[ImageJ-devel] [fiji-devel] LOCI crashes with current Fiji build on runtime

[Curtis Rueden]

Hi Jonas,

> I sat at work all day today pulling my hair - I could not make it
> work.

My sincerest apologies for the pain. It is almost certainly due to problems
on the update site, not your configuration.

I have updated the Bio-Formats installation in Fiji to the absolute latest
available, and hopefully ironed out these problems. Can you please run Help
> Update Fiji to install all the updates, and let me know if Bio-Formats
becomes functional for you?

Thanks,
Curtis


On Tue, Dec 11, 2012 at 10:55 AM, Jonas Øgaard <jonas at ogaard.no> wrote:

> Hi there,
>
> I have a working version of Fiji running at home (where I'm at now) and
> don't dare to break it, but I sat at work all day today pulling my hair - I
> could not make it work.
>
> I tried fresh downloads (fiji with and without jre), I tried removing one
> LOCI-jar, then the other, then both. I tried updating both fiji and imagej
> in two seperate clean setups, and also tried repeating updates to make sure
> no more components where awaiting updates.
>
> It could be that the java-install is not entirely stable/up-to-date - it's
> running JRE6. Haven't tried 7.
>
> I have no clue. Working from home tomorrow where it's safe & stable!
>
> Sincerely,
> Jonas
>
>
> On Tue, Dec 11, 2012 at 5:47 PM, Curtis Rueden <ctrueden at wisc.edu> wrote:
>
>> Hi Jonas,
>>
>> > I am unable to import files with LOCI, no matter which loci-jar is
>> > deleted or not...
>>
>> I updated Fiji with the 4.4.5 release of Bio-Formats last night, so these
>> errors are almost certainly my fault.
>>
>> Unfortunately, I am unable to replicate the problem. I tried updating an
>> existing Fiji on another workstation, and all worked fine (though I did
>> have to click "break the dependency" in response to one prompt). I also
>> tried with a fresh continuous release downloaded from fiji.sc just now,
>> and it also worked.
>>
>> If you run Help > Update Fiji, click on Advanced mode, what do you see
>> for "Locally modified files" and "Uninstalled files only"? A fully
>> up-to-date Fiji should not have any entries.
>>
>> -Curtis
>>
>>
>> On Tue, Dec 11, 2012 at 6:31 AM, <jonas.ogaard at gmail.com> wrote:
>>
>>> Hi!
>>>
>>> I am still having difficulties with the latest Fiji (both w/w/out jre)
>>> and LOCI. Receiving same errors as described above.
>>>
>>> As of now I am unable to import files with LOCI, no matter which
>>> loci-jar is deleted or not...
>>>
>>> Have I magically jinxed my Fiji folder (again) or is this a problem
>>> shared by others?
>>>
>>> Awesome work btw, Johannes (:
>>>
>>> //Jonas
>>>
>>> On Wednesday, August 1, 2012 7:37:26 PM UTC+2, Johannes Schindelin wrote:
>>>
>>>> Hi Sebi,
>>>>
>>>> On Wed, 1 Aug 2012, sebr... at gmail.com wrote:
>>>>
>>>> > I tried to download the most up-to-date version (
>>>> > http://jenkins.imagej.net/job/**Stable-Fiji/**
>>>> lastSuccessfulBuild/artifact/**fiji-nojre.zip<http://jenkins.imagej.net/job/Stable-Fiji/lastSuccessfulBuild/artifact/fiji-nojre.zip>)
>>>>
>>>> >
>>>> >
>>>> > This contains the loci_tools.jar as well as the the individual jars.
>>>> So
>>>> > should i just delete which files? This issues is quite critical for
>>>> us,
>>>> > since the Loci Bio-Format import is cruicial for us (and customer) to
>>>> > import the OME-TIFF data produced by our imaging software.
>>>>
>>>> Yes, it is safe to delete loci_tools.jar. My work last year on enabling
>>>> multiple update sites introduced the bug that removing files from
>>>> update
>>>> sites does not mark them as obsolete if you updated the files
>>>> successfully
>>>> before. We just did not hit that bug because we did not remove files in
>>>> a
>>>> long time ;-)
>>>>
>>>> > Do you still have an idea when this problem might get solved?
>>>>
>>>> It is fixed in the source code, I just have to upload a new version
>>>> (for
>>>> which I need to be comfortable with the current state first, though
>>>> ;-).
>>>> Should be happening within the hour.
>>>>
>>>> Ciao,
>>>> Dscho
>>>>
>>>
>>> _______________________________________________
>>> ImageJ-devel mailing list
>>> ImageJ-devel at imagej.net
>>> http://imagej.net/mailman/listinfo/imagej-devel
>>>
>>>
>>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://imagej.net/pipermail/imagej-devel/attachments/20121211/2ee3d64a/attachment.html>