Structure display parameters
Parameter |
Meaning |
Default |
absLabelVisible |
Show (true) or hide (false) "Absolute" label |
false |
atomFont |
Atom symbol/label font: Serif, SansSerif or Monospaced |
SansSerif |
atomMappingVisible |
Show (true) or hide (false) atom mapping |
true |
atomPropertiesVisible |
Show (true) or hide (false) atom properties |
true |
|
Deprecated |
|
atomNumberingType |
Sets the type of atom numbering to Off (0), Atom numbers (1) or IUPAC numbering (2) |
0 |
valencePropertyVisible |
Show (true) or hide (false) valence properties |
true |
atomsize |
Atom symbol font size in C-C bond length units: Can be given in pt ie.:msketch_param(\"atomsize\", \"16 pt\"); |
0.35714285714285715 (10pt) |
atomSymbolsVisible |
Show (true) or hide (false) atom symbols |
true |
automaticFogEnabled |
Deprecated. |
|
ballRadius |
Ball radius for "ballstick" rendering mode, in units of covalent radius. |
0.5 |
boldBondWidth |
Width of bold bond in pt. |
6 |
bondLength |
Lenght of bond in pt. |
28 |
bondLengthVisible |
Show (true) or hide (false) bond length labels |
false |
bondSpacing |
Double bond spacing in C-C bond length units: |
0.18 |
chargeWithCircle |
Charge label (plus or minus sign) is displayed circled(true) or normal(false) |
false |
chiralitySupport |
When to show atom chirality (R/S).
|
off |
circledChargeFont |
Circled charge labels font: any of the fonts installed on the machine Deprecated, will be removed by January 1st 2016. |
SansSerif |
circledChargeSize |
Circled Charge labels font size in C-C bond length units: circledChargeSize*1.54 Å = circledChargeSize*scale points Deprecated, will be removed by January 1st 2016. |
0.4 |
colorScheme |
Color scheme.
|
cpk |
downWedge |
Wedge bond display convention. Down wedge points downward in MDL's convention (mdl), upward (at the chiral center) in Daylight's (daylight). |
mdl |
explicitH |
Show (true) or hide (false) explicit hydrogens |
true |
ezVisible |
Show (true) or hide (false) E/Z labels |
false |
fogFactor |
Set the custom fog factor in a range from 0 to 100. The value 100 is for the strongest fog and 0 for the weakest (no) fog. |
66 |
grinvVisible |
Show (true) or hide (false) graph invariants (canonical labels) |
false |
implicitH |
How to display H labels.
|
heteroterm |
ligandErrorVisible |
Show (true) or not (false) ligand error by coloring to red |
true |
lonePairsVisible |
Show (true) or hide (false) lone pairs |
false |
lonePairsAutoCalc |
Switch on (true) or off (false) automatic calculation of lone pairs. The lonePairsVisible parameter should be set to true to display the result of the automatic calculation. |
false |
maxscale |
Maximizes the magnification for autoscale to prevent overscaling of small molecules. It is usually set to 28, which is the scale factor for 100% magnification. |
|
peptideDisplayType |
Show peptide sequences with one letter or three letter abbreviations. |
3-letter |
reactionErrorVisible |
Deprecated. |
false |
rendering |
Rendering style.
|
wireframe |
rgroupsVisible |
Show (true) or hide (false) R-group definitions. |
true |
scale |
Magnification. A 1.54 Å long C-C bond is magnified to scale pixels. |
28 |
sketchAnyBond |
Display type of the Any bond in the sketcher:
|
auto |
stickdst |
Stick distance of atoms in C-C bond length units. |
0.3 |
showSets |
Show the specified atom sets only. Comma separated list of set sequence numbers (0, ..., 63). |
|
sketchCarbonVisibility |
Display the label of carbon atoms in structures.
|
inChain |
sketchLigandOrderVisibility |
Display the ligand order of R-group atoms in structures.
|
off |
stickThickness |
3D stick diameter for "sticks" and "ballstick"rendering modes, in Angstroms. |
0.1 |
valenceErrorVisible |
Highlight (by underlining) the labels of those atoms with valence errors. This option can also be set on the Edit/Preferences/MarvinSketch panel.
|
true |
viewAnyBond |
Display type of the Any bond in the viewer:
|
auto |
zeroBasedAtomIndexing |
Starts the atom indexing from zero instead of one:
|
false |
wireThickness |
Line thickness for "wireframe" and "wireknobs" rendering modes, in Angstroms. |
0.064 |