Jmol Code

fixing compiler not trapping errors. Adds tokenNext(int aToken)

friendlier file read when amino group atoms are WAY out of order.

fixed error in RasMol HBond calculation.
(N-H bond was being calculated 25% too long
as the C-O distance instead of the RasMol
1.0 Angstroms).

fix for too long hydrogen bonds

(1) adding range to monitor/measure command:

monitor <min_dist> <max_dist> ALL (atom set) (atom set)....

This allows for better control over measurements.

parameters are optional, but the ALL keyword is necessary if
the distances are omitted in order to designate that all
occurances within the atom sets are depicted. Examples:

monitor 1.2 2.0 (carbon) (oxygen)
monitor ALL (atomno=1) (atomno=2)

Note that unless otherwise specified, all matching
criteria in ALL frames are generated, thus allowing
for "animated" measures.

(2) added "nm" and "pm" to list for set measurement

Fah

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adds monitor ALL (atom expr) (atom expr)....

very simple!

fixes scripting from menu not calling statusManager functions;
viewer.evalStringQuiet() in key locations changed to viewer.script()