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Fused channel filename #13

Closed abisi closed 2 months ago

abisi commented 4 months ago

Hello,

I tested yesterday and saw that the filename of the fused images, per channel, is wrong. image I think there is a missing /. In the image you see e.g. AB105.czi_fused_tp_0_ch_1.tif.

I suspect this is why brainreg didn't start.

lacan commented 4 months ago

The image name seems correct... Can you share the file so I can check it?

abisi commented 4 months ago

I think there is just the ".czi" in surplus in the filename, so there are two extensions.

abisi commented 4 months ago

If you can, the file is at the location on Peacock Spider (but booked currently)!

lacan commented 4 months ago

Yes the .czi is there to keep it somewhat consistent. I can remove it but if I look at the result this the actual file on my comptuer for another brain image

abisi commented 4 months ago

Ah ok! I thought it was a mistake. But what happened after is that brainreg didn't start. I think it could not find the file. At the time I understood that the filename may have been an issue, and could not be found by the brainreg related code.

Does it work from A to Z on your end, especially the transition from fusion to brainreg?

Best, Axel

Le 30 juil. 2024 à 15:53, Olivier Burri @.***> a écrit :



Yes the .czi is there to keep it somewhat consistent. I can remove it but if I look at the result this the actual file on my comptuer for another brain image.png (view on web)https://github.com/user-attachments/assets/6f8b1ede-3da4-44a6-b861-bb6b94b8a517

— Reply to this email directly, view it on GitHubhttps://github.com/BIOP/lightsheet-brain-workflows/issues/13#issuecomment-2258407417, or unsubscribehttps://github.com/notifications/unsubscribe-auth/AFLG3Z4SSO76ZPH4RRM3ADLZO6LDJAVCNFSM6AAAAABKYLU2A6VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDENJYGQYDONBRG4. You are receiving this because you authored the thread.Message ID: @.***>

abisi commented 2 months ago

In the end this works.