Wow, Eric. You are a busy guy! Very cool.
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Hi Bob (and the others),
thanks for your answer - this helps enormously. I have a bunch of legacy files
created by a legacy utility - I modified the code to no longer put stuff after
the integer.
As a side note: the xyz::broken.xyz trick also works on the command line (which
is how I start jmo
Glad you solved it
As far as I remember, the pipe character serves the same as your \n
Inline loading is always tricky!
On 26 Sep 2016 at 12:49, Matthew Kennedy wrote:
Thank you Angel, in the end, it appears the issue was that it needs to print
out the literal \n's
in the script line. So t
Thank you Angel, in the end, it appears the issue was that it needs to
print out the literal \n's in the script line. So the following worked for
me:
script: 'load inline "25\n 0QURM735R7BTNZJNL\n C 1.417382 -0.002747
-0.016830 \n C -0.728040 1.261000 0.12 \n C -0.728040 -1.261000
0.12 \n
You may also need a space between the pipe and the element symbol, so it
seems
> that lacks newline characters apparently. Jmol needs either those or
> vertical
> lines (the 'pipe' character, | ) Try inserting a pipe before each new line·
---
Mathew,
that lacks newline characters apparently. Jmol needs either those or vertical
lines (the 'pipe' character, | ) Try inserting a pipe before each new line·
Dr. Angel Herráez
Biochemistry and Molecular Biology,
Dept. of Systems Biology, University of Alcalá
E-28871 Alcalá de Henares (Ma
Hi Angel,
The script line is as follows:
script: 'load inline "25 0QURM735R7BTNZJNL C 1.417382 -0.002747 -0.016830
C -0.728040 1.261000 0.12 C -0.728040 -1.261000 0.12 C -0.000200
-0.001120 -2.476610 C 0.681964 -1.257343 -2.046422 C 0.689513 -1.259021
-0.497124 C 0.686920 1.25292
Apologies for this off-topic message which involves Jmol only
tangentially, but will hopefully be of interest to some Jmol users.
Recently I wanted to view some FASTA format protein sequence alignments
and was not able to find free software that made me happy. So I made
MSAReveal.Org (free, o
Hi Mathew
Possible sources of trouble (just a guess)
- quotes (particularly when they get nested)
- line breaks
all that related to Javascript handling of your text string
If you could provide a sample as plain text of what the php variable outputs.,
it would help diagnosis.
Another idea: writ
Dear all,
I have the following code inside a jsmol applet embedded in an html page
with some php at the top.
script: 'load inline ;'
This code correctly prints out the expected geometry but when it is loaded
into the jsmol applet on the page, it is completely incorrect compared to
if I load the
No changes ever.
On Mon, Sep 26, 2016 at 9:08 AM, Angel Herráez wrote:
>
> OK, I will ammend the wiki to clarify the issue.
>
> But, important: Peter, has this behaviour changed across Jmol versions?
> It is one thing that Jmol identifies or not the format, as Bob has
> explained; it
> is anothe
OK, I will ammend the wiki to clarify the issue.
But, important: Peter, has this behaviour changed across Jmol versions?
It is one thing that Jmol identifies or not the format, as Bob has explained;
it
is another if there has been a change in behaviour.
Thanks
---
Peter,
On my editor, your “broken” file has an additional text (the letter “a’) on the
first line.
Could that be the problem?
Matt Kubasik
On Sep 26, 2016, at 6:46 AM, Peter Brommer
mailto:p.brom...@warwick.ac.uk>> wrote:
Hi,
This concerns Jmol Version: 14.6.1_2016.08.11 2016-08-11 22:11.
The *xyz reader *ignores everything else on the first line after the
integer.
The *reader format resolver *is what requires just an integer (the number
of atoms) and white space on the first line in order to send the data to
the xyz reader, because there are several other formats that start with a
Hi,
This concerns Jmol Version: 14.6.1_2016.08.11 2016-08-11 22:11.
There is an issue with reading/recognising xyz files. On the wiki page
http://wiki.jmol.org/index.php/File_formats/Formats/XYZ those are described as
having two header lines per step in a multi-step format, the first of which
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