[ome-users] further issues installing
Simon Li
spli at dundee.ac.uk
Tue Apr 26 22:20:55 BST 2016
Hi Shaun
Have you seen our Centos 7 installation walkthrough?
http://www.openmicroscopy.org/site/support/omero5.2/sysadmins/unix/server-centos7.html
If you're using a virtualenv you'll have to modify the suggested scripts, but based on your previous installation it sounds like you've figured that out.
At first glance it looks like you're missing the ice-servers package.
Simon
On 26 Apr 2016 22:03, "Shaun Hare" <Shaun.Hare at nottingham.ac.uk<mailto:Shaun.Hare at nottingham.ac.uk>> wrote:
We are running through a new installation on centos7 and seem to keep getting thwarted - although we are learning lots I am afraid I am leaning on this mailing list a lot - my latest issue is as follows
There seems to be an issue with our install whereby when we start we cannot get the icegridnode version
see error below
ice has been installed using yum install ice ice-python from http://www.zeroc.com/download/Ice/3.5/
Any thoughts or help appreciated ?
./OMERO.server/bin/omero --debug=debug admin start
Returning popen: ['icegridnode', '--version']
Traceback (most recent call last):
File "./OMERO.server/bin/omero", line 125, in <module>
rv = omero.cli.argv()
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1438, in argv
cli.invoke(args[1:])
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 952, in invoke
stop = self.onecmd(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1029, in onecmd
self.execute(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1111, in execute
args.func(args)
File "/home/omero/OMERO.server/lib/python/omero/plugins/prefs.py", line 73, in open_and_close_config
return func(*args, **kwargs)
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 757, in start
self.startasync(args, config)
File "/home/omero/OMERO.server/lib/python/omero/plugins/prefs.py", line 73, in open_and_close_config
return func(*args, **kwargs)
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 708, in startasync
self.checkice()
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 1594, in checkice
popen = self.ctx.popen(["icegridnode", "--version"])
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1202, in popen
stdout=stdout, stderr=stderr)
File "/usr/lib64/python2.7/subprocess.py", line 711, in __init__
errread, errwrite)
File "/usr/lib64/python2.7/subprocess.py", line 1327, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
OMERO Diagnostics show the command aren’t there - but I cannot find any binarys in /opt/Ice-3.5.1/
or anywhere else - am I missing something
================================================================================
OMERO Diagnostics 5.2.2-ice35-b17
================================================================================
Commands: java -version 1.8.0 (/bin/java)
Commands: python -V 2.7.5 (/home/omero/venv/bin/python -- 2 others)
Commands: icegridnode --version not found
Commands: icegridadmin --version not found
Commands: psql --version 9.4.7 (/bin/psql)
No icegridadmin available: Cannot check server list
Log dir: /home/omero/OMERO.server/var/log exists
Log files: Blitz-0.log n/a
Log files: DropBox.log n/a
Log files: FileServer.log n/a
Log files: Indexer-0.log n/a
Log files: MonitorServer.log n/a
Log files: OMEROweb.log n/a
Log files: Processor-0.log n/a
Log files: Tables-0.log n/a
Log files: TestDropBox.log n/a
Log files: Total size 0.00 MB
Error while parsing logs
Environment:OMERO_HOME=/home/omero/OMERO.server
Environment:OMERO_NODE=(unset)
Environment:OMERO_MASTER=(unset)
Environment:OMERO_USERDIR=(unset)
Environment:OMERO_TMPDIR=(unset)
Environment:PATH=/home/omero/venv/bin:/sbin:/bin:/usr/sbin:/usr/bin
Environment:PYTHONPATH=(unset)
Environment:ICE_HOME=/opt/Ice-3.5.1/
Environment:LD_LIBRARY_PATH=(unset)
Environment:DYLD_LIBRARY_PATH=(unset)
Traceback (most recent call last):
File "./OMERO.server/bin/omero", line 125, in <module>
rv = omero.cli.argv()
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1438, in argv
cli.invoke(args[1:])
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 952, in invoke
stop = self.onecmd(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1029, in onecmd
self.execute(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1111, in execute
args.func(args)
File "/home/omero/OMERO.server/lib/python/omero/plugins/prefs.py", line 73, in open_and_close_config
return func(*args, **kwargs)
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 1353, in diagnostics
p = self.ctx.popen(self._cmd("-e", "application list")) # popen
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1202, in popen
stdout=stdout, stderr=stderr)
File "/usr/lib64/python2.7/subprocess.py", line 711, in __init__
errread, errwrite)
File "/usr/lib64/python2.7/subprocess.py", line 1327, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
(venv)[omero at lslapome01 ~]$ ./OMERO.server/bin/omero admin start
Traceback (most recent call last):
File "./OMERO.server/bin/omero", line 125, in <module>
rv = omero.cli.argv()
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1438, in argv
cli.invoke(args[1:])
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 952, in invoke
stop = self.onecmd(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1029, in onecmd
self.execute(line, previous_args)
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1111, in execute
args.func(args)
File "/home/omero/OMERO.server/lib/python/omero/plugins/prefs.py", line 73, in open_and_close_config
return func(*args, **kwargs)
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 757, in start
self.startasync(args, config)
File "/home/omero/OMERO.server/lib/python/omero/plugins/prefs.py", line 73, in open_and_close_config
return func(*args, **kwargs)
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 708, in startasync
self.checkice()
File "/home/omero/OMERO.server/lib/python/omero/plugins/admin.py", line 1594, in checkice
popen = self.ctx.popen(["icegridnode", "--version"])
File "/home/omero/OMERO.server/lib/python/omero/cli.py", line 1202, in popen
stdout=stdout, stderr=stderr)
File "/usr/lib64/python2.7/subprocess.py", line 711, in __init__
errread, errwrite)
File "/usr/lib64/python2.7/subprocess.py", line 1327, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
Many thanks
Shaun
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