[ome-users] [Software Feedback] warning messages when reading imaris images

[Melissa Linkert]

Hi Daniel,

[CC'ing ome-users in case anyone else has experienced this issue]

>>> I'm using loci_tools.jar as a means of reading Imaris images into Matlab. I'm getting the following message at the command line:
>>> 
>>> "WARN:  Variable Data has a Filter"
>>> 
>>> Is there a way to suppress this message?
>>> 
>> I believe this warning is issued by the NetCDF library we use to parse newer (5.5+) Imaris files.
>> 
>> At one point we had a fix to suppress these warnings, but it appears to be no longer active.
>
> P.S. Any chance the fix you mention can be reinstated? It's driving me nuts!

There is now a ticket on our issue tracking system to eliminate the
"WARN: Variable Data has a Filter" messages when working with Imaris 5.5
and MINC MRI data:

https://trac.openmicroscopy.org.uk/ome/ticket/8419

You have been CC'd on this ticket, and so will receive an automated
email with "[OME #8419]" in the subject line each time we update the status
of the ticket.  If you would prefer not to receive these emails, please
let me know.

Regards,
-Melissa

On Wed, Mar 28, 2012 at 04:17:23AM +0000, Daniel Matthews wrote:
> Hi Curtis,
> 
> Thanks for such a prompt response! And apologies for not using the correct route for bio-formats questions!
> 
> Daniel.
> 
> P.S. Any chance the fix you mention can be reinstated? It's driving me nuts!
> --
> Daniel Matthews, PhD
> Microscopy Services Officer
> Queensland Brain Institute
> Building 79
> University of Queensland
> St Lucia
> QLD 4072
> 
> Mobile: 0402023835
> 
> From: Curtis Rueden <ctrueden at wisc.edu<mailto:ctrueden at wisc.edu>>
> Date: Tue, 27 Mar 2012 23:11:39 -0500
> To: Daniel Matthews <d.matthews1 at uq.edu.au<mailto:d.matthews1 at uq.edu.au>>
> Cc: Melissa Linkert <melissa at glencoesoftware.com<mailto:melissa at glencoesoftware.com>>
> Subject: Re: [Software Feedback] warning messages when reading imaris images
> 
> Hi Daniel,
> 
> I'm using loci_tools.jar as a means of reading Imaris images into Matlab. I'm getting the following message at the command line:
> 
> "WARN:  Variable Data has a Filter"
> 
> Is there a way to suppress this message?
> 
> I believe this warning is issued by the NetCDF library we use to parse newer (5.5+) Imaris files.
> 
> At one point we had a fix to suppress these warnings, but it appears to be no longer active.
> 
> I agree they are annoying, but they are safe to ignore.
> 
> Regards,
> Curtis
> 
> P.S. In the future, please write to the OME Users mailing list for Bio-Formats questions and bug reports. See this page for details:
>     http://loci.wisc.edu/bio-formats/contact
> 
> 
> On Tue, Mar 27, 2012 at 8:57 PM, <d.matthews1 at uq.edu.au<mailto:d.matthews1 at uq.edu.au>> wrote:
> Daniel Matthews sent a message using the contact form at http://loci.wisc.edu/contact.
> 
> Hi!
> 
> I'm using loci_tools.jar as a means of reading Imaris images into Matlab. I'm getting the following message at the command line:
> 
> "WARN:  Variable Data has a Filter"
> 
> Is there a way to suppress this message?
> 
> Kind regards,
> 
> Daniel Matthews.
>