Re: [Jmol-users] Including jmol in php page.

[Arun K. S. <ar...@im...>]

> Right, your problem is that you are mixing Jmol scripting with JavaScript.
> On your page
>
>   load @name
>
> is expecting a Jmol variable called "name"
>
> But you have defined name as a JavaScript variable. So what you need there
> is this:
>
> <script language="javascript" type="text/javascript">
> jmolInitialize("jmol/");
> jmolApplet(300, "load <?php echo $str ?>.sdf");
> </script>
>
> provided there is no possibility of spaces in that file name, or
>
> <script language="javascript" type="text/javascript">
> jmolInitialize("jmol/");
> jmolApplet(300,  ' load "<?php echo $str ?>.sdf" ' );
> </script>
>
> if there is. I think you could put it all together like this, actually:
>
>
> <SCRIPT SRC="jmol/Jmol.js"></SCRIPT>
> <script language="javascript" type="text/javascript">
> jmolInitialize("jmol/");
> jmolApplet(300, ' load "<?php echo $_GET['ligand']?>.sdf" ' );
> </script>
>
>
> This code suffers a bit from the possibility of script injection, so you
> might want to think about that.
>
>
>
>
>
>
> On Fri, Jul 5, 2013 at 5:36 AM, Arun Kumar Somavarapu
> <ar...@im...>wrote:
>
>> Dear Friends,
>>
>> I am trying to include jmol in php page, it is working fine with static
>> structure name while loading a structure like below
>>
>> <script language="javascript" type="text/javascript">
>> jmolInitialize("jmol/");
>> jmolApplet(300, "load str.sdf");
>> </script>
>>
>> i am having a problem when i use a variable . i have code like below
>>
>> <?php
>> $str = $_GET['ligand'];
>> ?>
>> <SCRIPT SRC="jmol/./Jmol.js"></SCRIPT>
>> <script language="javascript" type="text/javascript">
>> var name = "<?php echo $str ?>.sdf";
>> jmolInitialize("jmol/");
>> jmolApplet(300, "load @name");
>> </script>
>>
>> this script will load jmol in page successfully but with out structure and
>> with
>> out any error.
>>
>> can any one direct me towards error or suggest me any other method for
>> successfully running jmol with a variable.
>>
>> Thanking you.
>>
>> ______________________________________________________________________
>> सूक्ष्मजीव प्रौद्योगिकी संस्थान (वैज्ञानिक औद्योगिक अनुसंधान परिषद)
>> Institute of Microbial Technology (A CONSTITUENT ESTABLISHMENT OF CSIR)
>> सैक्टर 39 ए, चण्डीगढ़ / Sector 39-A, Chandigarh
>> पिन कोड/PIN CODE :160036
>> दूरभाष/EPABX :0172 6665 201-202
>>
>>
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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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Hello Sir,

Thank you very much.
The code is working.
I am very happy after two days working on it.
i tried the snippet that you suggested
jmolApplet(300, ' load "<?php echo $_GET['ligand']?>.sdf" ' );
but it fails in accessing file names with spaces in it.
error: "file not found exception".
is there a way to handle this.
Thanking you.

______________________________________________________________________
सूक्ष्मजीव प्रौद्योगिकी संस्थान (वैज्ञानिक औद्योगिक अनुसंधान परिषद)
Institute of Microbial Technology (A CONSTITUENT ESTABLISHMENT OF CSIR)
सैक्टर 39 ए, चण्डीगढ़ / Sector 39-A, Chandigarh
पिन कोड/PIN CODE :160036
दूरभाष/EPABX :0172 6665 201-202