question on tomoraptor.py in Appion
Added by Jane Ding over 13 years ago
In the current tomoraptor.py call, does it test whether a tilt series is "good" or not before submitting it to Raptor to calculate the reconstruction? By "good" we mean at least the tilt series was complete, not aborted in the middle. Thanks,
Replies (1)
RE: question on tomoraptor.py in Appion - Added by Anchi Cheng over 13 years ago
No.
The decision for processing a tilt series or not is made in tomoautorecon.py ( function isBadTiltSeries ). tomoraptor.py and tomoaligner.py assumes is a manual selection and will take anything the user put in. It would be best to be kept this way so that people can process suboptimal tilt series.
You can build in the web interface an option to filter out some of the obvious problem tilt series for selecting the tilt series for alignment. We would be happy to adopt it as long as it is an option that can be turned off.
You are also welcome to modify tomoautorecon.py isBadTiltSeries function and add more options to refine its behavior. The function now is rough, our recent real test showed that my criteria for bad tilt series was too loose. A number of processable tilt series got kicked out because I demanded better alignment between images than tomography programs could take.
Anchi