# User:Orpheus

## Tzintzuni Garcia

```University of Texas Medical Branch
Department of Human Biological Chemistry and Genetics
```

## Graphics

I'll be posting some ideas for logos and graphics for this page in the next week or so.

## Code Test

```from math import log
base = 'expt100000.1HJM_int'
cmd.set('auto_zoom', 'off')
cmd.set('bg_rgb', ('0', '0', '0'))
cmd.set('hash_max', 240)
repeat = 8 #number of frames to repeat each structure

for n in range(1,501):
curmol = base[0:5]+str(n).zfill(5)+base[10:]
#    print curmol+'.pdb'
if n > 1:
cmd.fit(curmol+' and name ca and (resi 56 or resi 57 or resi 58)', oldmol+' and name ca and (resi 56 or resi 57 or resi 58)')
cmd.delete(oldmol)
#        cmd.reset(curmol+' and name ca and (resi 56 or resi 57 or resi 58)')
#        cmd.origin(curmol+' and name ca and (resi 56 or resi 57 or resi 58)')
#        cmd.zoom(curmol)
else:
cmd.orient(curmol+' and name ca and (resi 56 or resi 57 or resi 58)')
cmd.center(curmol+' and name ca and (resi 56 or resi 57 or resi 58)')
#        cmd.zoom(curmol)
#    util.chainbow(curmol)
cmd.spectrum('count', 'blue_white_red', '('+curmol+')',minimum=None, maximum=None, byres=1, quiet=1)
cmd.hide("lines", curmol)
#    cmd.show("surface", curmol)
cmd.show("cartoon", curmol)
#    cmd.set_view ('\
#     1.000000000,    0.000000000,    0.000000000,\
#     0.000000000,    1.000000000,    0.000000000,\
#     0.000000000,    0.000000000,    1.000000000,\
#     0.000000000,    0.000000000, -717.288574219,\
#    35.836936951,   12.674762726,   -6.756893158,\
#   565.515808105,  869.061340332,    0.000000000' )
cmd.set_view('\
1.000000000,    0.000000000,    0.000000000,\
0.000000000,    1.000000000,    0.000000000,\
0.000000000,    0.000000000,    1.000000000,\
0.000000000,    0.000000000, -234.718002319,\
10.384142876,   15.351722717,   11.246277809,\
205.446594238,  263.989440918,    0.000000000' )
cmd.translate([0,0,-0.0008*n*log(n)], curmol, 0, 1, None)
#    cmd.zoom(curmol)
cmd.clip('far', -0.5*n*log(n))
cmd.clip('near', -0.05*n*log(n))
## Uncomment one line to render frames ##
#    cmd.ray(1680, 1050) # 16:10 1764000
#    cmd.ray(1024, 576) # 16:9 589824
#    cmd.ray(800, 450) # 16:9 360000
#    cmd.ray(640, 360) # 16:9 230400
#    cmd.ray(480, 270) # 16:9 129600
#    cmd.ray(240, 180) # 16:9 43200
#    cmd.ray(1024, 768) # 4:3 786432
cmd.ray(800, 600) # 4:3 4800000
#    cmd.ray(640, 480) # 4:3 307200
#    cmd.ray(480, 360) # 4:3 172800
#    cmd.ray(240, 180) # 4:3 43200
## Uncomment loop to repeat frames ##
for i in range(0,repeat):
cmd.png("imgs/"+str((n-1) * repeat + i).zfill(5)+".png")
cmd.refresh()
oldmol = curmol
```