[ome-users] [ome-devel] install from cvs (8-18-06)
Josiah Johnston
siah at nih.gov
Mon Aug 21 21:11:17 BST 2006
I fixed the template directory problem. I think for good this time.
Update HEAD or the 2.6.0 branch from cvs, and you'll get the fix.
Details posted here:
http://bugs.openmicroscopy.org.uk/show_bug.cgi?id=606
Thanks for reporting the bug.
-Josiah
On Aug 21, 2006, at 2:30 PM, Bernd Jagla wrote:
> Josiah,
>
>
>
> My new version is under 06_08_18
>
>
>
>
>
> [bernd at BERND-HOME OME]$ pwd
>
> /home/bernd/allOMEs/06_08_18/OME
>
> [bernd at BERND-HOME OME]$ cvs status src/perl2/OME/Install/
> CoreDatabaseTablesTask.pm
>
> ===================================================================
>
> File: CoreDatabaseTablesTask.pm Status: Up-to-date
>
>
>
> Working revision: 1.134
>
> Repository revision: 1.134 /ome/OME/src/perl2/OME/Install/
> CoreDatabaseTablesTask.pm,v
>
> Sticky Tag: (none)
>
> Sticky Date: (none)
>
> Sticky Options: (none)
>
>
>
>
>
>
>
> I assume you meant the following files:
>
> [bernd at BERND-HOME OME]$ ls -ld /home/bernd/allOMEs/newOME/OME/src/
> html/Templates/System/Display/Many/generic_ref_list.tmpl /home/
> bernd/allOMEs/newOME/OME/src/html/Templates /home/bernd/allOMEs/
> newOME /home/bernd/allOMEs
>
> drwxrwxr-x 8 bernd bernd 4096 Aug 18 10:44 /home/bernd/allOMEs
>
> drwxrwxr-x 3 bernd bernd 4096 Jul 11 10:48 /home/bernd/allOMEs/
> newOME
>
> drwxrwxr-x 10 bernd bernd 4096 Jul 11 10:48 /home/bernd/allOMEs/
> newOME/OME/src/html/Templates
>
> -rw-rw-r-- 1 bernd bernd 500 Jan 18 2006 /home/bernd/allOMEs/
> newOME/OME/src/html/Templates/System/Display/Many/
> generic_ref_list.tmpl
>
>
>
>
>
> And this is the result from the new directory structure:
>
> [bernd at BERND-HOME OME]$ ls -ld /home/bernd/allOMEs/06_08_18/OME/src/
> html/Templates/System/Display/Many/generic_ref_list.tmpl /home/
> bernd/allOMEs/06_08_18/OME/src/html/Templates /home/bernd/allOMEs/
> 06_08_18/ /home/bernd/allOMEs
>
> drwxrwxr-x 8 bernd bernd 4096 Aug 18 10:44 /home/bernd/allOMEs
>
> drwxrwxr-x 3 bernd bernd 4096 Aug 18 10:46 /home/bernd/allOMEs/
> 06_08_18/
>
> drwxrwxr-x 10 bernd bernd 4096 Aug 18 10:46 /home/bernd/allOMEs/
> 06_08_18/OME/src/html/Templates
>
> -rw-rw-r-- 1 bernd bernd 500 Jan 18 2006 /home/bernd/allOMEs/
> 06_08_18/OME/src/html/Templates/System/Display/Many/
> generic_ref_list.tmpl
>
>
>
>
>
> Hope this helps.
>
>
>
> If I remember correctly at some point Ilya was referring to some
> files that are/were written under /etc/… that store some
> information of the successful installations…
>
>
>
> Thanks,
>
>
>
> Bernd
>
>
>
>
>
> |-----Original Message-----
>
> |From: Josiah Johnston [mailto:siah at nih.gov]
>
> |Sent: Monday, August 21, 2006 2:15 PM
>
> |To: Bernd Jagla
>
> |Cc: 'OME users'
>
> |Subject: Re: [ome-users] install from cvs (8-18-06)
>
> |
>
> |Is your installation root /home/bernd/allOMEs/newOME/OME/ or /home/
>
> |bernd/allOMEs/06_08_18/OME ?
>
> |
>
> | From your installation root, can you type:
>
> | cvs status src/perl2/OME/Install/CoreDatabaseTablesTask.pm
>
> |
>
> |Also, can you type
>
> | ls -ld /home/bernd/allOMEs/newOME/OME/src/html/Templates/System/
>
> |Display/Many//generic_ref_minimalList.tmpl /home/bernd/allOMEs/
> newOME/
>
> |OME/src/html/Templates /home/bernd/allOMEs/newOME /home/bernd/allOMEs
>
> |
>
> |Thanks,
>
> |Josiah
>
> |
>
> |On Aug 21, 2006, at 11:03 AM, Bernd Jagla wrote:
>
> |
>
> |>
>
> |> I guess I should have tried it out first and not think first....
>
> |>
>
> |> When trying to log in I get now the following error message:
>
> |>
>
> |> Error serving OME::Web::Home: HTML::Template->new() : Cannot open
>
> |> included
>
> |> file
>
> |> /home/bernd/allOMEs/newOME/OME/src/html/Templates/System/Display/
>
> |> Many//gener
>
> |> ic_ref_minimalList.tmpl : file not found. at
>
> |> /usr/lib/perl5/site_perl/5.8.6/HTML/Template.pm line 1632
>
> |> HTML::Template::_init_template('HTML::Template=HASH(0xa81d81c)')
>
> |> called at /usr/lib/perl5/site_perl/5.8.6/HTML/Template.pm line 1205
>
> |> HTML::Template::_init('HTML::Template=HASH(0xa81d81c)')
> called at
>
> |> /usr/lib/perl5/site_perl/5.8.6/HTML/Template.pm line 1099
>
> |> HTML::Template::new('HTML::Template', 'filename',
>
> |> '/home/bernd/allOMEs/newOME/OME/src/html/Templates/System/Disp...',
>
> |> 'path',
>
> |> '/home/bernd/allOMEs/newOME/OME/src/html/Templates/System/Disp...',
>
> |> 'case_sensitive', 1) called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web/
>
> |> TemplateManager.pm line
>
> |> 367
>
> |>
>
> |> OME::Web::TemplateManager::getRenderingTemplate
>
> |> ('OME::Web::TemplateManager',
>
> |> 'undef', 'ref_minimalList', 'many') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web/DBObjRender.pm
>
> |> line 365
>
> |>
>
> |> OME::Web::DBObjRender::renderArray('OME::Web::DBObjRender=HASH
>
> |> (0xa83e178)',
>
> |> 'ARRAY(0xa841258)', 'ref_minimalList', 'HASH(0xa81f21c)') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web/Home.pm line 130
>
> |>
>
> |> OME::Web::Home::__getQuickViewProjectData('OME::Web::Home=HASH
>
> |> (0xa80b95c)',
>
> |> 'undef') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web/Home.pm line 235
>
> |> OME::Web::Home::getPageBody('OME::Web::Home=HASH(0xa80b95c)',
>
> |> 'HTML::Template=HASH(0xa4e15b4)') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web.pm line 557
>
> |> OME::Web::createOMEPage('OME::Web::Home=HASH(0xa80b95c)',
>
> |> 'HTML::Template=HASH(0xa4e15b4)') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Web.pm line 404
>
> |> OME::Web::serve('OME::Web::Home=HASH(0xa80b95c)') called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/serve.pl line 88
>
> |> eval {...} called at
>
> |> /home/bernd/allOMEs/06_08_18/OME/src/perl2/serve.pl line 76
>
> |>
>
> |>
> ModPerl::ROOT::ModPerl::Registry::home_bernd_allOMEs_06_08_18_OME_src_
>
> |> perl2_
>
> |> serve_2epl::handler('Apache2::RequestRec=SCALAR(0xa788064)')
> called at
>
> |> /usr/lib/perl5/vendor_perl/5.8.6/i386-linux-thread-multi/ModPerl/
>
> |> RegistryCoo
>
> |> ker.pm line 203
>
> |> eval {...} called at
>
> |> /usr/lib/perl5/vendor_perl/5.8.6/i386-linux-thread-multi/ModPerl/
>
> |> RegistryCoo
>
> |> ker.pm line 203
>
> |> ModPerl::RegistryCooker::run('ModPerl::Registry=HASH
> (0xa7aa950)')
>
> |> called at
>
> |> /usr/lib/perl5/vendor_perl/5.8.6/i386-linux-thread-multi/ModPerl/
>
> |> RegistryCoo
>
> |> ker.pm line 169
>
> |>
>
> |> ModPerl::RegistryCooker::default_handler('ModPerl::Registry=HASH
>
> |> (0xa7aa950)'
>
> |> ) called at
>
> |> /usr/lib/perl5/vendor_perl/5.8.6/i386-linux-thread-multi/ModPerl/
>
> |> Registry.pm
>
> |> line 30
>
> |> ModPerl::Registry::handler('ModPerl::Registry',
>
> |> 'Apache2::RequestRec=SCALAR(0xa788064)') called at -e line 0
>
> |> eval {...} called at -e line 0
>
> |>
>
> |>
>
> |> I guess this is related to the Apache problem I was reporting on
>
> |> earlier.
>
> |> I also attached the Apachelog, but couldn't find anything in
> there...
>
> |>
>
> |> Bernd
>
> |>
>
> |>
>
> |> |-----Original Message-----
>
> |> |From: ome-users-bounces at lists.openmicroscopy.org.uk [mailto:ome-
>
> |> users-
>
> |> |bounces at lists.openmicroscopy.org.uk] On Behalf Of Bernd Jagla
>
> |> |Sent: Monday, August 21, 2006 11:00 AM
>
> |> |To: 'OME users'
>
> |> |Subject: Re: [ome-users] install from cvs (8-18-06)
>
> |> |
>
> |> |I did a cvs update, and I got it installed.
>
> |> |
>
> |> |During installation I got an error message about a concatenation
>
> |> that did
>
> |> |not create a problem, but I wanted to make you aware of it. See
>
> |> attached
>
> |> |log
>
> |> |file for more information...
>
> |> |
>
> |> |Also, I was surprised to see that the Apache config knew my old
>
> |> Template
>
> |> |directory and was skipping some templates there. Is this the
> correct
>
> |> |behavior? Unfortunately I cannot find the message because it was
>
> |> already
>
> |> |overwritten on my terminal and there is no sign of it in the
>
> |> Apache Log...
>
> |> |
>
> |> |Thanks for the help,
>
> |> |
>
> |> |Best,
>
> |> |
>
> |> |Bernd
>
> |> |
>
> |> ||-----Original Message-----
>
> |> ||From: ome-users-bounces at lists.openmicroscopy.org.uk [mailto:ome-
>
> |> users-
>
> |> ||bounces at lists.openmicroscopy.org.uk] On Behalf Of Bernd Jagla
>
> |> ||Sent: Friday, August 18, 2006 11:20 AM
>
> |> ||To: 'OME users'
>
> |> ||Subject: [ome-users] install from cvs (8-18-06)
>
> |> ||
>
> |> ||I was just trying to do a completely new CVS install (since I
>
> |> found some
>
> |> ||time to play with the new version.)
>
> |> ||
>
> |> ||And pretty close to end I got the following error:
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Initial user creation
>
> |> ||
>
> |> ||-----------------------
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||This user will be yourself or the person who will administer
> the OME
>
> |> ||
>
> |> ||environment after installation. It is internal to OME. You will
>
> |> use this
>
> |> ||
>
> |> ||username and password to use OME and add new OME users and
>
> |> groups. The
>
> |> ||
>
> |> ||default data directory option is the path on this machine which
>
> |> contains
>
> |> ||
>
> |> ||(or will contain) the proprietary image files (greyscale
> TIFF's for
>
> |> ||
>
> |> ||example) you wish to import into OME. An example default data
>
> |> directory
>
> |> ||
>
> |> ||would be "/home/joe/my_ome_images".
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> || First name: Bernd
>
> |> ||
>
> |> || Last name: Jagla
>
> |> ||
>
> |> || Username: bernd
>
> |> ||
>
> |> || E-mail address: baj2107 at columbia.edu
>
> |> ||
>
> |> ||Default data directory: /home/bernd
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Are these values correct ? [y/n]:
>
> |> ||
>
> |> ||Odd number of elements in anonymous hash at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/
>
> |> CoreDatabaseTablesT
>
> |> |a
>
> |> ||sk.pm line 553.
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Errors executing task: Column 066e4a292457a2ad4e6bdeefcb6e9e58
>
> |> does not
>
> |> ||exist at /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/
>
> |> DBObject.pm line
>
> |> ||3150
>
> |> ||
>
> |> || OME::DBObject::__makeInsertSQLs('OME::UserState',
>
> |> ||'DBI::db=HASH(0xa3c6224)', 'HASH(0xa3d00b4)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/DBObject.pm
> line 3337
>
> |> ||
>
> |> || OME::DBObject::__createNewInstance('OME::UserState',
>
> |> ||'DBI::db=HASH(0xa3c6224)', 'HASH(0xa3d00b4)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Factory.pm line
> 856
>
> |> ||
>
> |> || eval {...} called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Factory.pm line
> 855
>
> |> ||
>
> |> || OME::Factory::newObject('OME::Factory=HASH(0xa301f68)',
>
> |> ||'OME::UserState', 'HASH(0xa3d00b4)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/
>
> |> CoreDatabaseTablesT
>
> |> |a
>
> |> ||sk.pm line 553
>
> |> ||
>
> |> ||
>
> |> ||OME::Install::CoreDatabaseTablesTask::create_experimenter
>
> |> ('OME::SessionMan
>
> |> |a
>
> |> ||ger=HASH(0xa302e90)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/
>
> |> CoreDatabaseTablesT
>
> |> |a
>
> |> ||sk.pm line 1457
>
> |> ||
>
> |> || OME::Install::CoreDatabaseTablesTask::execute() called at
>
> |> (eval
>
> |> |220)
>
> |> ||line 1
>
> |> ||
>
> |> || eval 'OME::Install::CoreDatabaseTablesTask::execute()
>
> |> ||
>
> |> ||;' called at install.pl line 80
>
> |> ||
>
> |> || main::run_tasks() called at install.pl line 265
>
> |> ||
>
> |> || at /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Factory.pm
>
> |> line 858
>
> |> ||
>
> |> || OME::Factory::newObject('OME::Factory=HASH(0xa301f68)',
>
> |> ||'OME::UserState', 'HASH(0xa3d00b4)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/
>
> |> CoreDatabaseTablesT
>
> |> |a
>
> |> ||sk.pm line 553
>
> |> ||
>
> |> ||
>
> |> ||OME::Install::CoreDatabaseTablesTask::create_experimenter
>
> |> ('OME::SessionMan
>
> |> |a
>
> |> ||ger=HASH(0xa302e90)') called at
>
> |> ||/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/
>
> |> CoreDatabaseTablesT
>
> |> |a
>
> |> ||sk.pm line 1457
>
> |> ||
>
> |> || OME::Install::CoreDatabaseTablesTask::execute() called at
>
> |> (eval
>
> |> |220)
>
> |> ||line 1
>
> |> ||
>
> |> || eval 'OME::Install::CoreDatabaseTablesTask::execute()
>
> |> ||
>
> |> ||;' called at install.pl line 80
>
> |> ||
>
> |> || main::run_tasks() called at install.pl line 265
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> || at install.pl line 81
>
> |> ||
>
> |> || main::run_tasks() called at install.pl line 265
>
> |> ||
>
> |> ||# Looks like your test died before it could output anything.
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Does this mean anything to anyone?
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Thanks,
>
> |> ||
>
> |> ||
>
> |> ||
>
> |> ||Bernd
>
> |>
>
> |> <ApacheConfigTask.log>
>
> |> _______________________________________________
>
> |> ome-users mailing list
>
> |> ome-users at lists.openmicroscopy.org.uk
>
> |> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>
>
_______________________________________________
ome-devel mailing list
ome-devel at lists.openmicroscopy.org.uk
http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20060821/9fc141d3/attachment.html>
More information about the ome-users
mailing list