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Bug #5048
closedGenerating missing stack file error
Start date:
06/24/2017
Due date:
% Done:
0%
Estimated time:
Affected Version:
Appion/Leginon 3.2
Show in known bugs:
No
Workaround:
Description
Unable to generate missing stack file or create stack file when making a substack from 2D classes. Working as user mfalzone on SEMC cluster.
generateMissingStack.py --projectid=197 --expid=4260 --stackid=35 Connected to database: 'nyap_197' ... Getting stack data for stackid=35 Old stack info: 'sub ... 15881 particle substack with 4,7,9,11,13,15,16,19,21,43,40,59,58,36,57,81,99,50,29,25,24,66,47,48,69,93 classes included' ... Querying original particles from stackid=35 ... original stackid: 33 connecting Original stack: /gpfs/appion/mfalzone/17jun23b/stacks/centered31/ali.hed ... generating stack: '/gpfs/appion/mfalzone/17jun23b/stacks/alignsub18/ali.hed' with 15881 particles ... creating a new stack /gpfs/appion/mfalzone/17jun23b/stacks/alignsub18/ali.hed from the oldstack /gpfs/appion/mfalzone/17jun23b/stacks/centered31/ali.hed Traceback (most recent call last): File "/opt/myamisnap/bin/generateMissingStack.py", line 35, in <module> apVirtualStack.generateMissingStack(params['stackid']) File "/opt/myamisnap/lib/appionlib/apVirtualStack.py", line 25, in generateMissingStack apStack.makeNewStack(vstackdata['filename'], fname, plist) File "/opt/myamisnap/lib/appionlib/apStack.py", line 50, in makeNewStack partlist = emanLstFileToPartList(listfile) File "/opt/myamisnap/lib/appionlib/apStack.py", line 70, in emanLstFileToPartList f = open(listfile, "r") TypeError: coercing to Unicode: need string or buffer, list found
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