Appion

Neil, what is the status on this one?

We implemented running the program during the appion workshop, but I found out that EMAN re-sorts all the particles in the stack, so we need to implement a method to figure out the new position of the particles in the stack to properly link them in the database. Other than that everything else works fine. So, it can create class averages it is just that the information is not properly uploaded into the database.

I have some ideas on how to do this, but never got around to doing it. The information may be in the log file otherwise the particles in the stack can be number in the .hed file and read back after the program has run.

Reza ran into a problem b/c of not having the values in the DB. He tried running rctVolume.py and gets the following error:

Traceback (most recent call last):
  File "/home/amber/amiworkspace/myami/appion/bin/rctVolume.py", line 671, in ?
    rctVolume.start()
  File "/home/amber/amiworkspace/myami/appion/bin/rctVolume.py", line 606, in start
    eulerfile = self.makeEulerDoc(tiltParticlesData)
  File "/home/amber/amiworkspace/myami/appion/bin/rctVolume.py", line 355, in makeEulerDoc
    totrot = -1.0*(notrot + inplane)
TypeError: unsupported operand type(s) for +: 'float' and 'NoneType'

I think we should add a warning in the gui for eman refine 2d or finish this up soon.

It is not even close to ready and should not be included in any release. ETA this summer.