Angel,
Thanks for all that.
> 3. How to pass args into a script from the command line ?
I meant command line args:
java -jar Jmol.jar arg1 arg2=val2 etc
> 5. Can I do upper/lower case conversion of a string in Jmol ?
This was meant to simplify using a variable type of image file ..
(script setup at top)
suffix = "png" ; imagetype = "PNG";
(later in script)
imagename = something + suffix;
write image @imagetype @imagename;
But as you say, the token PNG can be given to the "write" command as png.
Problem solved. Good lesson. Things in UPPERCASE in the doco don't need to
be.
> 6. Is there a compact reference for just the programming language of Jmol.
> you could create a documentation page (or rather an index with pointers
to the Scripting Doc sections) in the Wiki.
When I am more expert I might do that ! The reason for the question was, I
sense that Jmol script started as 99% modelling commands (from RasMol and
Chime) and simple scripting abilities, and then more complex language
elements (loops, if/then/else, switch, more data types, etc) were added.
Hence the doco is oriented around the modelling commands with the
"programming" syntax a secondary thing. A strange ordering for a programmer
(me) who is working with Perl, Python, JavaScript and sees the world (and
Jmol) as a programming language with modeling commands added. :=)
Thanks again.
On 30 August 2013 18:38, Angel Herráez <[email protected]> wrote:
> Hi Greg, and welcome!
>
> > 1. Where is the doco of label parameters %a %n etc.
>
> You got to the "label" doc,
> http://chemapps.stolaf.edu/jmol/docs/#label
> and it says "See atom properties for a detailed list of atom properties
> that
> can be included in labels"
> which leads you to
> http://chemapps.stolaf.edu/jmol/docs/#atomproperties
> The table there has both new and old syntax,
> label %[xxx] label %x
>
>
> > 2. I can open the console automatically from a script with "console".
> Can I size and place it ?
> > Mainly to get it off the main render window.
> If you are running the Jmol app, both its window and the console window
> open at the last used position on screen (but I use Windows, not Mac)
> For the applet, I don't think it can be done.
>
>
> > 3. How to pass args into a script from the command line ? I think I have
> read it is not possible.
> > _arguments are the args into a sub-script. Can args be passed via
> environment variables or a
> > control file ?
>
> Not sure about "arguments". You can pass script commands or load script
> files, see
> http://wiki.jmol.org/index.php/Jmol_Application#Loading_files_and_running_s
> cripts
>
> For the app, there is also "macros" from the top bar menu, which loads
> files.
>
> What kind of arguments you speak about, and where would they be written?
>
>
> > 4. Can I create a directory in Jmol script ?
>
> Don't think so.
>
>
> > 5. Can I do upper/lower case conversion of a string in Jmol ?
>
> Don't know, please check Jmol Math doc. But I doubt it. What for?
> Jmol scripting language is case-insensitive.
>
>
> > 6. Is there a compact reference for just the programming language of
> Jmol. It seems scattered
> > around in places like ..
> > http://chemapps.stolaf.edu/jmol/docs/#jmolmath
> > http://chemapps.stolaf.edu/jmol/docs/#while
>
> Not sure what you'd call "programming". In some sense, all scripting is
> such.
> Then you have the Jmol Math and the control structures as you have found.
> What would you include under "programming language"? If you think it
> relevant, you could create a documentation page (or rather an index with
> pointers to the Scripting Doc sections) in the Wiki.
>
>
> > Many thanks, aplogies for the newbie stuff.
>
> That's Ok, that's why we have this list for
>
> Good luck!
>
>
>
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--
Greg Edwards,
Port Jackson Bioinformatics
[email protected]
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