Problem when port internal states start by a number, as in:
A(x8oxoB56DHBhmB5hBFapyBBh3meB7meB~eB)

It would be great if the kappa mode was made compatible with the new command line.
The most important feature is the C/c C/r command that should launch:
KaSim -i input.ka -u event -l 10000 -p 10 -o data.csv

%agent: A(x,y)

is correctly highlighted but

%agent: A(x,
y)

is not

The current version raises a sys error "No such file or directory" when the path to the input file contains a white space.

The input should actually be a list of kappa files (possibly all those that are open as an emacs tab?)
Command line accepts (>= KS 4):
KaSim -i file1.ka file2.ka etc.

The following should be added:

• syntax highlighting for the new KaSim4 syntax
• a customization variable that can be used to choose the syntax version (and possibly the simulator version)

See the following for documentation:

• Contributor guidelines
• Recipe format

The syntax highlighting mode gives weird display when the label of a rule contains a ~.
For instance:
%agent: ErrorProtein()

'ErrProGen e5lig on AP' DNA(e5lig?, baseAP?) -> DNA(e5lig?, baseAP?), ErrorProtein() @ 1
'ErrProGen e5dRP on AP' DNA(e5dRP?, baseAP?) -> DNA(e5dRP?, baseAP?), ErrorProtein() @ 1
'ErrProGen e5P on AP' DNA(e5P?, baseAP?) -> DNA(e5P?, baseAP?), ErrorProtein() @ 1
'ErrProGen e5OH on AP' DNA(e5OH?, baseAP?) -> DNA(e5OH?, baseAP?), ErrorProtein() @ 1
'ErrProGen e3lig on AP' DNA(e3lig?, baseAP?) -> DNA(e3lig?, baseAP?), ErrorProtein() @ 1
'ErrProGen e3dRP on AP' DNA(e3dRP?, baseAP?) -> DNA(e3dRP?, baseAP?), ErrorProtein() @ 1
'ErrProGen e3P on AP' DNA(e3P?, baseAP?) -> DNA(e3P?, baseAP?), ErrorProtein() @ 1
'ErrProGen e3OH on AP' DNA(e3OH?, baseAP?) -> DNA(e3OH?, baseAP?), ErrorProtein() @ 1
'ErrProGen e3PUA on AP' DNA(e3PUA?, baseAP?) -> DNA(e3PUA?, base~AP?), ErrorProtein() @ 1

%var: 'ErrProtein' ErrorProtein()

%mod: [true] do $TRACK 'ErrProtein' [true]

%mod: [true] do $TRACK 'damaged' [true]

%mod: [true] do $TRACK 'unbound DG after APE1 incision' [true]
%def: "displayCompression" "weak"

When labels contain "do" the syntax highlighting gets mixed up. For instance:
'APE1 5-endonuclease' A() -> B() @ 1