Update feature_alignment (now TRIC)

[npinter]

This PR updates feature_alignment which was renamed to TRIC.

[npinter]

tests are failing now :(

I can't find the 'All tool test results' artifact?!

[bgruening]

[bgruening]

under summary :)

[npinter]

under summary :)

thank you! I was expecting it somewhere here :) (it was there before):

The error is: Job in error state.. tool_id: feature_alignment, exit_code: 127, stderr: /tmp/tmp1zbnmvo3/job_working_directory/000/2/tool_script.sh: line 9: feature_alignment.py: command not found

Requirements are correct: <requirement type="package" version="0.11.0">msproteomicstools</requirement>

https://bioconda.github.io/recipes/msproteomicstools/README.html

Any ideas?

[bgruening]

Have you tested this with planemo test --docker locally? It seems that the created container does not have the python file?

[npinter]

I've tested it with: planemo test --no_dependency_resolution --> all tests green

and with: planemo test --docker --> 3 of 5 tests green --> feature_alignment.py is availiable in all tests! (--> those 2 tests fail because the rpy2 package was not installed (for whatever reason))

[bgruening]

The one with --docker you need to get all green. That is also what is here running.

[bgruening]

I restarted the tests.

[npinter]

ping @bgruening :)

[npinter]

WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0x7fa756ad0f10>: Failed to establish a new connection: [Errno 101] Network is unreachable')': /packages/34/39/cde2c8a227abb4f9ce62fe55586b920f438f1d2903a1a22514d0b982c333/flake8-4.0.1-py2.py3-none-any.whl

does the test restart itself?

[bgruening]

Thanks!