PyMOL>load dat/pept.pdb,obj
 CmdLoad: "dat/pept.pdb" loaded as "obj".
PyMOL>load dat/il2.pdb,obj
 CmdLoad: "dat/il2.pdb" appended into object "obj", state 2.
PyMOL>load dat/3al1.pdb,obj,state=4
HEADER    STRUCTURAL PROTEIN                      26-OCT-98   3AL1
TITLE     DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM
COMPND    MOL_ID: 1;
COMPND   2 MOLECULE: D, L-ALPHA-1;
COMPND   3 CHAIN: A, B;
COMPND   4 ENGINEERED: YES;
COMPND   5 OTHER_DETAILS: N TERMINI ARE ACETYLATED
 ObjectMolecule: Read secondary structure assignments.
 ObjectMolecule: Read crystal symmetry information.
 Symmetry: Found 2 symmetry operators.
 CmdLoad: "dat/3al1.pdb" appended into object "obj", state 4.
PyMOL>map_new tst1,gaussian,1.0,state=-3
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 2870 atom positions.
 ObjectMap: Normalizing: mean = 0.049654 & stdev = 0.212673.
 Executive: object "tst1" created.
PyMOL>map_new tst2,gaussian,1.0,state=2
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 2084 atom positions.
 ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.
 Executive: object "tst2" created.
PyMOL>map_new tst2,gaussian,1.0,state=4
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 679 atom positions.
 ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.
PyMOL>map_new tst3,gaussian,1.0,state=-4
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.003829 & stdev = 0.054910.
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 2084 atom positions.
 ObjectMap: Normalizing: mean = 0.036107 & stdev = 0.153608.
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 0 atom positions.
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 679 atom positions.
 ObjectMap: Normalizing: mean = 0.009718 & stdev = 0.133319.
 Executive: object "tst3" created.
PyMOL>map_new tst4,gaussian,1.0,state=3
 Executive: object "tst4" created.
PyMOL>map_new tst5,gaussian,1.0,state=4
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 679 atom positions.
 ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.
 Executive: object "tst5" created.
PyMOL>map_new tst6,gaussian,1.0
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079928 & stdev = 0.237612.
 Executive: object "tst6" created.
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 2084 atom positions.
 ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 679 atom positions.
 ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.
PyMOL>frame 4
PyMOL>isomesh m8,tst2,state=-1
 Executive: object "m8" created.
 Isomesh: created "m8", setting level to 1.000
PyMOL>frame 3
PyMOL>isomesh m9,tst1,state=-1,source_state=1
 Executive: object "m9" created.
 Isomesh: created "m9", setting level to 1.000
PyMOL>isomesh m7,tst1,state=4,source_state=1
 Executive: object "m7" created.
 Isomesh: created "m7", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m8".
 IsosurfVolume: Surface generated using 6969 lines.
 ObjectMesh: updating "m9".
 IsosurfVolume: Surface generated using 37701 lines.
 ObjectMesh: updating "m7".
 IsosurfVolume: Surface generated using 37701 lines.
PyMOL>isomesh m7,tst6,state=3,source_state=1
 Isomesh: created "m7", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m7".
 IsosurfVolume: Surface generated using 2975 lines.
PyMOL>isomesh m7,tst5,state=2,source_state=4
 Isomesh: created "m7", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m7".
 IsosurfVolume: Surface generated using 6969 lines.
PyMOL>isomesh m7,tst2,state=1,source_state=2
 Isomesh: created "m7", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m7".
 IsosurfVolume: Surface generated using 29064 lines.
PyMOL>isomesh m1,tst1
 Executive: object "m1" created.
 Isomesh: created "m1", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m1".
 IsosurfVolume: Surface generated using 37701 lines.
PyMOL>isomesh m2,tst2
 Executive: object "m2" created.
 Isomesh: created "m2", setting level to 1.000
 Isomesh: created "m2", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m2".
 IsosurfVolume: Surface generated using 29064 lines.
 ObjectMesh: updating "m2".
 IsosurfVolume: Surface generated using 6969 lines.
PyMOL>isomesh m3,tst3
 Executive: object "m3" created.
 Isomesh: created "m3", setting level to 1.000
 Isomesh: created "m3", setting level to 1.000
 Isomesh: created "m3", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m3".
 IsosurfVolume: Surface generated using 3487 lines.
 ObjectMesh: updating "m3".
 IsosurfVolume: Surface generated using 29781 lines.
 ObjectMesh: updating "m3".
 IsosurfVolume: Surface generated using 9095 lines.
PyMOL>isomesh m4,tst4
PyMOL>refresh
PyMOL>isomesh m5a,tst5,source_state=1
 Isomesh-Warning: state 1 not present in map "tst5".
PyMOL>refresh
PyMOL>isomesh m5b,tst5
 Executive: object "m5b" created.
 Isomesh: created "m5b", setting level to 1.000
PyMOL>isomesh m6,tst6
 Executive: object "m6" created.
 Isomesh: created "m6", setting level to 1.000
 Isomesh: created "m6", setting level to 1.000
 Isomesh: created "m6", setting level to 1.000
PyMOL>isosurface s1,tst1
 Executive: object "s1" created.
 Isosurface: created "s1", setting level to 1.000
PyMOL>refresh
 ObjectMesh: updating "m5b".
 IsosurfVolume: Surface generated using 6969 lines.
 ObjectMesh: updating "m6".
 IsosurfVolume: Surface generated using 2975 lines.
 ObjectMesh: updating "m6".
 IsosurfVolume: Surface generated using 29064 lines.
 ObjectMesh: updating "m6".
 IsosurfVolume: Surface generated using 6969 lines.
 ObjectSurface: updating "s1".
 TetsurfVolume: Surface generated using 106172 triangles.
PyMOL>isosurface s2,tst2
 Executive: object "s2" created.
 Isosurface: created "s2", setting level to 1.000
 Isosurface: created "s2", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s2".
 TetsurfVolume: Surface generated using 82044 triangles.
 ObjectSurface: updating "s2".
 TetsurfVolume: Surface generated using 18780 triangles.
PyMOL>isosurface s3,tst3
 Executive: object "s3" created.
 Isosurface: created "s3", setting level to 1.000
 Isosurface: created "s3", setting level to 1.000
 Isosurface: created "s3", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s3".
 TetsurfVolume: Surface generated using 10220 triangles.
 ObjectSurface: updating "s3".
 TetsurfVolume: Surface generated using 84672 triangles.
 ObjectSurface: updating "s3".
 TetsurfVolume: Surface generated using 25480 triangles.
PyMOL>isosurface s4,tst4
PyMOL>refresh
PyMOL>isosurface s4,tst5
 Executive: object "s4" created.
 Isosurface: created "s4", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s4".
 TetsurfVolume: Surface generated using 18780 triangles.
PyMOL>isosurface s5a,tst5,source_state=1
 Isosurface-Warning: state 1 not present in map "tst5".
PyMOL>refresh
PyMOL>isosurface s5b,tst5
 Executive: object "s5b" created.
 Isosurface: created "s5b", setting level to 1.000
PyMOL>isosurface s6,tst6
 Executive: object "s6" created.
 Isosurface: created "s6", setting level to 1.000
 Isosurface: created "s6", setting level to 1.000
 Isosurface: created "s6", setting level to 1.000
PyMOL>isosurface s7,tst1,state=4,source_state=1
 Executive: object "s7" created.
 Isosurface: created "s7", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s5b".
 TetsurfVolume: Surface generated using 18780 triangles.
 ObjectSurface: updating "s6".
 TetsurfVolume: Surface generated using 8492 triangles.
 ObjectSurface: updating "s6".
 TetsurfVolume: Surface generated using 82044 triangles.
 ObjectSurface: updating "s6".
 TetsurfVolume: Surface generated using 18780 triangles.
 ObjectSurface: updating "s7".
 TetsurfVolume: Surface generated using 106172 triangles.
PyMOL>isosurface s7,tst6,state=3,source_state=1
 Isosurface: created "s7", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s7".
 TetsurfVolume: Surface generated using 8492 triangles.
PyMOL>isosurface s7,tst5,state=2,source_state=4
 Isosurface: created "s7", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s7".
 TetsurfVolume: Surface generated using 18780 triangles.
PyMOL>isosurface s7,tst2,state=1,source_state=2
 Isosurface: created "s7", setting level to 1.000
PyMOL>refresh
 ObjectSurface: updating "s7".
 TetsurfVolume: Surface generated using 82044 triangles.
PyMOL>frame 4
PyMOL>isosurface s8,tst2,state=-1
 Executive: object "s8" created.
 Isosurface: created "s8", setting level to 1.000
PyMOL>frame 3
PyMOL>isosurface s9,tst1,state=-1,source_state=1
 Executive: object "s9" created.
 Isosurface: created "s9", setting level to 1.000
PyMOL>reinit
PyMOL>load dat/pept.pdb,obj
 CmdLoad: "dat/pept.pdb" loaded as "obj".
PyMOL>alter all, b=10
 Alter: modified 107 atoms.
PyMOL>map_new m1, gaussian, 1.0, obj
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.
 Executive: object "m1" created.
PyMOL>map_new m2, gaussian, 1.0, obj, clamp=[-5, 5]
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.
 Executive: object "m2" created.
PyMOL>map_new m3, gaussian, 1.0, obj, clamp=[-3, 3]
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.
 Executive: object "m3" created.
PyMOL>map_new m4, gaussian, 1.0, obj, clamp=[-2, 2]
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.
 Executive: object "m4" created.
PyMOL>map_new m5, gaussian, 1.0, obj, clamp=[-0.9, 0.9]
 ObjectMap: Map created.
 ObjectMap: Computing Gaussian map for 107 atom positions.
 ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.
 Executive: object "m5" created.
PyMOL>isosurface s1, m1
 Executive: object "s1" created.
 Isosurface: created "s1", setting level to 1.000
PyMOL>isosurface s2, m2
 Executive: object "s2" created.
 Isosurface: created "s2", setting level to 1.000
PyMOL>isosurface s3, m3
 Executive: object "s3" created.
 Isosurface: created "s3", setting level to 1.000
PyMOL>isosurface s4, m4
 Executive: object "s4" created.
 Isosurface: created "s4", setting level to 1.000
PyMOL>isosurface s5, m5
 Executive: object "s5" created.
 Isosurface: created "s5", setting level to 1.000
PyMOL>ray renderer=2
 ObjectSurface: updating "s1".
 TetsurfVolume: Surface generated using 7120 triangles.
 ObjectSurface: updating "s2".
 TetsurfVolume: Surface generated using 7120 triangles.
 ObjectSurface: updating "s3".
 TetsurfVolume: Surface generated using 7120 triangles.
 ObjectSurface: updating "s4".
 TetsurfVolume: Surface generated using 7120 triangles.
 ObjectSurface: updating "s5".
 TetsurfVolume: Surface generated using 0 triangles.
 RayRenderTest: obtained 28646 graphics primitives.
PyMOL>print "END-LOG"
