Appion

Hello,

I now have appion installed and I have uploaded a tilt-series for processing. When I try to align the tilt-series using the protomo align algorithm it spits out an error. Below is the command I ran and output. When I look a the tilt-series in the database it has a pixel size of 9.8 Angstroms associated with it, but the error makes it seem like the variable 'pixelsize' is not known (or of nonetype). Any ideas?

One more question. Does centosAutoInstallation.py automatically install the third party software Protomo like it installs EMan and XMipp? Or do I need to install protomo separately? It's not clear to me.

Thanks,
Matt

[root@charon0 test]# tomoaligner.py --session=15jul24q13 --projectid=2 --runname=protomo1 --tiltseriesnumber=1 --rundir=/myamiImages/appion/15jul24q13/tomo/tiltseries/align/protomo1 --alignmethod=protomo --cycle=1 --sample=4 --region=50 --description="asdf" --commit --expid=5 --jobtype=tomoaligner

... Time stamp: 15jul24q16
 ... Function name: tomoaligner
 ... Appion directory: /usr/lib/python2.6/site-packages
 ... Using split database
Connected to database: 'ap2'
 ... Committing data to database
 ... Looking up session, 15jul24q13
 ... Looking up session first, 5
 ... Run directory: /myamiImages/appion/15jul24q13/tomo/tiltseries/align/protomo1
 ... Writing function log to: tomoaligner.log
 ... Running on host: charon0
 ... Uploading ScriptData....
 ... Running on host: charon0
 ... Found 4 processors on this machine
 ... Running on host: charon0
 ... Looking up session, 15jul24q13
 ... Running Appion version '3.1.0'
 ... getting imagelist
 ... Shifting image header start to zero on 15jul24q13_071215_pombe_cryosections_grid4_hole5_tomo0001_2k_1.mrc
 ... getting pixelsize
Traceback (most recent call last):
  File "/usr/bin/appion/tomoaligner.py", line 488, in <module>
    app.start()
  File "/usr/bin/appion/tomoaligner.py", line 350, in start
    apTomo.writeTiltSeriesStack(stackdir,stackname,ordered_mrc_files,1e10*pixelsize)
TypeError: unsupported operand type(s) for *: 'float' and 'NoneType'