Appion

CTFFIND and Ctftilt are failing for seemingly random micrographs in datasets with the following error:

Starting image 1 ( skip:54, remain:776 ) id:3259216, file: 15sep10a_01sq
... Pixel size: 723.276
Found 0 ctf values
!!! WARNING: no best CTF value for image 15sep10a_01sq
... Xmag=69, dstep=5.00e-06, mpix=7.23e-08
Defocus search range: 28738951 A to 28788951 A (2873.90 to 2878.90 um)
... running ctf estimation at Sat Sep 12 10:32:09 2015
/data2/log-l/progs/myami/appion/bin/ctftilt64.exe
15sep10a_01sq.mrc
15sep10a_01sq-pow.mrc
2.7,300.0,0.07,69.129903384,5.0,2
512,100.0,10.0,28738951.6,28788951.6,500.0,500.0,-0.00249969375407,10
... ctf estimation completed in 429.47 msec
Traceback (most recent call last):
File "/data2/log-l/progs/myami/appion/bin/ctfestimate.py", line 449, in <module>
imgLoop.run()
File "/data2/log-l/progs/myami/appion/appionlib/appionLoop2.py", line 86, in run
results = self.loopProcessImage(imgdata)
File "/data2/log-l/progs/myami/appion/appionlib/appionLoop2.py", line 136, in loopProcessImage
return self.processImage(imgdata)
File "/data2/log-l/progs/myami/appion/bin/ctfestimate.py", line 317, in processImage
( nominaldf, self.ctfvalues['defocusinit']))
KeyError: 'defocusinit'

It then crashes and the micrograph needs to be hidden to process any other images.

Example command: ctfestimate.py --runname=ctffindrun1 --rundir=/data2/log-l/appion/15sep10a/ctf/ctffindrun1 --commit --projectid=6 --session=15sep10a --no-rejects --no-wait --continue --ampcarbon=0.15 --ampice=0.07 --fieldsize=512 --medium=ice --bin=2 --resmin=100 --resmax=10 --defstep=500 --numstep=50 --dast=500 --ctftilt --expid=14176 --jobtype=ctfestimate