[ome-users] PixelData errors

[Tjelvar Olsson (JIC)]

Dear all,

I have been working on creating an ansible script for automating the
installation of an OMERO server on Centos 6.5.

The ansible script seems to be working and I can create a clean
installation from scratch.

However, when I run the diagnostic tool on a clean install I get a
number of warnings and some errors.


$ ./OMERO.server/bin/omero admin diagnostics

================================================================================
OMERO Diagnostics 5.0.5-ice35-b47
================================================================================

Commands:   java -version                  1.7.0     (/usr/bin/java)
Commands:   python -V                      2.6.6     (/usr/bin/python)
Commands:   icegridnode --version          3.5.1
(/usr/bin/icegridnode)
Commands:   icegridadmin --version         3.5.1
(/usr/bin/icegridadmin)
Commands:   psql --version                 8.4.20    (/usr/bin/psql)

Server:     icegridnode                    running
Server:     Blitz-0                        active (pid = 13754, enabled)
Server:     DropBox                        active (pid = 13981, enabled)
Server:     FileServer                     active (pid = 13774, enabled)
Server:     Indexer-0                      active (pid = 13778, enabled)
Server:     MonitorServer                  active (pid = 13767, enabled)
Server:     OMERO.Glacier2                 active (pid = 13775, enabled)
Server:     OMERO.IceStorm                 active (pid = 13776, enabled)
Server:     PixelData-0                    active (pid = 13777, enabled)
Server:     Processor-0                    active (pid = 13783, enabled)
Server:     Tables-0                       active (pid = 13771, enabled)
Server:     TestDropBox                    inactive (enabled)

OMERO:      SSL port                       4064
OMERO:      TCP port                       4063


Server:     icegridnode                    running
Server:     Blitz-0                        active (pid = 13754, enabled)
Server:     DropBox                        active (pid = 13981, enabled)
Server:     FileServer                     active (pid = 13774, enabled)
Server:     Indexer-0                      active (pid = 13778, enabled)
Server:     MonitorServer                  active (pid = 13767, enabled)
Server:     OMERO.Glacier2                 active (pid = 13775, enabled)
Server:     OMERO.IceStorm                 active (pid = 13776, enabled)
Server:     PixelData-0                    active (pid = 13777, enabled)
Server:     Processor-0                    active (pid = 13783, enabled)
Server:     Tables-0                       active (pid = 13771, enabled)
Server:     TestDropBox                    inactive (enabled)

OMERO:      SSL port                       4064
OMERO:      TCP port                       4063

Log dir:    /home/omero/OMERO.server/var/log exists

Log files:  Blitz-0.log                    47.0 KB      
Log files:  DropBox.log                    3.0 KB        errors=2
warnings=1   
Log files:  FileServer.log                 0.0 KB       
Log files:  Indexer-0.log                  1.0 KB        errors=0
warnings=1   
Log files:  MonitorServer.log              1.0 KB       
Log files:  OMEROweb.log                   0.0 KB       
Log files:  OMEROweb_request.log           0.0 KB       
Log files:  PixelData-0.log                18.0 KB       errors=7
warnings=1   
Log files:  Processor-0.log                1.0 KB       
Log files:  Tables-0.log                   1.0 KB       
Log files:  TestDropBox.log                n/a
Log files:  master.err                     0.0 KB        errors=0
warnings=2   
Log files:  master.out                     0.0 KB       
Log files:  Total size                     0.08 MB


Environment:OMERO_HOME=(unset)             
Environment:OMERO_NODE=(unset)             
Environment:OMERO_MASTER=(unset)           
Environment:OMERO_TEMPDIR=(unset)          
Environment:PATH=/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/sbin:/home/vagrant/bin 
Environment:PYTHONPATH=(unset)             
Environment:ICE_HOME=(unset)               
Environment:LD_LIBRARY_PATH=(unset)        
Environment:DYLD_LIBRARY_PATH=(unset)      

OMERO data dir: '/OMERO'        Exists? True    Is writable? True
OMERO temp dir: '/home/omero/omero/tmp' Exists? True    Is writable?
True   (Size: 0)
OMERO.web status... [RUNNING] (PID 14140)


My question is: should I be worried about the PixelData errors (log file
attached)?
What do they mean and why are they raised?

Example error:

org.springframework.dao.DuplicateKeyException:
PreparedStatementCallback; SQL [insert into configuration (name, value)
values (?,?)]; ERROR: duplicate key value violates unique constraint
"configuration_pkey"; nested exception is
org.postgresql.util.PSQLException: ERROR: duplicate key value violates
unique constraint "configuration_pkey"

Kind regards,

Tjelvar



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