Unfortunately Chimera does not handle Amira segmentation files. Maybe we can add that to ChimeraX or next generation program. What kind of segmentations do you have? Are they surfaces? Or are the per-voxel index maps? Tom
On Dec 5, 2019, at 12:02 PM, Guo, Wangbiao <wangbiao.guo@yale.edu> wrote:
Thank you, Tom. So, what kind of Amira segment files can I open with Chimera?
On Dec 5, 2019, at 3:00 PM, Tom Goddard <goddard@sonic.net <mailto:goddard@sonic.net>> wrote:
The error message says your Amira file does not contain BoundingBox in the header. That line tells ChimeraX the size of the 3D image data in the file. I suspect it means your Amira file does not contain 3D image data (instead it might have segmentation surfaces or some other Amira objects). The Chimera Amira reader only handles 3d image data.
Tom
On Dec 5, 2019, at 11:36 AM, Guo, Wangbiao <wangbiao.guo@yale.edu> wrote:
<Screen Shot 2019-12-05 at 2.32.48 PM.png>
Hi: When I open my Amira label file by Chimera, I always come out with an error: cannot find “bounding box” line, can u help me to figure out? _______________________________________________ Chimera-users mailing list: Chimera-users@cgl.ucsf.edu Manage subscription: https://nam05.safelinks.protection.outlook.com/?url=http%3A%2F%2Fplato.cgl.ucsf.edu%2Fmailman%2Flistinfo%2Fchimera-users&data=02%7C01%7Cwangbiao.guo%40yale.edu%7Ce679ebbb7b8b49c59b6208d779bdc5ff%7Cdd8cbebb21394df8b4114e3e87abeb5c%7C0%7C0%7C637111728315753409&sdata=scrFe9T%2BHwAmaZgA8KEztPdlmaPX35iIex1QcX29LJ4%3D&reserved=0 <https://nam05.safelinks.protection.outlook.com/?url=http%3A%2F%2Fplato.cgl.ucsf.edu%2Fmailman%2Flistinfo%2Fchimera-users&data=02%7C01%7Cwangbiao.guo%40yale.edu%7Ce679ebbb7b8b49c59b6208d779bdc5ff%7Cdd8cbebb21394df8b4114e3e87abeb5c%7C0%7C0%7C637111728315753409&sdata=scrFe9T%2BHwAmaZgA8KEztPdlmaPX35iIex1QcX29LJ4%3D&reserved=0>