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path: root/java/joelib2/molecule/Atom.class
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0000 ca fe ba be 00 00 00 31 00 62 07 00 5f 07 00 60 07 00 61 01 00 13 45 4c 45 43 54 52 4f 4e 53 5f .......1.b.._..`..a...ELECTRONS_
0020 55 4e 44 45 46 49 4e 45 44 01 00 01 49 01 00 0d 43 6f 6e 73 74 61 6e 74 56 61 6c 75 65 03 80 00 UNDEFINED...I...ConstantValue...
0040 00 00 01 00 07 61 64 64 42 6f 6e 64 01 00 1a 28 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c .....addBond...(Ljoelib2/molecul
0060 65 2f 42 6f 6e 64 3b 29 5a 01 00 0c 62 6f 6e 64 49 74 65 72 61 74 6f 72 01 00 26 28 29 4c 6a 6f e/Bond;)Z...bondIterator..&()Ljo
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00a0 3b 01 00 05 63 6c 65 61 72 01 00 03 28 29 56 01 00 05 63 6c 6f 6e 65 01 00 14 28 29 4c 6a 61 76 ;...clear...()V...clone...()Ljav
00c0 61 2f 6c 61 6e 67 2f 4f 62 6a 65 63 74 3b 01 00 0a 64 65 6c 65 74 65 42 6f 6e 64 01 00 0d 64 65 a/lang/Object;...deleteBond...de
00e0 6c 65 74 65 52 65 73 69 64 75 65 01 00 06 65 71 75 61 6c 73 01 00 15 28 4c 6a 61 76 61 2f 6c 61 leteResidue...equals...(Ljava/la
0100 6e 67 2f 4f 62 6a 65 63 74 3b 29 5a 01 00 1b 28 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c ng/Object;)Z...(Ljoelib2/molecul
0120 65 2f 41 74 6f 6d 3b 5a 29 5a 01 00 06 67 65 74 33 44 78 01 00 03 28 29 44 01 00 06 67 65 74 33 e/Atom;Z)Z...get3Dx...()D...get3
0140 44 79 01 00 06 67 65 74 33 44 7a 01 00 0f 67 65 74 41 74 6f 6d 69 63 4e 75 6d 62 65 72 01 00 03 Dy...get3Dz...getAtomicNumber...
0160 28 29 49 01 00 07 67 65 74 42 6f 6e 64 01 00 30 28 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 ()I...getBond..0(Ljoelib2/molecu
0180 6c 65 2f 41 74 6f 6d 3b 29 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 42 6f 6e 64 3b le/Atom;)Ljoelib2/molecule/Bond;
01a0 01 00 08 67 65 74 42 6f 6e 64 73 01 00 12 28 29 4c 6a 61 76 61 2f 75 74 69 6c 2f 4c 69 73 74 3b ...getBonds...()Ljava/util/List;
01c0 01 00 0c 67 65 74 42 6f 6e 64 73 53 69 7a 65 01 00 0b 67 65 74 43 6f 6f 72 64 73 33 44 01 00 19 ...getBondsSize...getCoords3D...
01e0 28 29 4c 6a 6f 65 6c 69 62 32 2f 6d 61 74 68 2f 56 65 63 74 6f 72 33 44 3b 01 00 08 67 65 74 46 ()Ljoelib2/math/Vector3D;...getF
0200 6c 61 67 73 01 00 0f 67 65 74 46 6f 72 6d 61 6c 43 68 61 72 67 65 01 00 10 67 65 74 46 72 65 65 lags...getFormalCharge...getFree
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0240 41 74 6f 6d 01 00 19 28 29 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 41 74 6f 6d 3b Atom...()Ljoelib2/molecule/Atom;
0260 01 00 09 67 65 74 50 61 72 65 6e 74 01 00 1d 28 29 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 ...getParent...()Ljoelib2/molecu
0280 6c 65 2f 4d 6f 6c 65 63 75 6c 65 3b 01 00 0a 67 65 74 52 65 73 69 64 75 65 01 00 22 28 29 4c 6a le/Molecule;...getResidue.."()Lj
02a0 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 74 79 70 65 73 2f 52 65 73 69 64 75 65 3b 01 00 oelib2/molecule/types/Residue;..
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02e0 00 0e 67 65 74 43 75 73 74 6f 6d 54 79 70 65 73 01 00 18 28 29 4c 6a 61 76 61 2f 75 74 69 6c 2f ..getCustomTypes...()Ljava/util/
0300 50 72 6f 70 65 72 74 69 65 73 3b 01 00 0d 61 64 64 43 75 73 74 6f 6d 54 79 70 65 01 00 27 28 4c Properties;...addCustomType..'(L
0320 6a 61 76 61 2f 6c 61 6e 67 2f 53 74 72 69 6e 67 3b 4c 6a 61 76 61 2f 6c 61 6e 67 2f 53 74 72 69 java/lang/String;Ljava/lang/Stri
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0360 29 5a 01 00 0e 68 61 73 42 6f 6e 64 4f 66 4f 72 64 65 72 01 00 04 28 49 29 5a 01 00 15 68 61 73 )Z...hasBondOfOrder...(I)Z...has
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03c0 53 69 6e 67 6c 65 42 6f 6e 64 01 00 0a 69 6e 73 65 72 74 42 6f 6e 64 01 00 3e 28 4c 6a 6f 65 6c SingleBond...insertBond..>(Ljoel
03e0 69 62 32 2f 75 74 69 6c 2f 69 74 65 72 61 74 6f 72 2f 4c 69 73 74 49 74 65 72 61 74 6f 72 3b 4c ib2/util/iterator/ListIterator;L
0400 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 42 6f 6e 64 3b 29 56 01 00 0f 69 73 41 6e 74 joelib2/molecule/Bond;)V...isAnt
0420 69 43 6c 6f 63 6b 77 69 73 65 01 00 08 69 73 43 68 69 72 61 6c 01 00 0b 69 73 43 6c 6f 63 6b 77 iClockwise...isChiral...isClockw
0440 69 73 65 01 00 0b 69 73 43 6f 6e 6e 65 63 74 65 64 01 00 1a 28 4c 6a 6f 65 6c 69 62 32 2f 6d 6f ise...isConnected...(Ljoelib2/mo
0460 6c 65 63 75 6c 65 2f 41 74 6f 6d 3b 29 5a 01 00 0f 6e 62 72 41 74 6f 6d 49 74 65 72 61 74 6f 72 lecule/Atom;)Z...nbrAtomIterator
0480 01 00 29 28 29 4c 6a 6f 65 6c 69 62 32 2f 75 74 69 6c 2f 69 74 65 72 61 74 6f 72 2f 4e 62 72 41 ..)()Ljoelib2/util/iterator/NbrA
04a0 74 6f 6d 49 74 65 72 61 74 6f 72 3b 01 00 0a 6e 65 77 52 65 73 69 64 75 65 01 00 06 72 65 48 61 tomIterator;...newResidue...reHa
04c0 73 68 01 00 16 73 65 74 41 6e 74 69 43 6c 6f 63 6b 77 69 73 65 53 74 65 72 65 6f 01 00 0f 73 65 sh...setAntiClockwiseStereo...se
04e0 74 41 74 6f 6d 69 63 4e 75 6d 62 65 72 01 00 04 28 49 29 56 01 00 08 73 65 74 42 6f 6e 64 73 01 tAtomicNumber...(I)V...setBonds.
0500 00 13 28 4c 6a 61 76 61 2f 75 74 69 6c 2f 4c 69 73 74 3b 29 56 01 00 09 53 69 67 6e 61 74 75 72 ..(Ljava/util/List;)V...Signatur
0520 65 01 00 2c 28 4c 6a 61 76 61 2f 75 74 69 6c 2f 4c 69 73 74 3c 4c 6a 6f 65 6c 69 62 32 2f 6d 6f e..,(Ljava/util/List<Ljoelib2/mo
0540 6c 65 63 75 6c 65 2f 42 6f 6e 64 3b 3e 3b 29 56 01 00 09 73 65 74 43 68 69 72 61 6c 01 00 12 73 lecule/Bond;>;)V...setChiral...s
0560 65 74 43 6c 6f 63 6b 77 69 73 65 53 74 65 72 65 6f 01 00 0b 73 65 74 43 6f 6f 72 64 73 33 44 01 etClockwiseStereo...setCoords3D.
0580 00 1a 28 4c 6a 6f 65 6c 69 62 32 2f 6d 61 74 68 2f 56 65 63 74 6f 72 33 44 3b 29 56 01 00 06 28 ..(Ljoelib2/math/Vector3D;)V...(
05a0 44 44 44 29 56 01 00 08 73 65 74 46 6c 61 67 73 01 00 0f 73 65 74 46 6f 72 6d 61 6c 43 68 61 72 DDD)V...setFlags...setFormalChar
05c0 67 65 01 00 10 73 65 74 46 72 65 65 45 6c 65 63 74 72 6f 6e 73 01 00 0a 73 65 74 49 73 6f 74 6f ge...setFreeElectrons...setIsoto
05e0 70 65 01 00 09 73 65 74 50 61 72 65 6e 74 01 00 1e 28 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 pe...setParent...(Ljoelib2/molec
0600 75 6c 65 2f 4d 6f 6c 65 63 75 6c 65 3b 29 56 01 00 0a 73 65 74 52 65 73 69 64 75 65 01 00 23 28 ule/Molecule;)V...setResidue..#(
0620 4c 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 74 79 70 65 73 2f 52 65 73 69 64 75 65 3b Ljoelib2/molecule/types/Residue;
0640 29 56 01 00 07 73 65 74 54 79 70 65 01 00 15 28 4c 6a 61 76 61 2f 6c 61 6e 67 2f 53 74 72 69 6e )V...setType...(Ljava/lang/Strin
0660 67 3b 29 56 01 00 16 28 4c 6a 61 76 61 2f 6c 61 6e 67 2f 53 74 72 69 6e 67 3b 5a 29 56 01 00 08 g;)V...(Ljava/lang/String;Z)V...
0680 74 6f 53 74 72 69 6e 67 01 00 0b 75 6e 73 65 74 53 74 65 72 65 6f 01 00 15 6a 6f 65 6c 69 62 32 toString...unsetStereo...joelib2
06a0 2f 6d 6f 6c 65 63 75 6c 65 2f 41 74 6f 6d 01 00 10 6a 61 76 61 2f 6c 61 6e 67 2f 4f 62 6a 65 63 /molecule/Atom...java/lang/Objec
06c0 74 01 00 15 6a 6f 65 6c 69 62 32 2f 6d 6f 6c 65 63 75 6c 65 2f 4e 6f 64 65 06 01 00 01 00 02 00 t...joelib2/molecule/Node.......
06e0 01 00 03 00 01 00 19 00 04 00 05 00 01 00 06 00 00 00 02 00 07 00 3a 04 01 00 08 00 09 00 00 04 ......................:.........
0700 01 00 0a 00 0b 00 00 04 01 00 0c 00 0d 00 00 04 01 00 0e 00 0f 00 00 04 01 00 10 00 09 00 00 04 ................................
0720 01 00 11 00 0d 00 00 04 01 00 12 00 13 00 00 04 01 00 12 00 14 00 00 04 01 00 15 00 16 00 00 04 ................................
0740 01 00 17 00 16 00 00 04 01 00 18 00 16 00 00 04 01 00 19 00 1a 00 00 04 01 00 1b 00 1c 00 00 04 ................................
0760 01 00 1d 00 1e 00 00 04 01 00 1f 00 1a 00 00 04 01 00 20 00 21 00 00 04 01 00 22 00 1a 00 00 04 ....................!.....".....
0780 01 00 23 00 1a 00 00 04 01 00 24 00 1a 00 00 04 01 00 25 00 1a 00 00 04 01 00 26 00 27 00 00 04 ..#.......$.......%.......&.'...
07a0 01 00 28 00 29 00 00 04 01 00 2a 00 2b 00 00 04 01 00 2c 00 2d 00 00 04 01 00 2e 00 2f 00 00 04 ..(.).....*.+.....,.-......./...
07c0 01 00 30 00 31 00 00 04 01 00 32 00 33 00 00 04 01 00 34 00 35 00 00 04 01 00 36 00 33 00 00 04 ..0.1.....2.3.....4.5.....6.3...
07e0 01 00 37 00 33 00 00 04 01 00 38 00 1a 00 00 04 01 00 39 00 33 00 00 04 01 00 3a 00 33 00 00 04 ..7.3.....8.......9.3.....:.3...
0800 01 00 3b 00 3c 00 00 04 01 00 3d 00 33 00 00 04 01 00 3e 00 33 00 00 04 01 00 3f 00 33 00 00 04 ..;.<.....=.3.....>.3.....?.3...
0820 01 00 40 00 41 00 00 04 01 00 42 00 43 00 00 04 01 00 44 00 0d 00 00 04 01 00 45 00 1a 00 00 04 ..@.A.....B.C.....D.......E.....
0840 01 00 46 00 0d 00 00 04 01 00 47 00 48 00 00 04 01 00 49 00 4a 00 01 00 4b 00 00 00 02 00 4c 04 ..F.......G.H.....I.J...K.....L.
0860 01 00 4d 00 0d 00 00 04 01 00 4e 00 0d 00 00 04 01 00 4f 00 50 00 00 04 01 00 4f 00 51 00 00 04 ..M.......N.......O.P.....O.Q...
0880 01 00 52 00 48 00 00 04 01 00 53 00 48 00 00 04 01 00 54 00 48 00 00 04 01 00 55 00 48 00 00 04 ..R.H.....S.H.....T.H.....U.H...
08a0 01 00 56 00 57 00 00 04 01 00 58 00 59 00 00 04 01 00 5a 00 5b 00 00 04 01 00 5a 00 5c 00 00 04 ..V.W.....X.Y.....Z.[.....Z.\...
08c0 01 00 5d 00 2d 00 00 04 01 00 5e 00 0d 00 00 00 00 ..].-.....^......