n/omero: Upgraded to omero-5.0.0.

n/omero/OMERO.server-4.4.9-ice34-b98.zip.sha1

@@ -1 +0,0 @@
-eeb50c2e47232d5227b6e9a6061d11b8fe9c5664  OMERO.server-4.4.9-ice34-b98.zip

n/omero/OMERO.server-5.0.0-ice34-b19.zip.sha1

@@ -0,0 +1 @@
+10ec049c08828e9ebe23682b01a85bcd0f3e845c  OMERO.server-5.0.0-ice34-b19.zip

n/omero/README

@@ -1,4 +1,4 @@
-                 PACKAGER'S README FOR OMERO-4.4.9
+                 PACKAGER'S README FOR OMERO-5.0.0
 
             Damien Goutte-Gattat <dgouttegattat@incenp.org>
 
@@ -8,7 +8,7 @@
    This file does not come from the OMERO project and the OMERO
    developers don't endorse anything of it. Official documentation and
    instructions for installing and running OMERO server should be looked
-   for at <http://www.openmicroscopy.org/site/support/omero4/sysadmins/>.
+   for at <http://www.openmicroscopy.org/site/support/omeror5/sysadmins/>.
 
 
 2. SYSTEM USERS AND GROUPS
@@ -63,14 +63,29 @@
    The data repository is defined by the key `omero.data.dir' in the
    main configuration file `/etc/omero/omero.properties'.
 
+   Note that OMERO 5.0.0 needs another directory, defined by the key
+   `omero.managed.dir'. In the default configuration file, this key
+   uses the value of the `omero.data.dir' key as follows:
+
+     omero.data.dir=/OMERO/
+     omero.managed.dir=${omero.data.dir}/ManagedRepository
+
+   but OMERO then complains that `omero.data.dir' is undefined, so you
+   should really specify a full path for `omero.managed.dir`, even if
+   the directory is located below `omero.data.dir`:
+
+     omero.data.dir=/OMERO/
+     omero.managed.dir=/OMERO/ManagedRepository
+
 
 4. OMERO CONFIGURATION AND CONTROL
 
    There are many parameters controlling OMERO's behavior, but most of
    them may be left unmodified for the first run. The only parameters
    that must be explicitly set before running OMERO are those defining
-   the data repository (`omero.data.dir') and the database backend
-   (`omero.db.*'), in `/etc/omero/omero.properties'.
+   the data repository (`omero.data.dir' and `omero.managed.dir') and
+   the database backend (`omero.db.*'), in
+   `/etc/omero/omero.properties'.
 
    Starting and stoping OMERO is done with the `/etc/rc.d/rc.omero'
    control script. Before starting OMERO the first time, run
@@ -183,9 +198,9 @@
 
    For general informations about upgrading OMERO, see:
        
-    http://www.openmicroscopy.org/site/support/omero4/server/upgrade
+    http://www.openmicroscopy.org/site/support/omero5/sysadmins/server-upgrade.html
 
-   To upgrade OMERO 4.3.x to OMERO-4.4.x:
+   To upgrade OMERO 4.4.x to OMERO-5.0.0:
 
     - stop OMERO if it is running;
 
@@ -196,7 +211,7 @@
     - upgrade the database:
 
         $ cd /opt/omero
-        $ psql -h localhost -U omero omero < sql/psql/OMERO4.4__0/OMERO4.3__0.sql
+        $ psql -h localhost -U omero omero < sql/psql/OMERO5.0__0/OMERO4.4__0.sql
 
     - check config files in /etc/omero; remove old config file
       /etc/omero/grid/default.xml and apply new settings:

n/omero/doinst.sh

@@ -10,7 +10,7 @@ config()
     fi
 }
 
-for f in backup.cfg hibernate.properties ice.config internal.cfg ivysettings.xml log4j-indexing.xml log4j.xml master.cfg node1.cfg node2.cfg omero.properties rollover.cfg testdropbox.config grid/default.xml grid/templates.xml ; do
+for f in backup.cfg hibernate.properties ice.config internal.cfg ivysettings.xml logback-cli.xml logback-indexing-cli.xml logback-indexing.xml logback.xml master.cfg node1.cfg node2.cfg omero.properties rollover.cfg testdropbox.config grid/default.xml grid/templates.xml ; do
     config /etc/omero/$f.new
 done
 

n/omero/omero.SlackBuild

@@ -1,6 +1,6 @@
 #!/bin/bash
 # Build script for Slackware
-# Copyright (C) 2009,2010,2011,2012,2013 Damien Goutte-Gattat
+# Copyright (C) 2009,2010,2011,2012,2013,2014 Damien Goutte-Gattat
 #
 # Redistribution and use of this script, with or without modifications,
 # is permitted provided that the following conditions are met:
@@ -25,12 +25,12 @@
 # Latest omero sourcecode is available at: <http://www.openmicroscopy.org/>.
 #
 # Depends: d/ice, ap/postgresql
-# Optional: l/numpy, l/pytables
+# Optional: l/pytables, l/scipy, l/matplotlib
 
 # Source package infos
 NAMESRC=${NAMESRC:-OMERO.server}
-VERSION=${VERSION:-4.4.9}
-ARCHIVE=${ARCHIVE:-$NAMESRC-$VERSION-ice34-b98.zip}
+VERSION=${VERSION:-5.0.0}
+ARCHIVE=${ARCHIVE:-$NAMESRC-$VERSION-ice34-b19.zip}
 WGET=${WGET:-http://downloads.openmicroscopy.org/omero/$VERSION/artifacts/$ARCHIVE}
 
 # Build infos
@@ -69,7 +69,7 @@ sha1sum -c $ARCHIVE.sha1
 mkdir -p $PKG/opt
 cd $PKG/opt
 unzip $CWD/$ARCHIVE
-mv OMERO.server-$VERSION-ice34-b98 omero
+mv OMERO.server-$VERSION-ice34-b19 omero
 rm omero/bin/*.bat
 
 # Install config files in /etc/omero
@@ -79,7 +79,7 @@ ln -s /etc/omero $PKG/opt/omero/etc
 (
   cd $PKG/etc/omero
   rm -rf Windows.cfg env.bat env.sh local.properties.example grid/windefault.xml nginx.conf.*
-  for f in backup.cfg hibernate.properties ice.config internal.cfg ivysettings.xml log4j-indexing.xml log4j.xml master.cfg node?.cfg omero.properties rollover.cfg testdropbox.config grid/*.xml ; do
+  for f in backup.cfg hibernate.properties ice.config internal.cfg ivysettings.xml logback* master.cfg node?.cfg omero.properties rollover.cfg testdropbox.config grid/*.xml ; do
       mv $f $f.new
   done
 )

n/omero/rc.omero

@@ -45,8 +45,8 @@ init)
         (
           cd /opt/omero
           sudo -H -u omero -i omero db script
-          psql -h $DB_HOST -p $DB_PORT -U $DB_USER $DB_NAME < OMERO4.4__0.sql
-          rm -rf OMERO4.4__0.sql
+          psql -h $DB_HOST -p $DB_PORT -U $DB_USER $DB_NAME < OMERO5.0__0.sql
+          rm -rf OMERO5.0__0.sql
         )
     fi
     ;;