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omero.server.nodedescriptors allows components to be enabled/disabled #272
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…91a971e3c4bfc90ba59485607e28863/omero-grid/process_defaultxml.py This has been named _process_defaultxml.py as it is currently for internal use only, and may be moved into a decoupled repository if admin.py is moved.
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Few misc. thoughts while reading the code.
Examples | ||
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Everything on a single node (default, the same as passing no config): | ||
master:Blitz-0,Indexer-0,DropBox,MonitorServer,FileServer,Storm,PixelData-0,Processor-0,Tables-0,TestDropBox |
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Thinking about the current indexer use case, it's interesting to think about how you might just turn off a single server.
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This is quite advanced functionality, so I think we should try and keep it simple for now and require the full list of servers to be specified. In future we could add +
-
prefixes such as +Processor-1
and -Indexer-0
to indicate the defaults should be modified.
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||
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def _process_xml(xml, nodedescs): | ||
pattern = r'\<node name="master"\>\s*\<server-instance[^\>]*\>(.*?\</node\>)' |
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Would it simplify things to just delete default.xml?
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It would, seeing as the only changes to https://github.com/ome/openmicroscopy/commits/develop/etc/templates/grid/default.xml have been to enable configuration from the admin plugin
Comments all acknowledged. Let's save any reworkings for future follow-ups (e.g. extracting admin.py out and moving the template there) You ready to drop "Draft" from this PR? @sbesson, I assume you're interested in seeing this in IDR ASAP? |
@manics for functional testing of this PR, is it possible to create an IDR deployment that disables |
I haven't actually tested this yet, which is why it's still marked as draft. For the IDR I'd think something like
might be enough? |
are certainly the two main services used by IDR that I know of. I don't know whether anything else in the template will be required otherwise starting with this minimal list and adding services as necessary should be fine. |
I've tested this using https://github.com/ome/docker-example-omero with these changes: $ git diff
diff --git a/docker-compose.yml b/docker-compose.yml
index 60fd75c..23fec7a 100644
--- a/docker-compose.yml
+++ b/docker-compose.yml
@@ -14,12 +14,13 @@ services:
- "database:/var/lib/postgresql/data"
omeroserver:
- image: "openmicroscopy/omero-server:5.6"
+ build: ./server
environment:
CONFIG_omero_db_host: database
CONFIG_omero_db_user: omero
CONFIG_omero_db_pass: omero
CONFIG_omero_db_name: omero
+ CONFIG_omero_server_nodedescriptors: "master:Blitz-0,Tables-0"
ROOTPASS: omero
networks:
- omero
diff --git a/server/Dockerfile b/server/Dockerfile
new file mode 100644
index 0000000..31974ac
--- /dev/null
+++ b/server/Dockerfile
@@ -0,0 +1,5 @@
+FROM openmicroscopy/omero-server:5.6.3
+
+USER root
+RUN /opt/omero/server/venv3/bin/pip install --upgrade --upgrade-strategy only-if-needed https://github.com/manics/omero-py/archive/process_defaultxml.zip
+USER omero-server
|
See ome/docker-example-omero-grid#11 for another example |
Briefly discussed today with @manics who suggested an |
Discussed this morning. Merging and tagging as prerelease for consumption in IDR deployment. |
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#555 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/555/)
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Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#585 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/585/)
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Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#586 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/586/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#704 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/704/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#587 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/587/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#705 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/705/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#588 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/588/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#706 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/706/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#707 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/707/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#589 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/589/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#708 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/708/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6262 manics 'Documentation for ome/omero-py#272' (user: manics) - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' (user: kkoz) - PR 6256 jburel 'point to guides' (user: jburel) - PR 6247 will-moore 'Add chown web test' (user: will-moore) - PR 6212 jburel 'add test to import images' (user: jburel) - PR 6176 sbesson 'Restore CLI DB integration tests' (user: sbesson) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (user: dominikl) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (user: manics) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (user: joshmoore) Already up-to-date. Generated by OMERO-push#590 (https://latest-ci.openmicroscopy.org/jenkins/job/OMERO-push/590/)
Repository: openmicroscopy/openmicroscopy Excluded PRs: - PR 6247 will-moore 'Add chown web test' (exclude comment) - PR 6212 jburel 'add test to import images' (state: failure) - PR 6101 dominikl 'Set namespace of fileannoation of omero.table - test' (state: failure) - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) - PR 5966 joshmoore 'Allow testing multiple builds in travis' (state: failure) Already up-to-date. Merged PRs: - PR 6176 sbesson 'Restore CLI DB integration tests' - PR 6256 jburel 'point to guides' - PR 6260 kkoz 'Add slice examples for reading data from Omero Tables' - PR 6262 manics 'Documentation for ome/omero-py#272' Generated by OMERO-push#709 (https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-push/709/)
Documentation for ome/omero-py#272
This is a modified copy of https://github.com/ome/omero-grid-docker/blob/fba17b12891a971e3c4bfc90ba59485607e28863/omero-grid/process_defaultxml.py that can be used to define Ice master and worker nodes with custom combinations of enabled services
Adds a new property
omero.server.nodedescriptors
. E.g. setting it tomaster:Blitz-0,Tables-0
will disableIndexer-0
,DropBox
,MonitorServer
,Processor-0
To run the new test:
OMERODIR=/path/to/OMERO.server pytest test/unit/clitest/test_admin.py -k testNodeDescriptors
Note several of the other
test_admin.py
tests have been broken for a while #61