Open arkwave opened 2 years ago
It seems a nice feature to add and easy to implement, if you'd like to submit a PR you're more than welcome! Thank you!
kind of on a related note, can I ask why the call to OMETiffWriter.write
saves the metadata as a description, rather than passing it in via the metadata
argument to tif.save
?
Hello, sorry for the late reply.
Providing a JSON-formatted description
argument to tif.write
is the most direct way to populate ImageDescription
tag, passing a dict via metadata
would just return it JSON-encoded with no real advantage.
https://github.com/cgohlke/tifffile/blob/375d97f62df6482142b51f1b38a49bdd24d18a60/tifffile/tifffile.py#L17646
The implementation is not visually easy to follow but you can easily verify with a debugger
https://github.com/cgohlke/tifffile/blob/375d97f62df6482142b51f1b38a49bdd24d18a60/tifffile/tifffile.py#L2350
Hello, it's me again. Quick question, how does the current implementation of OMETiffWriter
handle RGB images, i.e. images with dimension order SYX
? I have an RGB image with one single channel, and am having trouble writing it out to an OME-TIFF. Any help would be much appreciated!
If you would like this to be moved to its own topic, please let me know and I can repost.
yeah maybe we should open a new issue just for readability purposes. Could you reproduce the issue in a new thread? it would be easier for me to investigate it
Done! Opened a new issue here: https://github.com/filippocastelli/pyometiff/issues/5
Hey @arkwave and @filippocastelli, I just read this thread when looking for multi-series support. Has there been any update recently? :-) Thanks a lot for the great work1
hi @beniroquai sorry for the slow updates, Ive been working on my phd defense and didn't have much time to spend on this project. Now that it's done I can definitely spare some time to include multi-series support. I just need some time to look into it more closely
That would be fabulous! Thanks a lot! I can be a great beta tester ;D
Hi @beniroquai , just wanted to let you know I'm still on it. I'm slow because I don't have much time for dev on personal projects and this is pretty much a one man show at the moment. This repo really needs some contributors who are actively working in photonics / microscopy / lifescience to speed things up.
Thanks a lot Filippo! I really appreciate it. I could try helping out, but I'm a very bad coder :D
Message ID: @.***>
Hi, I was wondering if it would be possible to implement writing multi-series OME-TIFFs?
The underlying tifffile.TiffWriter class actually supports this natively (example here), and it would be really nice to have this alongside the XML validation that the
OMETIFFWriter
class does.Happy to make a PR that does this, if that would help!