Deprecate duplicate plugin

[sbesson]

As work has restarted on the decoupled https://github.com/ome/omero-cli-duplicate/ plugin, this formally deprecates the legacy code in omero-py using the similar strategy as #124. The plugin can then safely be dropped in omero-py 6.

This PR should be tested in two environment

• omero-py alone

python3 -m venv venv
venv/bin/pip install git+git://github.com/snoopycrimecop/omero-py@merge_ci#egg=omero-py
venv/bin/omero duplicate -h # should fail
OMERO_DEV_PLUGINS=true venv/bin/omero duplicate -h # should display the help
OMERO_DEV_PLUGINS=true venv/bin/omero duplicate Dataset:50 # should display a deprecation warning

• omero-py with omero-cli-duplicate plugin installed

python3 -m venv venv
venv/bin/pip install git+git://github.com/snoopycrimecop/omero-py@merge_ci#egg=omero-py
venv/bin/pip install git+git://github.com/snoopycrimecop/omero-cli-duplicate@merge_ci#egg=omero-cli-duplicate
venv/bin/omero duplicate -h # should display the help message
venv/bin/omero duplicate Dataset:50 # should duplicate without warnings

[sbesson]

In addition to the manual testing above, I suspect this deprecation should allow https://merge-ci.openmicroscopy.org/jenkins/job/OMERO-test-integration/ to properly install and test the recent omero-cli-duplicate improvements

[will-moore]

Testing omero-py alone I don't see a deprecation warning with:

$ OMERO_DEV_PLUGINS=true venv/bin/omero duplicate Dataset:232
Using session for will@localhost:4064. Idle timeout: 10 min. Current group: Lab Data
omero.cmd.Duplicate Dataset:232 ok

[sbesson]

Ah. My changes might only apply in the case of a detailed report. Does $ OMERO_DEV_PLUGINS=true venv/bin/omero duplicate Dataset:232 --report display the warning?

[will-moore]

Yes:

$ OMERO_DEV_PLUGINS=true venv/bin/omero duplicate Dataset:232 --report
Using session for will@localhost:4064. Idle timeout: 10 min. Current group: Lab Data
omero.cmd.Duplicate Dataset:232 ok
Steps: 8
Elapsed time: 0.038 secs.
Flags: []
This plugin is deprecated as of OMERO 5.8.0. Use the plugin available from https://pypi.org/project/omero-cli-duplicate/ instead.
Duplicates
  Dataset:1155

[will-moore]

With the plugin installed, duplicate works without warning message. 👍

[sbesson]

Cheers. Let me push another commit so that the warning message is displays on every invocation of the command

[will-moore]

Works for me now, testing locally...

$ OMERO_DEV_PLUGINS=true venv/bin/omero duplicate Dataset:232
This plugin is deprecated as of OMERO.py 5.8.0. Use the plugin available from https://pypi.org/project/omero-cli-duplicate/ instead.
Previous session expired for will on localhost:4064
Server: [localhost:4064] 
Username: [will]
Password:
Created session for will@localhost:4064. Idle timeout: 10 min. Current group: Lab Data
omero.cmd.Duplicate Dataset:232 ok

[mtbc]

OMERO-test-integration is failing, maybe we need to decide about the pip install omero-cli-duplicate for devspaces.

[sbesson]

Probably largely depends on where we decide to run the integration test for the new omero-cli-duplicate functionalities:

• if the tests are in ome/openmicroscopy, then OMERO-test-integration should install omero-cli-duplicate and we can port the change made in merge-ci
• if the tests are in omero-cli-duplicate using omero-test-infra, then the upstream ome/openmicroscopy could be adjusted to either test the legacy plugin or removed

[mtbc]

The for-the-meantime-at-least decision seemed to be to have them in ome/openmicroscopy.