On Thu, Aug 20, 2020 at 05:41:49PM +0300, Bonface M. K. wrote: > > Hi all, > > When trying to build(I'm using guix on > 19da9059212dd81265369340ff1377c62b0cd22e) the python-rpy2 package, I get > the following error: > I've bumped python-rpy2 to 3.3.5 and it now builds. Go ahead and try it now! > --8<---------------cut here---------------start------------->8--- > /gnu/store/84k7z6r044sllh3y0y90vj9dw8fgc6vz-python-rpy2-3.0.4-1.19868a8/lib/python3.8/site-packages/rpy2/_rinterface_cffi_build.py to _rinterface_cffi_build.cpython-38.pyc > running install_egg_info > running egg_info > creating rpy2.egg-info > writing rpy2.egg-info/PKG-INFO > writing dependency_links to rpy2.egg-info/dependency_links.txt > writing requirements to rpy2.egg-info/requires.txt > writing top-level names to rpy2.egg-info/top_level.txt > writing manifest file 'rpy2.egg-info/SOURCES.txt' > reading manifest file 'rpy2.egg-info/SOURCES.txt' > reading manifest template 'MANIFEST.in' > warning: no files found matching 'README' anywhere in distribution > warning: no previously-included files matching '*patch*' found anywhere in distribution > warning: no previously-included files matching '*diff*' found anywhere in distribution > warning: no previously-included files matching '.hg' found anywhere in distribution > warning: no files found matching 'MANIFEST' > warning: no files found matching 'README' > warning: no files found matching '_rinterface_cffi_build' > no previously-included directories found matching 'dist' > warning: no files found matching 'doc/source/rpy2_logo.png' > writing manifest file 'rpy2.egg-info/SOURCES.txt' > Copying rpy2.egg-info to /gnu/store/84k7z6r044sllh3y0y90vj9dw8fgc6vz-python-rpy2-3.0.4-1.19868a8/lib/python3.8/site-packages/rpy2-3.1.0.dev0-py3.8.egg-info > running install_scripts > phase `install' succeeded after 0.7 seconds > starting phase `wrap' > find-files: /gnu/store/84k7z6r044sllh3y0y90vj9dw8fgc6vz-python-rpy2-3.0.4-1.19868a8/bin: No such file or directory > find-files: /gnu/store/84k7z6r044sllh3y0y90vj9dw8fgc6vz-python-rpy2-3.0.4-1.19868a8/sbin: No such file or directory > phase `wrap' succeeded after 0.0 seconds > starting phase `check' > ============================= test session starts ============================== > platform linux -- Python 3.8.2, pytest-5.3.5, py-1.8.1, pluggy-0.13.1 -- /gnu/store/wc4xh9wj49rlbyivxi4lsws6whhzx4ab-python-wrapper-3.8.2/bin/python > cachedir: .pytest_cache > hypothesis profile 'default' -> database=DirectoryBasedExampleDatabase('/tmp/guix-build-python-rpy2-3.0.4-1.19868a8.drv-0/source/.hypothesis/examples') > rootdir: /tmp/guix-build-python-rpy2-3.0.4-1.19868a8.drv-0/source > plugins: hypothesis-5.4.1 > collecting ... collected 614 items / 1 error / 613 selected > > ==================================== ERRORS ==================================== > ___________ ERROR collecting rpy/tests/robjects/lib/test_ggplot2.py ____________ > ImportError while importing test module '/tmp/guix-build-python-rpy2-3.0.4-1.19868a8.drv-0/source/rpy/tests/robjects/lib/test_ggplot2.py'. > Hint: make sure your test modules/packages have valid Python names. > Traceback: > rpy/tests/robjects/lib/test_ggplot2.py:7: in > from rpy2.robjects.lib import ggplot2 > build/lib/rpy2/robjects/lib/ggplot2.py:56: in > rlang = importr('rlang', on_conflict='warn') > build/lib/rpy2/robjects/packages.py:486: in importr > pack = InstalledSTPackage(env, name, > build/lib/rpy2/robjects/packages.py:204: in __init__ > self.__fill_rpy2r__(on_conflict=on_conflict) > build/lib/rpy2/robjects/packages.py:329: in __fill_rpy2r__ > (super(SignatureTranslatedPackage, self) > build/lib/rpy2/robjects/packages.py:252: in __fill_rpy2r__ > raise LibraryError('The symbol ' + rname + > E rpy2.robjects.packages.LibraryError: The symbol .env in the package "rlang" is conflicting with a Python object attribute > =============================== warnings summary =============================== > /gnu/store/xdbplmjmgsdz6wxr63mghkxjkmma44k0-python-nose-1.3.7/lib/python3.8/site-packages/nose/importer.py:12 > /gnu/store/xdbplmjmgsdz6wxr63mghkxjkmma44k0-python-nose-1.3.7/lib/python3.8/site-packages/nose/importer.py:12: DeprecationWarning: the imp module is deprecated in favour of importlib; see the module's documentation for alternative uses > from imp import find_module, load_module, acquire_lock, release_lock > > build/lib/rpy2/robjects/pandas2ri.py:15 > /tmp/guix-build-python-rpy2-3.0.4-1.19868a8.drv-0/source/build/lib/rpy2/robjects/pandas2ri.py:15: FutureWarning: pandas.core.index is deprecated and will be removed in a future version. The public classes are available in the top-level namespace. > from pandas.core.index import Index as PandasIndex > > /gnu/store/3bk454z353a42l1l4yaxa6lrl3dh24mv-python-pytest-5.3.5/lib/python3.8/site-packages/_pytest/mark/structures.py:323 > /gnu/store/3bk454z353a42l1l4yaxa6lrl3dh24mv-python-pytest-5.3.5/lib/python3.8/site-packages/_pytest/mark/structures.py:323: PytestUnknownMarkWarning: Unknown pytest.mark.lib_dplyr - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/latest/mark.html > warnings.warn( > > -- Docs: https://docs.pytest.org/en/latest/warnings.html > !!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during collection !!!!!!!!!!!!!!!!!!!! > ========================= 3 warnings, 1 error in 3.98s ========================= > command "pytest" "-v" "rpy/tests/" failed with status 2 > builder for `/gnu/store/isdcfnwdw5s3c9dqix7arhn5i4pr7rn9-python-rpy2-3.0.4-1.19868a8.drv' failed with exit code 1 > build of /gnu/store/isdcfnwdw5s3c9dqix7arhn5i4pr7rn9-python-rpy2-3.0.4-1.19868a8.drv failed > View build log at '/var/log/guix/drvs/is/dcfnwdw5s3c9dqix7arhn5i4pr7rn9-python-rpy2-3.0.4-1.19868a8.drv.bz2'. > guix build: error: build of `/gnu/store/isdcfnwdw5s3c9dqix7arhn5i4pr7rn9-python-rpy2-3.0.4-1.19868a8.drv' failed > --8<---------------cut here---------------end--------------->8--- > > -- > Bonface M. K. (https://www.bonfacemunyoki.com) > One Divine Emacs To Rule Them All > GPG key = D4F09EB110177E03C28E2FE1F5BBAE1E0392253F > > > -- Efraim Flashner אפרים פלשנר GPG key = A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 Confidentiality cannot be guaranteed on emails sent or received unencrypted