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Bug #2778

open

Spider RCT via appion

Added by Reginald McNulty over 10 years ago. Updated over 10 years ago.

Status:
New
Priority:
Normal
Category:
-
Target version:
-
Start date:
05/14/2014
Due date:
% Done:

0%

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

Description

I get a MySSQL error when attempting to do RCT reconstructions on guppy. The job was submitted via appion. The error is below.

[rmcnulty@guppy rct1align170class79808184]$ more rct1align170class79808184.appionsub.log
... Time stamp: 14may14k19
... Function name: rctVolume
... Appion directory: /opt/myamisnap/lib
... Using split database

Traceback (most recent call last):
File "/opt/myamisnap/bin/rctVolume.py", line 682, in <module>
rctVolume = rctVolumeScript()
File "/opt/myamisnap/lib/appionlib/appionScript.py", line 74, in init
newdbname = apProject.getAppionDBFromProjectId(self.params['projectid'])
File "/opt/myamisnap/lib/appionlib/apProject.py", line 87, in getAppionDBFromProjectId
projdata = leginon.projectdata.projects.direct_query(projectid)
File "/opt/myamisnap/lib/sinedon/data.py", line 427, in direct_query
db = connections.getConnection(modulename)
File "/opt/myamisnap/lib/sinedon/connections.py", line 25, in getConnection
connections[modulename] = {'config': dbconf, 'connection': DB}
File "/opt/myamisnap/lib/sinedon/dbdatakeeper.py", line 37, in init
raise DatabaseError(e.args[-1])
sinedon.dbdatakeeper.DatabaseError: Can't connect to MySQL server on '137.131.205.164' (110)
Exception sinedon.dbdatakeeper.DatabaseError: DatabaseError("Can't connect to MySQL server on '137.131.205.164' (110)",) in <boun
d method rctVolumeScript.__del__ of <__main__.rctVolumeScript object at 0x28390d0>> ignored

Actions #1

Updated by Amber Herold over 10 years ago

  • Assignee set to Reginald McNulty

It looks like you are trying to connect to the old ip address for the database. It was changed 6 months ago when we moved to the new building. Where are you launching the job from? You may also be overriding the configuration file if you have a sinedon config file in your home directory.

Actions #2

Updated by Reginald McNulty over 10 years ago

Deleting the sinedon config file in my home directory worked. The jobs is running fine. Thanks!

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