We're Hiring!

PE ERS single stack dataset does not display

Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats
Please note:
Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats

If you are having trouble with image files, there is information about reporting bugs in the Bio-Formats documentation. Please send us the data and let us know what version of Bio-Formats you are using. For issues with your code, please provide a link to a public repository, ideally GitHub.

PE ERS single stack dataset does not display

Postby hroque » Thu Jan 09, 2014 5:54 pm

Hi all,

I came across this problem where a single timepoint stack (several slices/2 channels) dataset acquired in PE ERS does not display in ImageJ/Fiji/OMERO.

The first slice of each channel displays some data but the remaining slices are populated with 0's.

Datasets here: https://www.dropbox.com/s/5yr4zymgb7q7lf1/Archive.zip

Cheers,
Helio
hroque
 
Posts: 36
Joined: Thu Nov 04, 2010 6:20 pm

Re: PE ERS single stack dataset does not display

Postby mlinkert » Fri Jan 10, 2014 12:25 am

Hi Helio,

The problem is that each of these datasets contains two extra pixel data files (*.1 and *.2) which prevent the other files from being detected correctly. We'll work on a fix for this (a ticket is forthcoming) but in the meantime, removing those files from the dataset directory should allow you to open and import the data.

-Melissa
User avatar
mlinkert
Team Member
 
Posts: 353
Joined: Fri May 29, 2009 2:12 pm
Location: Southwest Wisconsin

Re: PE ERS single stack dataset does not display

Postby hroque » Fri Jan 10, 2014 4:38 pm

Thanks Melissa,

That works, indeed.
As always great help.

Cheers,
Helio
hroque
 
Posts: 36
Joined: Thu Nov 04, 2010 6:20 pm


Return to User Discussion [Legacy]

Who is online

Users browsing this forum: No registered users and 1 guest