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
>>>> 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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>>>
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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
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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]
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