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Bug #4229
closedRelion 2d class average upload errror
Status:
Won't Fix or Won't Do
Priority:
Normal
Assignee:
-
Category:
-
Target version:
-
Start date:
05/30/2016
Due date:
% Done:
0%
Estimated time:
Affected Version:
Appion/Leginon 3.2
Show in known bugs:
No
Workaround:
Description
When trying to upload Relion class average run to database (see: http://192.168.4.37/betamyamiweb/processing/runUploadMaxLike.php?expId=2177&maxlikeid=91)
I get a "mirror error"
[bcarr@SEMC-head spotiton]$ /opt/myamisnap/bin/appion uploadMaxlikeAlignment.py --rundir=/gpfs/appion/bcarr/16may27g/align/rmaxlike4 -t 16may29p01 --commit --projectid=63 --runname=91 --expid=2177 --jobtype=partalign
... Time stamp: 16may30l23
... Function name: uploadMaxlikeAlignment
... Appion directory: /opt/myamisnap/lib
... Processing hostname: SEMC-head
... Using split database
Connected to database: 'nyap_63'
... Committing data to database
... Run directory: /gpfs/appion/bcarr/16may27g/align/rmaxlike4
!!! WARNING: directory '/gpfs/appion/bcarr/16may27g/align/rmaxlike4' already exists.
... Writing function log to: uploadMaxlikeAlignment.log
... Uploading ScriptData....
... Found 24 processors on this machine
... Running Appion version 'myami-3.2'
Traceback (most recent call last):
File "/opt/myamisnap/bin/uploadMaxlikeAlignment.py", line 639, in <module>
maxLike.start()
File "/opt/myamisnap/bin/uploadMaxlikeAlignment.py", line 606, in start
self.alignReferences(runparams)
File "/opt/myamisnap/bin/uploadMaxlikeAlignment.py", line 485, in alignReferences
if runparams['mirror'] is True:
KeyError: 'mirror'
[bcarr@SEMC-head spotiton]$Updated by Neil Voss over 8 years ago
Hi Bridget,
you must be using an older version of myamiweb and Appion. There is no upload for RELION in myamiweb, it should happen automatically.
Nonetheless, you could try this command to get it in...
/opt/myamisnap/bin/appion uploadRelion2DMaxlikeAlign.py \ --rundir=/gpfs/appion/bcarr/16may27g/align/rmaxlike4 -t 16may29p01 \ --commit --projectid=63 --runname=91 --expid=2177 --jobtype=partalign
Updated by Anchi Cheng about 8 years ago
- Is duplicate of Bug #4396: Relion 2d alignment fails on upload with empty classes added
Updated by Anchi Cheng about 8 years ago
- Is duplicate of deleted (Bug #4396: Relion 2d alignment fails on upload with empty classes)
Updated by Anchi Cheng about 8 years ago
- Status changed from New to Won't Fix or Won't Do
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