[ome-users] OMERO upgrade 5.0.8->5.1.4 failed

[Martin Schorb]

Dear all,

I cannot start a freshly installed OMERO 5.1.4 on ubuntu. I followed the
instructions on
http://www.openmicroscopy.org/site/support/omero5.1/sysadmins/server-upgrade.html,
the db upgrade worked fine.

starting omero leads to:

Creating /home/omero/OMERO.server-5.1.4-ice35-b55/var/master
Initializing /home/omero/OMERO.server-5.1.4-ice35-b55/var/log
Creating /home/omero/OMERO.server-5.1.4-ice35-b55/var/registry
No descriptor given. Using etc/grid/default.xml
Waiting on startup. Use CTRL-C to exit
.............................
Failed to startup some components after 300 seconds
Calling "stop" on remaining components


Thanks
Martin

================================================================================
OMERO Diagnostics 5.1.4-ice35-b55

================================================================================


Commands:   java -version                  1.7.0     (/usr/bin/java)

Commands:   python -V                      2.7.6     (/usr/bin/python)

Commands:   icegridnode --version          3.5.1
(/usr/bin/icegridnode)
Commands:   icegridadmin --version         3.5.1
(/usr/bin/icegridadmin)
Commands:   psql --version                 9.3.10    (/usr/bin/psql)


Server:     icegridnode                    not started

Log dir:    /home/omero/OMERO.server-5.1.4-ice35-b55/var/log exists

Log files:  Blitz-0.log                    54.0 KB       errors=26
warnings=0
Log files:  DropBox.log                    1.0 KB        errors=2
warnings=1
Log files:  FileServer.log                 0.0 KB
Log files:  Indexer-0.log                  54.0 KB       errors=35
warnings=0
Log files:  MonitorServer.log              0.0 KB
Log files:  OMEROweb.log                   n/a
Log files:  PixelData-0.log                54.0 KB       errors=35
warnings=0
Log files:  Processor-0.log                15.0 KB       errors=8
warnings=4
Log files:  Tables-0.log                   16.0 KB       errors=8
warnings=4
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                     0.20 MB


Environment:OMERO_HOME=(unset)
Environment:OMERO_NODE=(unset)
Environment:OMERO_MASTER=(unset)
Environment:OMERO_USERDIR=(unset)
Environment:OMERO_TMPDIR=(unset)
Environment:PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games
Environment:PYTHONPATH=(unset)
Environment:ICE_HOME=(unset)
Environment:LD_LIBRARY_PATH=(unset)
Environment:DYLD_LIBRARY_PATH=(unset)

Cannot list deployed applications.
OMERO data dir:'/OMERO'                       Exists? True      Is
writable? True
OMERO temp dir:'/home/omero/omero/tmp'        Exists? True      Is
writable? True   (Size: 0)

JVM settings: Blitz                         -Xmx2509m -XX:MaxPermSize=1g
-XX:+IgnoreUnrecognizedVMOptions
JVM settings: Indexer                       -Xmx1672m -XX:MaxPermSize=1g
-XX:+IgnoreUnrecognizedVMOptions
JVM settings: Pixeldata                     -Xmx2509m -XX:MaxPermSize=1g
-XX:+IgnoreUnrecognizedVMOptions
JVM settings: Repository                    -Xmx1672m -XX:MaxPermSize=1g
-XX:+IgnoreUnrecognizedVMOptions

OMERO.web status... WARNING: FastCGI support is deprecated and will be
removed in OMERO 5.2. Install Gunicorn and update config.
[NOT STARTED]


-- 
Martin Schorb, PhD

Application Engineer, Electron Microscopy Core Facility

EMBL Heidelberg
Meyerhofstraße 1,
69117 Heidelberg, Germany
+49 6221 387-8253
martin.schorb at embl.de
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