Re: [Jmol-users] Allow access to the following application

2014-08-06 Thread Rolf Huehne
On 08/05/2014 06:50 PM, Rzepa, Henry S wrote:
> Can anyone help with this mystery.
>
> If  I open a web page using a properly signed  Java applet (from Bob), I get 
> a dialog (OS X Mavericks, Safari, Java 7.67) which says
>
> Web site: http://www.ch.ic.ac.uk
> Application: UNKNOWN   (why unknown, its properly signed!)
> Publisher: UNKOWNN  (no they are not!
> Check box “Do not show this again for this app and web site” is checked
>
> The trouble is that this check box is entirely ignored.  Next time the app 
> loads, up pops this dialog again.
> If you want to see if this can be replicated, try it at  
> http://www.ch.ic.ac.uk/rzepa/cub2jvxl/
>
> (PS using 14.0.1 for the above.  14.2.4 does not work with the file dialog 
> request to load a cube file from a local disk).
>
> By the way if I accidentally press  “Do not allow” instead of “allow” the 
> site is entirely disabled permanently on that computer,  and I cannot get it 
> to  ever work again (despite browser cache purges, restarts, etc. ).  If only 
>  I knew where the file was which remembers this (accidentally entered) 
> information,  I could delete it, but try as I might  I cannot find it!  Nor 
> does editing the  Exception site list help either.
>
> Java, to quote  Steve Jobs, is a bag of hurt, and hurting more and more.  But 
> I need it to eg generate isosurfaces from (often  500 Mbyte) cube files.
>
You could try to look in Safari in the 'Security' tab of the 'Settings' 
dialog. After I allowed the applet from your example page your site 
appeared there in the list.
On my MacBook (OS X Mavericks; Java &,67, first time installation) 
'UNKNOWN' was replaced with the proper names in the dialogs for your Site.

There was an extra dialog from Safari, asking for permission that the 
page 'http://www.ch.ic.ac.uk/rzepa/cub2jvxl/' can take control of the 
Jmol applet. I have never seen this before on Firefox or Chrome.
I also got the same question for our own Jmol-based viewer 
(http://jena3d.fli-leibniz.de) using Jmol 14.0.5. But in contrast to 
your site I had to put our site first manually into the list under 
'Settings->Security' until it was even tried to run Jmol.
So it seems that at least in Safari it has become even more scary for a 
user to run a Java applet despite using a properly signed applet.

Regards,
Rolf


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Re: [Jmol-users] Allow access to the following application

2014-08-06 Thread Angel Herráez
Hi Henry!

I tried your page in my Win7 laptop.
It loads fine, I got two regular Java dialogs asking for enabling the applet 
(one is a Java-style dialog, the other looks like coming from the browser), 
Both displayed name and signing information correctly.
Jmol applet loaded quickly and I could load a file from my hard disk (a 
2450-atoms pdb). It saved the XYZ file successfully. The applet is very slow 
responding to mouse rotation or zoom (if moves the model after a while, not 
while you interact). The CPU seems to be busy, at about 50%, maybe still 
calculating an isosurface?  
For an isosurface calculated in the app, it usually stays at 100% but finishes 
much more quickly.

Finally I've killed the browser.



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Re: [Jmol-users] Allow access to the following application

2014-08-05 Thread Pshemak Maslak

On 8/5/2014 1:06 PM, Rzepa, Henry S wrote:

On 5 Aug 2014, at 18:01, Pshemak Maslak  wrote:


You may try the following:

1. uninstall all Java
2. delete all Java directories (I do not know where they are on OS X, but on 
Win they are within AppData and within users) with Oracle and Sun in the name 
(does OS X has a good search utility?)

Non trivial.  Despite the  deceptively simple uninstall instructions on  
Oracle’s page, there are  Java caches all over the place. And OS X does not 
search system files, only user files.  I have tried doing this, but it has not 
yet worked for me.



3, reinstall Java

These are probably "desperation" moves, but it MAY work on OS X too.

PM



Now I know why I do not like Mac's.

You probably seen this already, but just in case:

https://developer.apple.com/library/mac/qa/qa1170/_index.html

PM
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Re: [Jmol-users] Allow access to the following application

2014-08-05 Thread Pshemak Maslak

You may try the following:

1. uninstall all Java
2. delete all Java directories (I do not know where they are on OS X, 
but on Win they are within AppData and within users) with Oracle and Sun 
in the name (does OS X has a good search utility?)

3, reinstall Java

These are probably "desperation" moves, but it MAY work on OS X too.

PM



On 8/5/2014 12:50 PM, Rzepa, Henry S wrote:

Can anyone help with this mystery.

If  I open a web page using a properly signed  Java applet (from Bob), I get a 
dialog (OS X Mavericks, Safari, Java 7.67) which says

Web site: http://www.ch.ic.ac.uk
Application: UNKNOWN   (why unknown, its properly signed!)
Publisher: UNKOWNN  (no they are not!
Check box "Do not show this again for this app and web site" is checked

The trouble is that this check box is entirely ignored.  Next time the app 
loads, up pops this dialog again.
If you want to see if this can be replicated, try it at  
http://www.ch.ic.ac.uk/rzepa/cub2jvxl/

(PS using 14.0.1 for the above.  14.2.4 does not work with the file dialog 
request to load a cube file from a local disk).

By the way if I accidentally press  "Do not allow" instead of "allow" the site 
is entirely disabled permanently on that computer,  and I cannot get it to  ever work again 
(despite browser cache purges, restarts, etc. ).  If only  I knew where the file was which 
remembers this (accidentally entered) information,  I could delete it, but try as I might  I cannot 
find it!  Nor does editing the  Exception site list help either.

Java, to quote  Steve Jobs, is a bag of hurt, and hurting more and more.  But I 
need it to eg generate isosurfaces from (often  500 Mbyte) cube files.


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Re: [Jmol-users] Allow access to the following application

2014-08-05 Thread Rzepa, Henry S

On 5 Aug 2014, at 18:01, Pshemak Maslak  wrote:

> You may try the following:
> 
> 1. uninstall all Java
> 2. delete all Java directories (I do not know where they are on OS X, but on 
> Win they are within AppData and within users) with Oracle and Sun in the name 
> (does OS X has a good search utility?)

Non trivial.  Despite the  deceptively simple uninstall instructions on  
Oracle’s page, there are  Java caches all over the place. And OS X does not 
search system files, only user files.  I have tried doing this, but it has not 
yet worked for me.


> 3, reinstall Java
> 
> These are probably "desperation" moves, but it MAY work on OS X too.
> 
> PM
> 
> 



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[Jmol-users] Allow access to the following application

2014-08-05 Thread Rzepa, Henry S
Can anyone help with this mystery.

If  I open a web page using a properly signed  Java applet (from Bob), I get a 
dialog (OS X Mavericks, Safari, Java 7.67) which says

Web site: http://www.ch.ic.ac.uk
Application: UNKNOWN   (why unknown, its properly signed!)
Publisher: UNKOWNN  (no they are not!
Check box “Do not show this again for this app and web site” is checked

The trouble is that this check box is entirely ignored.  Next time the app 
loads, up pops this dialog again.
If you want to see if this can be replicated, try it at  
http://www.ch.ic.ac.uk/rzepa/cub2jvxl/

(PS using 14.0.1 for the above.  14.2.4 does not work with the file dialog 
request to load a cube file from a local disk). 

By the way if I accidentally press  “Do not allow” instead of “allow” the site 
is entirely disabled permanently on that computer,  and I cannot get it to  
ever work again (despite browser cache purges, restarts, etc. ).  If only  I 
knew where the file was which remembers this (accidentally entered) 
information,  I could delete it, but try as I might  I cannot find it!  Nor 
does editing the  Exception site list help either.

Java, to quote  Steve Jobs, is a bag of hurt, and hurting more and more.  But I 
need it to eg generate isosurfaces from (often  500 Mbyte) cube files. 


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