Ensembl/ensembl-hive

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Merge branch 'version/2.3' into version/2.4 #252
ens-bwalts authored 9c4c6b9c
complete00:00:31
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1
git clone
2
codeclimate validate-config
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codeclimate validate-config
WARNING: 'engines' has been deprecated, please use 'plugins' instead
WARNING: 'exclude_paths' has been deprecated, please use 'exclude_patterns' instead
WARNING: 'ratings' has been deprecated, and will not be used
3
codeclimate prepare
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codeclimate prepare
4
builder pull-engines
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determining required images
5
structure
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12
Parser process id: 12
codeclimate-parser socket not present
waiting 1s...
6
duplication
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12
Parser process id: 12
codeclimate-parser socket not present
waiting 1s...
I, [2024-11-04T08:43:03.627334 #1]  INFO -- : Skipping file ./wrappers/python3/eHive/Params.py due to exception (CC::Engine::Analyzers::ParserError): `python2 /usr/src/app/lib/cc/engine/analyzers/python/parser.py` exited with code 1:
Traceback (most recent call last):
  File "/usr/src/app/lib/cc/engine/analyzers/python/parser.py", line 51, in <module>
    print(json.dumps(to_json(ast.parse(source))))
  File "/usr/local/python2/lib/python2.7/ast.py", line 37, in parse
    return compile(source, filename, mode, PyCF_ONLY_AST)
  File "<unknown>", line 70
    raise type(e)(*e.args) from None
                              ^
SyntaxError: invalid syntax


I, [2024-11-04T08:43:03.644060 #1]  INFO -- : Skipping file ./wrappers/python3/eHive/Process.py due to exception (CC::Engine::Analyzers::ParserError): `python2 /usr/src/app/lib/cc/engine/analyzers/python/parser.py` exited with code 1:
Traceback (most recent call last):
  File "/usr/src/app/lib/cc/engine/analyzers/python/parser.py", line 51, in <module>
    print(json.dumps(to_json(ast.parse(source))))
  File "/usr/local/python2/lib/python2.7/ast.py", line 37, in parse
    return compile(source, filename, mode, PyCF_ONLY_AST)
  File "<unknown>", line 60
    print("PYTHON {0}".format(self.__pid), *args, file=sys.stderr)
                                           ^
SyntaxError: invalid syntax
7
fixme
fixme engine documentation
8
radon
radon engine documentation
View output
Running radon3...
9
pep8
pep8 engine documentation
View output
scripts/ modules/ docs/long_mult_walkthrough/ docs/scripts/ docs/presentations/ t/ wrappers/python3/eHive/ sql/
10
shellcheck
shellcheck engine documentation
11
markdownlint
markdownlint engine documentation
View output
/usr/local/bundle/gems/posix-spawn-0.3.11/lib/posix/spawn.rb:467: warning: constant ::Fixnum is deprecated