DylanMuir/TIFFStack

Cannot access multiple channels in demultiplexed scanimage stack

Closed this issue · 4 comments

DylanMuir commented

Hello,
I'm trying to use your TIFFStack library and getting errors like this on stacks taken on scanimage system. I can ready the first channel in the first image, but any attempt to get further than that gives me the error:

Error using TIFFStack>TS_read_data_Tiff (line 1327)
*** TIFFStack: Could not read data from image file.
Error in TIFFStack/subsref (line 685)
                  tfData = TS_read_data_Tiff(oStack, S.subs, bLinearIndexing);
Caused by:
    Subscripted assignment dimension mismatch.

i.e. this works:

t = TIFFStack('file.tiff', [], 2); 
a = t(:, :, 1,1)

but this not:
a = t(:,:,2,1)

Thanks!
Yishai
@YishGene

DylanMuir commented

Hi @YishGene,
Could you please tell me the expected size of the ScanImage stack, and the result of typing size(t) in Matlab?

YishGene commented

Hi @DylanMuir ,

thanks for your reply!

>> size(t)
ans =
         210         512           2        4999

This is the expected size. On disk it's ~2.07 GB, and the only thing slightly off with these tiffs is that reading them using tifflib results in warnings of this sort:

Warning: TIFF library warning - 'TIFFFetchNormalTag:  ASCII value for tag
"ImageDescription" does not end in null byte.' 
> In TIFFStack (line 278)

-Yishai

YishGene commented

OK, here's something weird: I can't seem to reproduce the error now. Matlab has been killed and restarted a number of times since I encountered the issue, and now I can go all these operations without error. I don't know exactly what else has changed. I'm not entirely sure what tiff I was originally trying to open but a random selection of other tiffs worked all fine. Sorry!

DylanMuir commented