Re: [PyMOL] how to convert .pse to html?

2017-01-25 Thread Robert Hanson 
Albert, I just note that JSmol reads PyMOL PSE files directly - fully
JavaScript/HTML5 - and allows interactive viewing of them in JavaScript as
well as all the functionality of Jmol; nothing to change in terms of the
PyMOL file. Just load it.

Of course, not every capability of PyMOL is reproduced. It's a moving
target.
​
Bob Hanson
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Re: [PyMOL] how to convert .pse to html?

2017-01-25 Thread Thomas Holder 
Hi Albert,

For batch processing (no GUI), run PyMOL with -c. See also 
https://pymolwiki.org/index.php/Command_Line_Options

I fixed the script, it was written for an old PyMOL version.

Cheers,
  Thomas

On 25 Jan 2017, at 17:01, Albert  wrote:

> BTW, I try to run the example command line, but it always failed with 
> messages:
> 
> 
> PyMOL>pymol2glmol 1tqn
> Traceback (most recent call last):
>  File "/usr/lib64/python2.7/site-packages/pymol/parser.py", line 256, in parse
>self.result=apply(layer.kw[0],layer.args,layer.kw_args)
>  File "/home/albert/install/pymol/Pymol-script-repo/pymol2glmol.py", line 
> 152, in dump_rep
>int(255 * float(bgcolor[1])), int(255 * float(bgcolor[2])))
> IndexError: tuple index out of range
> 
> 
> Do you have any idea what's the problem?
> 
> THX again.
> 
> 
> On 01/25/2017 10:46 PM, Thomas Holder wrote:
>> Hi Albert,
>> 
>> What kind of HTML content do you expect? A page with a PNG image? Or an 
>> interactive 3D model? Check out 
>> this:https://pymolwiki.org/index.php/Pymol2glmol
>> 
>> Cheers,
>>   Thomas

-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.


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Re: [PyMOL] how to convert .pse to html?

2017-01-25 Thread Albert 
BTW, I try to run the example command line, but it always failed with 
messages:


PyMOL>pymol2glmol 1tqn
Traceback (most recent call last):
   File "/usr/lib64/python2.7/site-packages/pymol/parser.py", line 256, 
in parse
 self.result=apply(layer.kw[0],layer.args,layer.kw_args)
   File "/home/albert/install/pymol/Pymol-script-repo/pymol2glmol.py", 
line 152, in dump_rep
 int(255 * float(bgcolor[1])), int(255 * float(bgcolor[2])))
IndexError: tuple index out of range


Do you have any idea what's the problem?

THX again.


On 01/25/2017 10:46 PM, Thomas Holder wrote:
> Hi Albert,
>
> What kind of HTML content do you expect? A page with a PNG image? Or an 
> interactive 3D model? Check out 
> this:https://pymolwiki.org/index.php/Pymol2glmol
>
> Cheers,
>Thomas


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Re: [PyMOL] how to convert .pse to html?

2017-01-25 Thread Albert 
Hi Thomas,

Thanks a lot for your information. I know this command and that's what I 
needed.

However, I don't what to open the PyMOL GUI. Is it possible that we run 
PyMOL with a text mode and convert the .pse file directly to a .html file?

Thanks again.

Albert



On 01/25/2017 10:46 PM, Thomas Holder wrote:
> Hi Albert,
>
> What kind of HTML content do you expect? A page with a PNG image? Or an 
> interactive 3D model? Check out 
> this:https://pymolwiki.org/index.php/Pymol2glmol
>
> Cheers,
>Thomas


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Re: [PyMOL] how to convert .pse to html?

2017-01-25 Thread Thomas Holder 
Hi Albert,

What kind of HTML content do you expect? A page with a PNG image? Or an 
interactive 3D model? Check out this: 
https://pymolwiki.org/index.php/Pymol2glmol

Cheers,
  Thomas

On 23 Jan 2017, at 16:11, Albert  wrote:

> Hello,
> 
> I've got a pymol .pse file and I am just wondering how can we convert it 
> with a Linux command line directly to a .html file without opening pymol 
> GUI?
> 
> Thank you very much.
> 
> Albert

-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.


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[PyMOL] how to convert .pse to html?

2017-01-23 Thread Albert 
Hello,

I've got a pymol .pse file and I am just wondering how can we convert it 
with a Linux command line directly to a .html file without opening pymol 
GUI?

Thank you very much.

Albert


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