scprep icon indicating copy to clipboard operation
scprep copied to clipboard

scprep `install_github` tests are failing

Open scottgigante-immunai opened this issue 3 years ago • 0 comments

Describe the bug test_install_github fails, preventing all PRs from passing

To Reproduce

cd scprep
pytest -v

Expected behavior Passes.

Actual behavior Fails.

======================================================================
ERROR: test_run.test_install_github_dependencies_None
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/runner/work/scprep/scprep/test/test_run.py", line 58, in test_install_github_dependencies_None
    scprep.run.install_github("twitter/AnomalyDetection", verbose=False)
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 258, in install_github
    **kwargs,
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/decorator.py", line 232, in fun
    return caller(func, *(extras + args), **kw)
  File "/home/runner/work/scprep/scprep/scprep/utils.py", line 80, in _with_pkg
    return fun(*args, **kwargs)
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 124, in __call__
    robject = self.function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 199, in __call__
    .__call__(*args, **kwargs))
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 125, in __call__
    res = super(Function, self).__call__(*new_args, **new_kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface_lib/conversion.py", line 45, in _
    cdata = function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface.py", line 680, in __call__
    raise embedded.RRuntimeError(_rinterface._geterrmessage())
rpy2.rinterface_lib.embedded.RRuntimeError: Error: Failed to install 'unknown package' from GitHub:
  cannot open URL 'https://api.github.com/repos/twitter/AnomalyDetection/contents/DESCRIPTION?ref=HEAD'


======================================================================
ERROR: test_run.test_install_github_dependencies_True
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/runner/work/scprep/scprep/test/test_run.py", line 76, in test_install_github_dependencies_True
    "twitter/AnomalyDetection", verbose=False, dependencies=True
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 258, in install_github
    **kwargs,
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/decorator.py", line 232, in fun
    return caller(func, *(extras + args), **kw)
  File "/home/runner/work/scprep/scprep/scprep/utils.py", line 80, in _with_pkg
    return fun(*args, **kwargs)
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 124, in __call__
    robject = self.function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 199, in __call__
    .__call__(*args, **kwargs))
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 125, in __call__
    res = super(Function, self).__call__(*new_args, **new_kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface_lib/conversion.py", line 45, in _
    cdata = function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface.py", line 680, in __call__
    raise embedded.RRuntimeError(_rinterface._geterrmessage())
rpy2.rinterface_lib.embedded.RRuntimeError: Error: Failed to install 'unknown package' from GitHub:
  cannot open URL 'https://api.github.com/repos/twitter/AnomalyDetection/contents/DESCRIPTION?ref=HEAD'


======================================================================
ERROR: test_run.test_install_github_lib
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/runner/work/scprep/scprep/test/test_run.py", line 47, in test_install_github_lib
    scprep.run.install_github("twitter/AnomalyDetection", verbose=False)
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 258, in install_github
    **kwargs,
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/decorator.py", line 232, in fun
    return caller(func, *(extras + args), **kw)
  File "/home/runner/work/scprep/scprep/scprep/utils.py", line 80, in _with_pkg
    return fun(*args, **kwargs)
  File "/home/runner/work/scprep/scprep/scprep/run/r_function.py", line 124, in __call__
    robject = self.function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 199, in __call__
    .__call__(*args, **kwargs))
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/robjects/functions.py", line 125, in __call__
    res = super(Function, self).__call__(*new_args, **new_kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface_lib/conversion.py", line 45, in _
    cdata = function(*args, **kwargs)
  File "/opt/hostedtoolcache/Python/3.7.12/x64/lib/python3.7/site-packages/rpy2/rinterface.py", line 680, in __call__
    raise embedded.RRuntimeError(_rinterface._geterrmessage())
rpy2.rinterface_lib.embedded.RRuntimeError: Error: Failed to install 'unknown package' from GitHub:
  cannot open URL 'https://api.github.com/repos/twitter/AnomalyDetection/contents/DESCRIPTION?ref=HEAD'

scprep version master

scottgigante-immunai avatar Feb 23 '22 18:02 scottgigante-immunai