image larger than array
Added by cameron kennedy over 9 years ago
Hello,
I am the admin for a group with a polara with a K2 camera running leginon.
Everything runs okay manually, so I don't think I have a hardware issue.
My users are seeing these errors in the text output.
DM acqire shape (7420, 7676)
received shape (7416L, 7680L)
modified shape (7416L,7680L)
A problem occurred acquiring an image for SerialEM:
Warning: image is larger than the supplied array
Attached is an image of the gui.
I think we are receiving/expecting the wrong size image, and the gain correction is failing because of a mismatch is shape.
Has anyone seen this before, or have any ideas for what I should be looking for in the config files, database tables, or source tree ?
| serialem-error2.png (86.5 KB) serialem-error2.png | gui error screen shot |
Replies (4)
RE: image larger than array - Added by Anchi Cheng over 9 years ago
"DM acquire shape" is the configuration Leginon send to DM through SerialEMCCD plugin.
DM truncate that value if it exceeds its capacity.
Is this an older K2 camera and older version of Digital Micrograph ? The output dimension of the camera changed at some point.
Do a test in Digital Micrograph itself in the mode you have problem with to find out what the output dimension of the campera is limited to.
I suspect that it actually is (row,col) = (height,width) = (7416, 7680).
Once you know what that is, change instruments.cfg on that camera computer used by Leginon to have the dimension corresponds to it.
You can find the location of the configuration according to this page
RE: image larger than array - Added by cameron kennedy over 9 years ago
Thanks Anchi,
I haven't had a chance to check this out yet, the Polara has been in use for other projects.
RE: image larger than array - Added by cameron kennedy over 9 years ago
Our setup is working again, thank you for your help !
RE: image larger than array - Added by Anchi Cheng over 9 years ago
Did my solution work or did it just come back by itself ?