaderFrom (string filename, string format="")

Static Public Attributes
static int	limitBigMolecule = 5000

Protected Member Functions
abstract UnityMolStructure	ReadData (StreamReader sr, bool readHet=true, bool readWater=true, bool simplyParse=false)

Static Protected Member Functions
static void	FillSecondaryStructure (UnityMolStructure structure, List< secStruct > secStructsList)
static void	CreateColliders (UnityMolSelection sel)
	Creates sphere collider for each atom of the current model of the structure More...
static bool	QuickStartWith (string full, string comp)
	Check if the string full contains at the begining, the string comp More...
static string	findNewAtomName (HashSet< string > residueAtoms, string name)

Protected Attributes
string	fileName
string	fileNameWithoutExtension

Constructor & Destructor Documentation

Reader() [1/2]

UMol.Reader.Reader

(

)

Reader() [2/2]

UMol.Reader.Reader

(

string

fileName

)

Member Function Documentation

CreateColliders()

static void UMol.Reader.CreateColliders ( UnityMolSelection  sel )

staticprotected

Creates sphere collider for each atom of the current model of the structure

LightAtomComparer is defined in UnityMolAtom.cs and make sure that we can find the GameObject of an atom even if the model is not the same

FillSecondaryStructure()

static void UMol.Reader.FillSecondaryStructure ( UnityMolStructure  structure, List< secStruct >  secStructsList  )

staticprotected

findNewAtomName()

static string UMol.Reader.findNewAtomName ( HashSet< string >  residueAtoms, string  name  )

staticprotected

GuessReaderFrom()

static Reader UMol.Reader.GuessReaderFrom ( string  filename, string  format = ""  )

static

identifyStructureMolecularType()

static void UMol.Reader.identifyStructureMolecularType ( UnityMolStructure  s )

static

Fills the structureType field in the UnityMolStructure class based on atom names

QuickStartWith()

static bool UMol.Reader.QuickStartWith ( string  full, string  comp  )

staticprotected

Check if the string full contains at the begining, the string comp

Read()

UnityMolStructure UMol.Reader.Read	(	bool	readHet = true,
		bool	readWater = true
	)

Reads a file from local HDD and parses the data

ReadData()

abstract UnityMolStructure UMol.Reader.ReadData ( StreamReader  sr, bool  readHet = true, bool  readWater = true, bool  simplyParse = false  )

protectedpure virtual

Implemented in UMol.PDBReader, UMol.PDBxReader, UMol.SDFReader, UMol.GROReader, UMol.XYZReader, and UMol.MOL2Reader.

updateFileNames()

void UMol.Reader.updateFileNames

(

)

Member Data Documentation

fileName

string UMol.Reader.fileName

protected

fileNameWithoutExtension

string UMol.Reader.fileNameWithoutExtension

protected

limitBigMolecule

int UMol.Reader.limitBigMolecule = 5000

static

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The documentation for this class was generated from the following file:

• C:/Users/Xavier/Dev/UnityMolX/Assets/Scripts/ParseData/Reader.cs