OMERO.web error: .lock file being used by another process
Posted: Fri Apr 04, 2014 8:51 amHi all,
I'm attempting to start OMERO.web after configuring it to run on IIS7.5 as detailed in the System Administrator documents.
After the setup, I attempted to run the web server in a command prompt with administrator rights. However, I received the following error (debug has been turned on, scroll to the end of this output for the error message).
The development Django server will work, however.
I checked and noted that both my user account and the administrator have full access rights to C:\Users\douglass\AppData\Roaming\omero\tmp\omero_douglass\1180\
My system details, software versions, and OMERO admin diagnostics output is below.
Could anyone explain how to fix this problem? Thanks!
Kyle
----------
Software versions
(All are 64 bit except when the 64 bit binaries are not available.)
----------
System details
----------
OMERO Diagnostics
----------
My thoughts:
Could the problem come from unset environment variables, like OMERO_TEMPDIR?
In the documentation for the IIS setup (found here: https://www.openmicroscopy.org/site/support/omero5/sysadmins/windows/install-web.html#using-iis), there's a curious command involving the Django web server. I would have thought that we should be setting configuration properties related to IIS. I copied the command set straight from the docs and pasted it below:
Finally, this may perhaps relate to a current thread on the listserv, where someone else is trying to get OMERO.web running on a very similar system: http://lists.openmicroscopy.org.uk/pipermail/ome-users/2014-April/004324.html
I'm attempting to start OMERO.web after configuring it to run on IIS7.5 as detailed in the System Administrator documents.
After the setup, I attempted to run the web server in a command prompt with administrator rights. However, I received the following error (debug has been turned on, scroll to the end of this output for the error message).
The development Django server will work, however.
- Code: Select all
C:\OMERO.server>bin\omero web start
INFO:__main__:Application Starting...
INFO:root:Processing custom settings for module omeroweb.settings
DEBUG:omeroweb.settings:ADMINS = [] (source:default)
DEBUG:omeroweb.settings:ALLOWED_HOSTS = [u'*'] (source:default)
DEBUG:omeroweb.settings:APPLICATION_SERVER = 'fastcgi-tcp' (source:omero.web.app
lication_server)
DEBUG:omeroweb.settings:APPLICATION_SERVER_HOST = '0.0.0.0' (source:default)
DEBUG:omeroweb.settings:APPLICATION_SERVER_MAX_REQUESTS = 400 (source:default)
DEBUG:omeroweb.settings:APPLICATION_SERVER_PORT = '4080' (source:default)
DEBUG:omeroweb.settings:ADDITIONAL_APPS = [] (source:default)
DEBUG:omeroweb.settings:CACHES = {u'default': {u'BACKEND': u'django.core.cache.b
ackends.dummy.DummyCache'}} (source:default)
DEBUG:omeroweb.settings:DATABASES = {} (source:default)
DEBUG:omeroweb.settings:DEBUG = True (source:omero.web.debug)
DEBUG:omeroweb.settings:EMAIL_HOST = None (source:default)
DEBUG:omeroweb.settings:EMAIL_HOST_PASSWORD = u'********************' (source:de
fault)
DEBUG:omeroweb.settings:EMAIL_HOST_USER = None (source:default)
DEBUG:omeroweb.settings:EMAIL_PORT = None (source:default)
DEBUG:omeroweb.settings:EMAIL_SUBJECT_PREFIX = '[OMERO.web] ' (source:default)
DEBUG:omeroweb.settings:EMAIL_USE_TLS = False (source:default)
DEBUG:omeroweb.settings:FORCE_SCRIPT_NAME = None (source:default)
DEBUG:omeroweb.settings:INDEX_TEMPLATE = None (source:default)
DEBUG:omeroweb.settings:LOGDIR = 'C:/OMERO.server/var/log' (source:default)
DEBUG:omeroweb.settings:LOGIN_VIEW = 'weblogin' (source:default)
DEBUG:omeroweb.settings:NANOXML_JAR = 'nanoxml.jar' (source:default)
DEBUG:omeroweb.settings:OPEN_ASTEX_MAX_SIDE = 400 (source:default)
DEBUG:omeroweb.settings:OPEN_ASTEX_MAX_VOXELS = 27000000 (source:default)
DEBUG:omeroweb.settings:OPEN_ASTEX_MIN_SIDE = 20 (source:default)
DEBUG:omeroweb.settings:PING_INTERVAL = 60000 (source:default)
DEBUG:omeroweb.settings:PUBLIC_CACHE_ENABLED = False (source:default)
DEBUG:omeroweb.settings:PUBLIC_CACHE_KEY = u'********************' (source:defau
lt)
DEBUG:omeroweb.settings:PUBLIC_CACHE_TIMEOUT = 86400 (source:default)
DEBUG:omeroweb.settings:PUBLIC_ENABLED = False (source:default)
DEBUG:omeroweb.settings:PUBLIC_PASSWORD = u'********************' (source:defaul
t)
DEBUG:omeroweb.settings:PUBLIC_SERVER_ID = 1 (source:default)
DEBUG:omeroweb.settings:PUBLIC_URL_FILTER = <_sre.SRE_Pattern object at 0x000000
0004BE0DD8> (source:default)
DEBUG:omeroweb.settings:PUBLIC_USER = None (source:default)
DEBUG:omeroweb.settings:SCRIPTS_TO_IGNORE = [u'\\omero\\figure_scripts\\Movie_Fi
gure.py', u'\\omero\\figure_scripts\\Split_View_Figure.py', u'\\omero\\figure_sc
ripts\\Thumbnail_Figure.py', u'\\omero\\figure_scripts\\ROI_Split_Figure.py', u'
\\omero\\export_scripts\\Make_Movie.py', u'\\omero\\setup_scripts\\FLIM_initiali
se.py', u'\\omero\\import_scripts\\Populate_ROI.py'] (source:default)
DEBUG:omeroweb.settings:SEND_BROKEN_LINK_EMAILS = True (source:default)
DEBUG:omeroweb.settings:SERVER_EMAIL = None (source:default)
DEBUG:omeroweb.settings:SERVER_LIST = [[u'localhost', 4064, u'omero']] (source:d
efault)
DEBUG:omeroweb.settings:SESSION_ENGINE = 'django.contrib.sessions.backends.cache
' (source:omero.web.session_engine)
DEBUG:omeroweb.settings:STATIC_URL = '/static/' (source:default)
DEBUG:omeroweb.settings:STATICFILES_DIRS = [] (source:default)
DEBUG:omeroweb.settings:CENTER_PLUGINS = [] (source:default)
DEBUG:omeroweb.settings:UI_MENU_DROPDOWN = {u'ALL': u'All members', u'COLLEAGUES
': u'Members', u'LEADERS': u'Owners'} (source:default)
DEBUG:omeroweb.settings:RIGHT_PLUGINS = [[u'Acquisition', u'webclient/data/inclu
des/right_plugin.acquisition.js.html', u'metadata_tab'], [u'Preview', u'webclien
t/data/includes/right_plugin.preview.js.html', u'preview_tab']] (source:default)
DEBUG:omeroweb.settings:TOP_LINKS = [] (source:default)
DEBUG:omeroweb.settings:VIEWER_INITIAL_ZOOM_LEVEL = None (source:default)
DEBUG:omeroweb.settings:WEBGATEWAY_CACHE = None (source:default)
DEBUG:omeroweb.settings:WEBSTART_CLASS = 'org.openmicroscopy.shoola.Main' (sourc
e:default)
DEBUG:omeroweb.settings:WEBSTART_HEAP = '1024m' (source:default)
DEBUG:omeroweb.settings:WEBSTART_HOMEPAGE = 'http://www.openmicroscopy.org' (sou
rce:default)
DEBUG:omeroweb.settings:WEBSTART_HOST = 'localhost' (source:default)
DEBUG:omeroweb.settings:WEBSTART_ICON = 'webstart/img/icon-omero-insight.png' (s
ource:default)
DEBUG:omeroweb.settings:WEBSTART_JAR = 'omero.insight.jar' (source:default)
DEBUG:omeroweb.settings:WEBSTART_PORT = '4064' (source:default)
DEBUG:omeroweb.settings:WEBSTART_TITLE = 'OMERO.insight' (source:default)
DEBUG:omeroweb.settings:WEBSTART_VENDOR = 'The Open Microscopy Environment' (sou
rce:default)
DEBUG:omeroweb.settings:INSTALLED_APPS=[('django.contrib.staticfiles', 'django.c
ontrib.auth', 'django.contrib.contenttypes', 'django.contrib.sessions', 'django.
contrib.sites', 'omeroweb.feedback', 'omeroweb.webadmin', 'omeroweb.webclient',
'omeroweb.webgateway', 'omeroweb.webtest', 'omeroweb.webredirect', 'omeroweb.web
start')]
0 static files copied, 818 unmodified.
Starting OMERO.web...
WARNING: Unless you **really** know what you are doing you should NOT be
using bin\omero web start on Windows with FastCGI.
[OK]
ERROR:omero.util.TempFileManager:rmtree error: remove('C:\Users\douglass\AppData
\Roaming\omero\tmp\omero_douglass\1180\.lock') => [Error 32] The process cannot
access the file because it is being used by another process: u'C:\\Users\\dougla
ss\\AppData\\Roaming\\omero\\tmp\\omero_douglass\\1180\\.lock'
ERROR:omero.util.TempFileManager:rmtree error: rmdir('C:\Users\douglass\AppData\
Roaming\omero\tmp\omero_douglass\1180') => [Error 145] The directory is not empt
y: u'C:\\Users\\douglass\\AppData\\Roaming\\omero\\tmp\\omero_douglass\\1180'
I checked and noted that both my user account and the administrator have full access rights to C:\Users\douglass\AppData\Roaming\omero\tmp\omero_douglass\1180\
My system details, software versions, and OMERO admin diagnostics output is below.
Could anyone explain how to fix this problem? Thanks!
Kyle
----------
Software versions
(All are 64 bit except when the 64 bit binaries are not available.)
- Java SE Development Kit 7u51
Python 2.6.6
Ice 3.4.2
PostgreSQL 9.3.3
IIS 7.5.7600.16385
----------
System details
- Dell Precision 7500
Windows Server 2008 R2 Enterprise w/Service Pack 1, 64 bit
Intel Xeon X5690 3.47 GHz
48.0 GB RAM
----------
OMERO Diagnostics
- Code: Select all
C:\OMERO.server>bin\omero admin diagnostics
================================================================================
OMERO Diagnostics 5.0.0-ice34-b19
================================================================================
Commands: java -version 1.7.0 (C:\Windows\SysWOW64\java.E
XE)
Commands: python -V 2.6.6 (C:\Python26\python.EXE)
Commands: icegridnode --version 3.4.2 (C:\ZeroC\Ice-3.4.2\bin\x64
\icegridnode.EXE)
Commands: icegridadmin --version 3.4.2 (C:\ZeroC\Ice-3.4.2\bin\x64
\icegridadmin.EXE)
Commands: psql --version 9.3.3 (C:\Program Files\PostgreSQ
L\9.3\bin\psql.EXE)
Server: icegridnode running
Server: Blitz-0 active (pid = 6316, enabled)
Server: DropBox inactive (disabled)
Server: FileServer active (pid = 4940, enabled)
Server: Indexer-0 active (pid = 4944, enabled)
Server: MonitorServer inactive (disabled)
Server: OMERO.Glacier2 active (pid = 4704, enabled)
Server: OMERO.IceStorm active (pid = 1632, enabled)
Server: PixelData-0 active (pid = 720, enabled)
Server: Processor-0 active (pid = 6760, enabled)
Server: Tables-0 active (pid = 6312, enabled)
Server: TestDropBox inactive (enabled)
Server: OMERO.master active (running as LocalSystem)
OMERO: SSL port 4064
OMERO: TCP port 4063
Log dir: C:\OMERO.server\var\log exists
Log files: Blitz-0.log 7.0 MB errors=55 warnings=35
Log files: DropBox.log 12.0 KB errors=48 warnings=0
Log files: FileServer.log 5.0 KB
Log files: Indexer-0.log 5.0 MB errors=70 warnings=29
Log files: MonitorServer.log 14.0 KB errors=32 warnings=0
Log files: OMEROweb.log 343.0 KB errors=39 warnings=1
Log files: OMEROweb_request.log 2.0 KB errors=6 warnings=0
Log files: PixelData-0.log 164.0 KB errors=70 warnings=28
Log files: Processor-0.log 94.0 KB errors=40 warnings=29
Log files: Tables-0.log 99.0 KB errors=40 warnings=29
Log files: TestDropBox.log n/a
Log files: master.err 0.0 KB
Log files: master.out 0.0 KB
Log files: Total size 13.23 MB
Environment:OMERO_HOME=(unset)
Environment:OMERO_NODE=(unset)
Environment:OMERO_MASTER=(unset)
Environment:OMERO_TEMPDIR=(unset)
Environment:PATH=C:\Python26;C:\Program Files (x86)\GnuWin32\bin;C:\Program File
s\PostgreSQL\9.3\bin;C:\Windows\SysWOW64;C:\Program Files (x86)\Common Files\Int
el\Shared Libraries\redist\ia32\mpirt;C:\Program Files (x86)\Common Files\Intel\
Shared Libraries\redist\ia32\compiler;C:\Windows\system32;C:\Windows;C:\Windows\
System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;C:\Program Files\Micro
soft\Web Platform Installer\;C:\Program Files (x86)\Microsoft ASP.NET\ASP.NET We
b Pages\v1.0\;C:\Program Files\Microsoft SQL Server\110\Tools\Binn\;C:\Program F
iles\Microsoft Windows Performance Toolkit\;C:\Program Files (x86)\QuickTime\QTS
ystem\;C:\Program Files (x86)\MiKTeX 2.9\miktex\bin\;C:\Program Files\MATLAB\R20
13b\runtime\win64;C:\Program Files\MATLAB\R2013b\bin;C:\ZeroC\Ice-3.4.2\bin\x64;
C:\Ruby193\bin
Environment:ICE_HOME=(unset)
Environment:LD_LIBRARY_PATH=(unset)
Environment:DYLD_LIBRARY_PATH=(unset)
OMERO data dir: 'C:\\OMERO' Exists? True Is writable? True
OMERO temp dir: 'C:\Users\douglass\AppData\Roaming\omero\tmp' Exists? True
Is writable? True (Size: 0)
OMERO.web status... [NOT STARTED]
----------
My thoughts:
Could the problem come from unset environment variables, like OMERO_TEMPDIR?
In the documentation for the IIS setup (found here: https://www.openmicroscopy.org/site/support/omero5/sysadmins/windows/install-web.html#using-iis), there's a curious command involving the Django web server. I would have thought that we should be setting configuration properties related to IIS. I copied the command set straight from the docs and pasted it below:
- Code: Select all
C:\omero_dist>bin\omero config set omero.web.session_engine "django.contrib.sessions.backends.cache"
C:\omero_dist>bin\omero config set omero.web.cache_backend "file://C:/windows/temp/"
C:\omero_dist>bin\omero web iis
Finally, this may perhaps relate to a current thread on the listserv, where someone else is trying to get OMERO.web running on a very similar system: http://lists.openmicroscopy.org.uk/pipermail/ome-users/2014-April/004324.html