Class PDBFileParser
- java.lang.Object
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- com.actelion.research.chem.io.pdb.parser.PDBFileParser
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public class PDBFileParser extends java.lang.Object
PDBFileParserCopyright: Idorsia Pharmaceuticals Ltd., Inc. All Rights Reserved This software is the proprietary information of Idorsia Pharmaceuticals, Ltd. Use is subject to license terms.
Created by korffmo1 on 20.03.18.
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Field Summary
Fields Modifier and Type Field Description static java.lang.String
DATE_FORMAT
static java.lang.String
TAG_ANISOU
static java.lang.String
TAG_ATOM
static java.lang.String
TAG_AUTHOR
static java.lang.String
TAG_CAVEAT
static java.lang.String
TAG_CISPEP
static java.lang.String
TAG_COMPND
static java.lang.String
TAG_CONECT
static java.lang.String
TAG_CRYST1
static java.lang.String
TAG_DBREF
static java.lang.String
TAG_DBREF1_DBREF2
static java.lang.String
TAG_END
static java.lang.String
TAG_ENDMDL
static java.lang.String
TAG_EXPDTA
static java.lang.String
TAG_FORMUL
static java.lang.String
TAG_HEADER
static java.lang.String
TAG_HELIX
static java.lang.String
TAG_HET
static java.lang.String
TAG_HETATM
static java.lang.String
TAG_HETNAM
static java.lang.String
TAG_HETSYN
static java.lang.String
TAG_JRNL
static java.lang.String
TAG_KEYWDS
static java.lang.String
TAG_LINK
static java.lang.String
TAG_MASTER
static java.lang.String
TAG_MDLTYP
static java.lang.String
TAG_MODEL
static java.lang.String
TAG_MODRES
static java.lang.String
TAG_MTRIX1
static java.lang.String
TAG_MTRIX2
static java.lang.String
TAG_MTRIX3
static java.lang.String
TAG_NUMMDL
static java.lang.String
TAG_OBSOLTE
static java.lang.String
TAG_ORIGX1
static java.lang.String
TAG_ORIGX2
static java.lang.String
TAG_ORIGX3
static java.lang.String
TAG_REMARK
static java.lang.String
TAG_REMARK_N
static java.lang.String
TAG_REMARK0
static java.lang.String
TAG_REMARK1
static java.lang.String
TAG_REMARK2
static java.lang.String
TAG_REMARK3
static java.lang.String
TAG_REVDAT
static java.lang.String
TAG_SCALE1
static java.lang.String
TAG_SCALE2
static java.lang.String
TAG_SCALE3
static java.lang.String
TAG_SEQADV
static java.lang.String
TAG_SEQRES
static java.lang.String
TAG_SHEET
static java.lang.String
TAG_SITE
static java.lang.String
TAG_SOURCE
static java.lang.String
TAG_SPLIT
static java.lang.String
TAG_SPRSDE
static java.lang.String
TAG_SSBOND
static java.lang.String
TAG_TER
static java.lang.String
TAG_TITLE
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Constructor Summary
Constructors Constructor Description PDBFileParser()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description PDBCoordEntryFile
parse(java.io.BufferedReader br)
PDBCoordEntryFile
parse(java.io.File fiPDB)
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Field Detail
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DATE_FORMAT
public static final java.lang.String DATE_FORMAT
- See Also:
- Constant Field Values
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TAG_HEADER
public static final java.lang.String TAG_HEADER
- See Also:
- Constant Field Values
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TAG_OBSOLTE
public static final java.lang.String TAG_OBSOLTE
- See Also:
- Constant Field Values
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TAG_TITLE
public static final java.lang.String TAG_TITLE
- See Also:
- Constant Field Values
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TAG_SPLIT
public static final java.lang.String TAG_SPLIT
- See Also:
- Constant Field Values
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TAG_CAVEAT
public static final java.lang.String TAG_CAVEAT
- See Also:
- Constant Field Values
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TAG_COMPND
public static final java.lang.String TAG_COMPND
- See Also:
- Constant Field Values
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TAG_SOURCE
public static final java.lang.String TAG_SOURCE
- See Also:
- Constant Field Values
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TAG_KEYWDS
public static final java.lang.String TAG_KEYWDS
- See Also:
- Constant Field Values
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TAG_EXPDTA
public static final java.lang.String TAG_EXPDTA
- See Also:
- Constant Field Values
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TAG_NUMMDL
public static final java.lang.String TAG_NUMMDL
- See Also:
- Constant Field Values
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TAG_MDLTYP
public static final java.lang.String TAG_MDLTYP
- See Also:
- Constant Field Values
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TAG_AUTHOR
public static final java.lang.String TAG_AUTHOR
- See Also:
- Constant Field Values
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TAG_REVDAT
public static final java.lang.String TAG_REVDAT
- See Also:
- Constant Field Values
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TAG_SPRSDE
public static final java.lang.String TAG_SPRSDE
- See Also:
- Constant Field Values
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TAG_JRNL
public static final java.lang.String TAG_JRNL
- See Also:
- Constant Field Values
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TAG_REMARK
public static final java.lang.String TAG_REMARK
- See Also:
- Constant Field Values
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TAG_REMARK0
public static final java.lang.String TAG_REMARK0
- See Also:
- Constant Field Values
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TAG_REMARK1
public static final java.lang.String TAG_REMARK1
- See Also:
- Constant Field Values
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TAG_REMARK2
public static final java.lang.String TAG_REMARK2
- See Also:
- Constant Field Values
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TAG_REMARK3
public static final java.lang.String TAG_REMARK3
- See Also:
- Constant Field Values
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TAG_REMARK_N
public static final java.lang.String TAG_REMARK_N
- See Also:
- Constant Field Values
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TAG_DBREF
public static final java.lang.String TAG_DBREF
- See Also:
- Constant Field Values
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TAG_DBREF1_DBREF2
public static final java.lang.String TAG_DBREF1_DBREF2
- See Also:
- Constant Field Values
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TAG_SEQADV
public static final java.lang.String TAG_SEQADV
- See Also:
- Constant Field Values
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TAG_SEQRES
public static final java.lang.String TAG_SEQRES
- See Also:
- Constant Field Values
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TAG_MODRES
public static final java.lang.String TAG_MODRES
- See Also:
- Constant Field Values
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TAG_HET
public static final java.lang.String TAG_HET
- See Also:
- Constant Field Values
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TAG_HETNAM
public static final java.lang.String TAG_HETNAM
- See Also:
- Constant Field Values
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TAG_HETSYN
public static final java.lang.String TAG_HETSYN
- See Also:
- Constant Field Values
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TAG_FORMUL
public static final java.lang.String TAG_FORMUL
- See Also:
- Constant Field Values
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TAG_HELIX
public static final java.lang.String TAG_HELIX
- See Also:
- Constant Field Values
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TAG_SHEET
public static final java.lang.String TAG_SHEET
- See Also:
- Constant Field Values
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TAG_SSBOND
public static final java.lang.String TAG_SSBOND
- See Also:
- Constant Field Values
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TAG_LINK
public static final java.lang.String TAG_LINK
- See Also:
- Constant Field Values
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TAG_CISPEP
public static final java.lang.String TAG_CISPEP
- See Also:
- Constant Field Values
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TAG_SITE
public static final java.lang.String TAG_SITE
- See Also:
- Constant Field Values
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TAG_CRYST1
public static final java.lang.String TAG_CRYST1
- See Also:
- Constant Field Values
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TAG_ORIGX1
public static final java.lang.String TAG_ORIGX1
- See Also:
- Constant Field Values
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TAG_ORIGX2
public static final java.lang.String TAG_ORIGX2
- See Also:
- Constant Field Values
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TAG_ORIGX3
public static final java.lang.String TAG_ORIGX3
- See Also:
- Constant Field Values
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TAG_SCALE1
public static final java.lang.String TAG_SCALE1
- See Also:
- Constant Field Values
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TAG_SCALE2
public static final java.lang.String TAG_SCALE2
- See Also:
- Constant Field Values
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TAG_SCALE3
public static final java.lang.String TAG_SCALE3
- See Also:
- Constant Field Values
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TAG_MTRIX1
public static final java.lang.String TAG_MTRIX1
- See Also:
- Constant Field Values
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TAG_MTRIX2
public static final java.lang.String TAG_MTRIX2
- See Also:
- Constant Field Values
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TAG_MTRIX3
public static final java.lang.String TAG_MTRIX3
- See Also:
- Constant Field Values
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TAG_MODEL
public static final java.lang.String TAG_MODEL
- See Also:
- Constant Field Values
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TAG_ATOM
public static final java.lang.String TAG_ATOM
- See Also:
- Constant Field Values
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TAG_ANISOU
public static final java.lang.String TAG_ANISOU
- See Also:
- Constant Field Values
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TAG_TER
public static final java.lang.String TAG_TER
- See Also:
- Constant Field Values
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TAG_HETATM
public static final java.lang.String TAG_HETATM
- See Also:
- Constant Field Values
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TAG_ENDMDL
public static final java.lang.String TAG_ENDMDL
- See Also:
- Constant Field Values
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TAG_CONECT
public static final java.lang.String TAG_CONECT
- See Also:
- Constant Field Values
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TAG_MASTER
public static final java.lang.String TAG_MASTER
- See Also:
- Constant Field Values
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TAG_END
public static final java.lang.String TAG_END
- See Also:
- Constant Field Values
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Method Detail
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parse
public PDBCoordEntryFile parse(java.io.File fiPDB) throws java.io.IOException, java.text.ParseException
- Throws:
java.io.IOException
java.text.ParseException
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parse
public PDBCoordEntryFile parse(java.io.BufferedReader br) throws java.io.IOException, java.text.ParseException
- Throws:
java.io.IOException
java.text.ParseException
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