can you set your Java version back to 1.5 and try that? (Look in your Java
Preferences for a preference list for applets, and if there is more than
just 1.6 there, drop it back to 1.5 or 1.4.
On Mon, Jul 26, 2010 at 8:55 AM, Jeff Hansen <[email protected]> wrote:
> Ok. I'm not sure this will add any helpful info, but this is what I tested
> this morning on Mac OS X 10.6.4 with Firefox 3.6.8 and Java 1.6.0_20.
>
> Went to Java Preferences.app and cleared the cache. Started up Firefox and
> loaded NT1. Clicked the Load Chlorophyll button. Worked fine. Closed
> Firefox and reopened it. Loaded NT1 and clicked the button. Now
> chlorophyll doesn't load (file access error). Went to Java Preferences and
> cleared the cache. Reloaded NT1. Still doesn't work. Closed Firefox,
> reopened it, and loaded NT1. Now it works. Reloaded NT1, still works. As
> long as I keep the browser open and reload the page or open it in a new tab,
> it works. As soon as I close Firefox and restart it, it doesn't work unless
> the cache has first been cleared. When the chlorophyll is not loading by
> the button, it loads from the console as Phil has already noted. NT3 works
> fine in all situations.
>
> I downloaded Firefox 3.6.7, 3.6.6, 3.5.11, 3.5.10, and 3.0.19 and observed
> the same behavior with all of them.
>
>
> ***********************************************
> Jeff Hansen
> Department of Chemistry and Biochemistry
> DePauw University
> 602 S. College Ave.
> Greencastle, IN 46135
> [email protected]
> ***********************************************
>
>
> On Jul 25, 2010, at 1:55 PM, Philip Bays wrote:
>
> Go to Application/Utilities/Java Preferences.ap. Once open go to the
> network tab. Toward the bottom there is a button to view cache files.
> If you select them all, and there may be many, click the X at the top to
> delete them. Or, if you really want to demonstrate the issue, only remove
> the one for the chlorophyll file.
>
> I have used Cocktail, Firefox, and applejack which each claims to clear the
> Java cache. None of them do:-(
> This is the only way I have found to do it.
>
> If you have your system set to clear java cache when the browser is shut
> down (however you do that -- I can't figure it out) then you will not
> observe the error.
>
>
>
> Phil
>
> On Jul 25, 2010, at 1:47 PM, Jeff Hansen wrote:
>
> Sorry, not sure where to find that. I cleared them from the Firefox Tools
> menu.
>
>
> ***********************************************
> Jeff Hansen
> Department of Chemistry and Biochemistry
> DePauw University
> 602 S. College Ave.
> Greencastle, IN 46135
> [email protected]
> ***********************************************
>
>
> On Jul 25, 2010, at 1:25 PM, Philip Bays wrote:
>
> Did you clear the Java cache from the java preferences panel? That seems
> to be the key.
>
> On Jul 25, 2010, at 1:15 PM, Jeff Hansen wrote:
>
> Under no circumstances am I now able to get the chlorophyll model to load.
> I cleared the cache and restarted Firefox and it didn't load chlorophyll.
>
> Mozilla/5.0 (Macintosh; U; Intel Mac OS X 10.6; en-US; rv:1.9.2.8)
> Gecko/20100722 Firefox/3.6.8
> Java 1.6.0_20
>
>
> ***********************************************
> Jeff Hansen
> Department of Chemistry and Biochemistry
> DePauw University
> 602 S. College Ave.
> Greencastle, IN 46135
> [email protected]
> ***********************************************
>
>
> On Jul 25, 2010, at 11:24 AM, Robert Hanson wrote:
>
> OK, I've tested this on my Mac with a freshly downloaded Firefox 3.6.8.
>
> No such problem.
>
> Phil, it looks to me like it might be a bad early version of 3.6.8.
>
> Mac users -- we need you to try this on Firefox 3.6.8:
>
> 1. load
> http://www.saintmarys.edu/~pbays/JStest/HTMLFiles/NT1.html<http://www.saintmarys.edu/%7Epbays/JStest/HTMLFiles/NT1.html>
> 2. click on the link under the applet to display chlorophyl
> 3. close the browser
> 4. open the browser
> 5 repeat steps 1 and 2.
>
> Phil's experience is that in step 5 the click will not work.
> My experience is that it will work.
>
> Please report EXACT Firefox version.
>
> Bob
>
>
>
> On Sun, Jul 25, 2010 at 10:00 AM, Robert Hanson <[email protected]>wrote:
>
>> Phil, I went ahead and added a comment to that bug report to see what they
>> say. I'll try to dig up Firefox 3.6.8 on a Mac around here to get additional
>> specifics.
>>
>> Bob
>>
>>
>> On Sun, Jul 25, 2010 at 8:30 AM, Robert Hanson <[email protected]>wrote:
>>
>>> Phil, wait, there are a couple more issues before you go back to them.
>>>
>>> 1) Did you say in that bug report that the signed applet has the same
>>> problem? That would be a BIG and different issue.
>>>
>>> 2) The first structure always loads, right? That indicates that Java can
>>> access its cache appropriately.
>>>
>>> 3) If only the second structure loading does not work, what we have is a
>>> JavaScript thread issue. It is the JavaScript/LiveConnect THREAD that is
>>> being blocked.
>>>
>>> 4) Tests you need to do:
>>>
>>> I. Try opening a console and issuing the load command from there. If it
>>> loads, then it is DEFINITELY a browser liveConnect thread blocking issue.
>>>
>>> II. Try that again using the useCommandThread TRUE.
>>>
>>> Bob
>>>
>>>
>>>
>>>
>>>
>>> On Sun, Jul 25, 2010 at 8:11 AM, Robert Hanson <[email protected]>wrote:
>>>
>>>> You should be able to get any version of Firefox, and in fact, if you
>>>> search your Mac applications directory you will probably find it. Just
>>>> start
>>>> it.
>>>>
>>>> OK, I have run a little test:
>>>>
>>>> 1. Monitor the Java Cache before and after starting the browser and
>>>> loading http://chemapps.stolaf.edu/jmol/docs/examples-11/new.htm
>>>>
>>>> 2. Close the browser
>>>>
>>>> 3. Repeat step 1.
>>>>
>>>> 4. Close the browser
>>>>
>>>> 5. Upload a NEW caffeine.xyz
>>>>
>>>> 6. Repeat step 1.
>>>>
>>>> Findings:
>>>>
>>>> 1. Java never "clears its cache." It just stores the file and the header
>>>> that came from the server associated with that file. That header contains a
>>>> date.
>>>>
>>>> 2. It looks like Java just first sends a message to a server asking for
>>>> a header, and if the header matches the one in the cache, then the file is
>>>> not downloaded, and the cached file is used instead. This is pretty
>>>> standard
>>>> operation.
>>>>
>>>>
>>>> OK, so why the security bug? Obviously it is a Firefox bug. Doesn't
>>>> happen in older browsers; only appears with Mac 3.6.8. You need to respond
>>>> to that bug report reply and be very clear about that. It would be
>>>> especially good if you have verified that it all works with Firefox/Mac
>>>> 3.5.7.
>>>>
>>>>
>>>> The bug is this (if you can confirm it on your Mac, Phil)
>>>>
>>>> Observation: Java applet running in Firefox 3.6.8/Mac specifically hit a
>>>> security violation when trying to read a file that was previously cached in
>>>> a prior browser session.
>>>>
>>>> Comments: This bug is specific to Firefox 3.6.8/Mac. It does not appear
>>>> with other operating systems and it does not appear with Firefox 3.5.7. All
>>>> works appropriately within one browser session, but after the browser is
>>>> closed and then re-opened, the applet cannot access any locally cached data
>>>> file from that previous session opened using Java's URL.openConnection()
>>>> method.
>>>>
>>>>
>>>> Bob
>>>>
>>>>
>>>> On Sun, Jul 25, 2010 at 7:08 AM, Robert Hanson
>>>>
>>>> <[email protected]> wrote:
>>>>
>>>>> Right - that does make sense -- submit a Java bug report, then. Make
>>>>> sure you have the latest Java available.
>>>>>
>>>>> On Sun, Jul 25, 2010 at 6:27 AM, Philip Bays <[email protected]>wrote:
>>>>>
>>>>>> Does this response make sense to anyone? If Firefox does not look at
>>>>>> java cache, how can adjusting the cache (removing a file, turning it on
>>>>>> or
>>>>>> off) have any affect? Because it is a bug in java that does not affect
>>>>>> non-mozilla browsers???
>>>>>>
>>>>>> Phil
>>>>>>
>>>>>> Begin forwarded message:
>>>>>>
>>>>>> *From: *[email protected]
>>>>>> *Date: *July 25, 2010 4:52:35 AM EDT
>>>>>> *To: *[email protected]
>>>>>> *Subject: **[Bug 581717] Firefox does not read java cache correctly*
>>>>>>
>>>>>> Do not reply to this email. You can add comments to this bug at
>>>>>> https://bugzilla.mozilla.org/show_bug.cgi?id=581717
>>>>>>
>>>>>> Jo Hermans <[email protected]> changed:
>>>>>>
>>>>>> What |Removed |Added
>>>>>>
>>>>>> ----------------------------------------------------------------------------
>>>>>> Status|UNCONFIRMED |RESOLVED
>>>>>> CC| |[email protected]
>>>>>> Resolution| |INVALID
>>>>>>
>>>>>> --- Comment #1 from Jo Hermans <[email protected]> 2010-07-25
>>>>>> 01:52:33 PDT ---
>>>>>> That is a problem in your version of Java, Firefox doesn't read that
>>>>>> cache at
>>>>>> all. That's why you see the problem on Mac, but not on Windows
>>>>>> (different
>>>>>> versions).
>>>>>>
>>>>>> --
>>>>>> Configure bugmail:
>>>>>> https://bugzilla.mozilla.org/userprefs.cgi?tab=email
>>>>>> ------- You are receiving this mail because: -------
>>>>>> You reported the bug.
>>>>>>
>>>>>>
>>>>>> J. Philip Bays
>>>>>> Professor of Chemistry
>>>>>> Department of Chemistry and Physics
>>>>>> Saint Mary's College
>>>>>> Notre Dame, IN 46556
>>>>>> (574) 284-4663
>>>>>> [email protected]
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> ------------------------------------------------------------------------------
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>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Robert M. Hanson
>>>>> Professor of Chemistry
>>>>> St. Olaf College
>>>>> 1520 St. Olaf Ave.
>>>>> Northfield, MN 55057
>>>>> http://www.stolaf.edu/people/hansonr
>>>>> phone: 507-786-3107
>>>>>
>>>>>
>>>>> 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
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> Robert M. Hanson
>>>> Professor of Chemistry
>>>> St. Olaf College
>>>> 1520 St. Olaf Ave.
>>>> Northfield, MN 55057
>>>> http://www.stolaf.edu/people/hansonr
>>>> phone: 507-786-3107
>>>>
>>>>
>>>> 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
>>>>
>>>
>>>
>>>
>>> --
>>> Robert M. Hanson
>>> Professor of Chemistry
>>> St. Olaf College
>>> 1520 St. Olaf Ave.
>>> Northfield, MN 55057
>>> http://www.stolaf.edu/people/hansonr
>>> phone: 507-786-3107
>>>
>>>
>>> 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
>>>
>>
>>
>>
>> --
>> Robert M. Hanson
>> Professor of Chemistry
>> St. Olaf College
>> 1520 St. Olaf Ave.
>> Northfield, MN 55057
>> http://www.stolaf.edu/people/hansonr
>> phone: 507-786-3107
>>
>>
>> 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
>>
>
>
>
> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> 1520 St. Olaf Ave.
> Northfield, MN 55057
> http://www.stolaf.edu/people/hansonr
> phone: 507-786-3107
>
>
> 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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>
>
> J. Philip Bays
> Professor of Chemistry
> Department of Chemistry and Physics
> Saint Mary's College
> Notre Dame, IN 46556
> (574) 284-4663
> [email protected]
>
>
>
>
> ------------------------------------------------------------------------------
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>
>
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>
>
> J. Philip Bays
> Professor of Chemistry
> Department of Chemistry and Physics
> Saint Mary's College
> Notre Dame, IN 46556
> (574) 284-4663
> [email protected]
>
>
>
>
> ------------------------------------------------------------------------------
> This SF.net email is sponsored by Sprint
> What will you do first with EVO, the first 4G phone?
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> http://p.sf.net/sfu/sprint-com-first_______________________________________________
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>
>
>
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--
Robert M. Hanson
Professor of Chemistry
St. Olaf College
1520 St. Olaf Ave.
Northfield, MN 55057
http://www.stolaf.edu/people/hansonr
phone: 507-786-3107
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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