Project

General

Profile

Actions

Bug #2356

open

stack creation

Added by David Veesler over 11 years ago. Updated over 11 years ago.

Status:
Assigned
Priority:
Normal
Assignee:
Category:
-
Target version:
-
Start date:
05/06/2013
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 2.1.0
Show in known bugs:
No
Workaround:

Description

I am currently trying to create a stack and the job crashes with an error message I have never seen before.

... Time stamp: 13may06l59
... Function name: makestack2
... Appion directory: /opt/myamisnap/lib
... Using split database
Connected to database: 'ap373'
... Committing data to database
... Boxsize 1024 contains the primes: [2, 2, 2, 2, 2, 2, 2, 2, 2, 2]
... Found project id=373 for session 12nov30d in 9.11 msec
... Run directory: /ami/data15/appion/12nov30d/stacks/stack38
!!! WARNING: directory '/ami/data15/appion/12nov30d/stacks/stack38' already exists.
... Writing function log to: makestack2.log
... Running on host: guppy-26
... Uploading ScriptData....
... Running on host: guppy-26
... Found 4 processors on this machine
... Running Appion version 'trunk'
... Creating new done dictionary: makestack2.donedict
... Querying database for preset 'es-a' images from session '12nov30d' ...
... Found 1046 images in 2.35 sec
... Remove processed images
skipping images
........................................................................................
..............................................................................................
...............................................................................................
.........................................................................................................................

!!! WARNING: skipped 295 of 1046 images
... [[ 0 no reprocess | 294 rejected | 0 wrong tilt | 0 in donedict ]]
... Process images old to new
!!! WARNING: Checking for dd
... Stack pixelsize = 1.210 A
... Looking up session, 12nov30d
... Found project id=373 for session 12nov30d in 11.01 msec
... missing acecutoff

Traceback (most recent call last):
File "/opt/myamisnap/bin/makestack2.py", line 1182, in <module>
makeStack.run()
File "/opt/myamisnap/lib/appionlib/appionLoop2.py", line 90, in run
self.preLoopFunctions()
File "/opt/myamisnap/bin/makestack2.py", line 1049, in preLoopFunctions
super(Makestack2Loop,self).preLoopFunctions()
File "/opt/myamisnap/lib/appionlib/apParticleExtractor.py", line 529, in preLoopFunctions
super(ParticleBoxLoop,self).preLoopFunctions()
File "/opt/myamisnap/lib/appionlib/apParticleExtractor.py", line 402, in preLoopFunctions
self.setStartingParticleNumber()
File "/opt/myamisnap/bin/makestack2.py", line 1036, in setStartingParticleNumber
self.resetStack()
File "/opt/myamisnap/bin/makestack2.py", line 1029, in resetStack
self.insertStackRun()
File "/opt/myamisnap/bin/makestack2.py", line 875, in insertStackRun
apDisplay.printError("Weird, run data without stack already in the database")
File "/opt/myamisnap/lib/appionlib/apDisplay.py", line 61, in printError
raise Exception, colorString("\n * FATAL ERROR *\n"+text+"\n\a","red")
Exception: * FATAL ERROR *
Weird, run data without stack already in the database

Actions

Also available in: Atom PDF