Perfect - didn't realize it would be so easy :)
Sincerely,
James Ryley, PhD, Patent Agent
SumoBrain: Intellectual Property Solutions & Data
AcclaimIP <https://www.acclaimip.com/> |
FreePatentsOnline.com<http://www.freepatentsonline.com/>|
SumoBrain.com <http://www.sumobrain.com/> |
BioMedSearch.com<http://www.biomedsearch.com/>
This communication is confidential and may be subject to legal privilege.
Nothing contained herein should be construed as legal or patenting advice.
On Mon, Aug 19, 2013 at 12:31 AM, Robert Hanson <[email protected]> wrote:
> The WRITE command writes pixel for pixel exactly what is on the screen,
> provided you are using
>
> set antialiasDisplay
>
> so perhaps it's an issue with that. You could always use
>
> zoom 80
>
> zoom 90
>
> (as in percent) to get a bit more margin before issuing the WRITE command.
>
> Bob
>
>
>
>
> On Sun, Aug 18, 2013 at 11:18 PM, James <[email protected]> wrote:
>
>> Works great! I had forgotten about backticks because I was using
>> "system." I had some awful syntax issues (I'm on windows - my double quotes
>> versus single quotes seem to work backwards form what your code uses
>> sometimes - I'm on windows, wonder if that matters), but got it working,
>> which I would not have without your code to make me believe it actually did
>> work given all the ways I wrote it that did not work (just due to syntax
>> uggghhh!). Thanks!
>>
>> One largely-unrelated question: When outputting an image file, if you are
>> looking at the bound box straight on and then export, Jmol runs the edge of
>> the image RIGHT up to the bound box. Not only does this not give any margin
>> space, but I think it actually cuts off half of the outermost atoms
>> (presumably because if you display in sticks and balls, atoms have width,
>> but I'm guessing that bound box goes through the center of the atoms). Is
>> there any way to ask the bound box, or the "write" routine, to provide some
>> margin space?
>>
>> Sincerely,
>> James Ryley, PhD, Patent Agent
>> SumoBrain: Intellectual Property Solutions & Data
>> AcclaimIP <https://www.acclaimip.com/> |
>> FreePatentsOnline.com<http://www.freepatentsonline.com/>|
>> SumoBrain.com <http://www.sumobrain.com/> |
>> BioMedSearch.com<http://www.biomedsearch.com/>
>>
>> This communication is confidential and may be subject to legal privilege.
>> Nothing contained herein should be construed as legal or patenting
>> advice.
>>
>>
>> On Sun, Aug 18, 2013 at 3:03 PM, Rolf Huehne <[email protected]>wrote:
>>
>>> Am 18.08.2013 20:09, schrieb Rolf Huehne:
>>> > In Perl it could look like this (not tested):
>>> >
>>> > --------------
>>> > chdir("my_jmol_path");
>>> > my @jmol_output = `java -jar JmolData.jar -n -J 'function
>>> > my_print(value) {for (var z in value.lines) { print "DATA:\t" + z; }}
>>> > my_print("Hello from Jmol"); load =1deh; my_print(script("show
>>> > orientation"));'`;
>>> >
>>> > foreach my $jmol_output_line(@jmol_output) {
>>> > my $data = substr($jmol_output_line, 5);
>>> > print $data;
>>> > }
>>> > --------------
>>> >
>>> Sorry, I forgot the test for "DATA: " at the beginning of the output
>>> loop:
>>>
>>> if (substr($jmol_output_line, 0, 5) eq "DATA: ") {
>>> ...
>>> }
>>>
>>> Regards,
>>> Rolf
>>>
>>>
>>> --
>>>
>>> Rolf Huehne
>>> Postdoc
>>>
>>> Leibniz Institute for Age Research - Fritz Lipmann Institute (FLI)
>>> Beutenbergstrasse 11
>>> 07745 Jena, Germany
>>>
>>> Phone: +49 3641 65 6205
>>> Fax: +49 3641 65 6210
>>> E-Mail: [email protected]
>>> Website: http://www.fli-leibniz.de
>>>
>>> Scientific Director: Prof. Dr. K. Lenhard Rudolph
>>> Head of Administration: Dr. Daniele Barthel
>>> Chairman of Board of Trustees: Dennys Klein
>>>
>>> VAT No: DE 153 925 464
>>> Register of Associations: No. 296, Amtsgericht Jena
>>> Tax Number: 162/141/08228
>>>
>>>
>>>
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>>
>>
>>
>> ------------------------------------------------------------------------------
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>>
>
>
> --
> Robert M. Hanson
> Larson-Anderson Professor of Chemistry
> St. Olaf College
> Northfield, MN
> http://www.stolaf.edu/people/hansonr
>
>
> If nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
>
>
> ------------------------------------------------------------------------------
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> It's a free troubleshooting tool designed for production.
> Get down to code-level detail for bottlenecks, with <2% overhead.
> Download for free and get started troubleshooting in minutes.
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>
>
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