Stop debug mode

[FiReTiTi]

Hi,

I use the bioformats_package.jar in my java library, in order to read images.
But every time I read an image, I have a lot of information because the debug mode is on. See an example:

[main] DEBUG loci.common.IniParser - Line 1:
01:22:05.191 [main] DEBUG loci.common.IniParser - Line 2:
01:22:05.191 [main] DEBUG loci.common.IniParser - Line 3: [autoscale]
01:22:05.191 [main] DEBUG loci.common.IniParser - Line 4: type = boolean
01:22:05.191 [main] DEBUG loci.common.IniParser - Line 5: label = Autoscale
...

I have tens of those lines.

How can I stop the debug mode?
Thank you for your help!

[sbesson]

Hi,

to tune the logging level, you should be able to use the DebugTools.enableLogging method.

As an example, this block shows how the command-line showinf tool sets the level to DEBUG when the -debug option is passed.

Sebastien

[FiReTiTi]

Thank you very much, that's exactly what I needed!!!

[FiReTiTi]

One last question (related).
Even when I set DebugTools.enableLogging ("OFF"), for one of my image, this information is display: Populating metadata
I tried to modify the ImporterOptions, but it didn't work.
Any idea?


[Edit] I tried to read a tif file containing a stack, and I got all these informations:

Reading header
Populating core metadata
Reading extended header
Populating original metadata
Populating OME metadata
Reading header
Populating original metadata
Populating OME metadata

I would really like shutdown all these informations.

[sbesson]

Hi,

is the code you are using available publicly to help us debugging the issue here? Also can you give us more specifics about "one of my image": is this image from a different file format?

Sebastien

[FiReTiTi]

Hi,
the text I shared is the outputs displayed when I read the image, even when I set DebugTools.enableLogging ("OFF").
About the image, it is a TIFF file representing a stack with four channels.

[FiReTiTi]

So far the code I use is this simple line:

Code: Select all

ImagePlus[] images = BF.openImagePlus("...")  ;

[sbesson]

Hi,

Would it be possible for you to upload this TIFF file to http://qa.openmicroscopy.org.uk/qa/upload?
On the code side, I understand you are using a custom Java code or a custom ImageJ/Fiji macro? Is the code on GitHub? Otherwise, could you upload it either as a Gist or as part of the TIFF upload (you should be able to zip files together and upload them as a zip)?

Best,
Sebastien

[FiReTiTi]

Hi,
thank you for your answer.
I don't use any custom java code, just the simple line I share in my previous post. I found the class BF to read images for ImageJ.
And my bad, the image is not a TIFF, but a DV. I only have this huge file to share right now, but it generates the text I was talking about: www.thibault.biz/Developpez/test.dv

[bramalingam]

Hi,

Thank you for submitting your file.
We were able to reproduce the issue locally and I have filed a ticket on this regard,
https://trac.openmicroscopy.org/ome/ticket/13151#ticket

This will get looked into at the earliest.

Best,
Balaji