_pip install_ broken beyond normal repair by Jupyter Notebook Extensions (AttributeError: _DistInfoDistribution__dep_map) #5839
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mirekphd
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The culprit that broke pip install was not Jupyter Notebook itself (already installed successfully using pip earlier in the build sequence), but its Extensions / Configurator installed with conda (!) in the versions specified below: Note that not installing these extensions (which prevents pip from breaking down) is not the same as simply uninstalling them (which does not work - if these extensions are installed even once, pip gets broken beyond repair). If that breakage happened outside boundaries of an isolated container environment, it would be pretty serious. |
mirekphd
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It looks like #3704 fixed a similar issue for pip/src/pip/_internal/operations/check.py Line 41 in b6bbabe I'd also say that the whole check operation should be try/excepted, because bugs in that shouldn't cause pip/src/pip/_internal/commands/install.py Line 475 in b6bbabe I think it's a bug in Flit causing at least some of these problems - sorry about that, and hopefully I've got it fixed now. But clearly an installed package with broken metadata shouldn't break pip like this. |
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I've had a go at fixing this in #5842 . |
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I've found this particular issue in older versions of pip as well, including 10 and 9. |
cjerdonek
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This was referenced Oct 4, 2018
leloup314
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Open issue (pypa/pip#5839) causes pip install to fail with the following message -- Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py", line 93, in __init__ req = REQUIREMENT.parseString(requirement_string) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1632, in parseString raise exc File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1622, in parseString loc, tokens = self._parse( instring, 0 ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1379, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 3395, in parseImpl loc, exprtokens = e._parse( instring, loc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1383, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 3183, in parseImpl raise ParseException(instring, loc, self.errmsg, self) pip._vendor.pyparsing.ParseException: Expected stringEnd (at char 33), (line:1, col:34) During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2942, in __init__ super(Requirement, self).__init__(requirement_string) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py", line 97, in __init__ requirement_string[e.loc:e.loc + 8])) pip._vendor.packaging.requirements.InvalidRequirement: Invalid requirement, parse error at "'; extra '" During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_internal/basecommand.py", line 228, in main status = self.run(options, args) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/commands/install.py", line 291, in run resolver.resolve(requirement_set) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/resolve.py", line 103, in resolve self._resolve_one(requirement_set, req) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/resolve.py", line 307, in _resolve_one set(req_to_install.extras) - set(dist.extras) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2819, in extras return [dep for dep in self._dep_map if dep] File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2864, in _dep_map self.__dep_map = self._compute_dependencies() File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2874, in _compute_dependencies reqs.extend(parse_requirements(req)) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2935, in parse_requirements yield Requirement(line) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2944, in __init__ raise RequirementParseError(str(e)) pip._vendor.pkg_resources.RequirementParseError: Invalid requirement, parse error at "'; extra '" Issue can (temporarily) be circumvented by running conda install 'testpath<0.4'
mikaylakonst
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Open issue (pypa/pip#5839) causes pip install to fail with the following message -- Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py", line 93, in __init__ req = REQUIREMENT.parseString(requirement_string) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1632, in parseString raise exc File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1622, in parseString loc, tokens = self._parse( instring, 0 ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1379, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 3395, in parseImpl loc, exprtokens = e._parse( instring, loc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 1383, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pyparsing.py", line 3183, in parseImpl raise ParseException(instring, loc, self.errmsg, self) pip._vendor.pyparsing.ParseException: Expected stringEnd (at char 33), (line:1, col:34) During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2942, in __init__ super(Requirement, self).__init__(requirement_string) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py", line 97, in __init__ requirement_string[e.loc:e.loc + 8])) pip._vendor.packaging.requirements.InvalidRequirement: Invalid requirement, parse error at "'; extra '" During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/opt/conda/lib/python3.6/site-packages/pip/_internal/basecommand.py", line 228, in main status = self.run(options, args) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/commands/install.py", line 291, in run resolver.resolve(requirement_set) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/resolve.py", line 103, in resolve self._resolve_one(requirement_set, req) File "/opt/conda/lib/python3.6/site-packages/pip/_internal/resolve.py", line 307, in _resolve_one set(req_to_install.extras) - set(dist.extras) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2819, in extras return [dep for dep in self._dep_map if dep] File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2864, in _dep_map self.__dep_map = self._compute_dependencies() File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2874, in _compute_dependencies reqs.extend(parse_requirements(req)) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2935, in parse_requirements yield Requirement(line) File "/opt/conda/lib/python3.6/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2944, in __init__ raise RequirementParseError(str(e)) pip._vendor.pkg_resources.RequirementParseError: Invalid requirement, parse error at "'; extra '" Issue can (temporarily) be circumvented by running conda install 'testpath<0.4'
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An update: in my complex python environment upgrading to the the latest versions of all libraries that appeared since the original bug report (including pip 18.0->18.1 and testpath 0.4 -> 0.42) did not help - installing latest Jupyter+extensions+configurator breaks down pip beyond normal repair, although error messages are different this time. In simple environments such as jupyter/base-notebook this error would go unnoticed. And it's not testpath's fault. If jupyter alone is installed (without extensions and configurator), than no version of testpath can break it (tried versions from 0.3.1. to 0.4.2). More details |
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The error message there ( |
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I have seen a similar error to that, with the METADATA file missing from |
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Maybe this one should be filled with conda? After all, isn't it their installer's failure to roll back that cripples pip? And a simple solution exists now, because we know exactly which package's folder to remove: And if we break pip again (with the usual "conda install -y -c conda-forge jupyter jupyter_contrib_nbextensions jupyter_nbextensions_configurator"): ..we (i.e. typically root) can remove the entire folder with the newly broken package: ipywidgets, and the removal repairs pip once again: |
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It's working for me now (essentially using workaround by @mirekphd). base conda environment ai conda environment Solution:
double check that it is gone. pip install still wasn't working yet. I realized that my base conda environment was not active while in my ai conda environment and I was using my system /usr/bin/pip after step 2.
Now your $PATH should begin with:
OK. P.S. The set of pip packages I have are different, so the problem is likely independent of jupyter notebook extensions, etc. working updateoriginal failed update |
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Can you see if this issue is still occurring with the latest packages in the conda ecosystem? The |
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That problem with pkg_resources seems to be gone indeed. But that does not stop Jupyter Extensions (conda installed) from breaking pip in my Kaggle-like environment, like this... |
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But a workaround is to manually remove those folders reported in sequence by pip in its [Errno 2] error message (there are two such libs to purge: mistune 0.8.3 and ipywidgets 7.4.2, both from the conda-forge channel and installed together with jupyter_contrib_nbextensions and jupyter_nbextensions_configurator). Presumably pip should be immunized from being broken by such malformed packages as well? |
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Re: reporting it on conda - it's certainly an issue that the post-link script fails. But I'd say the bigger issue is that pip should handle the situation a bit more gracefully. |
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Maybe moving these folders to a temporary "quarantine" folder would be acceptable? |
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Is this related to jupyter/notebook#2605 in any way? |
I think so, only the solution offered was not general enough to work in more complex cases like this one. I cannot reproduce their case, but can quickly prove their solution does not work here. Docker has no equals when it comes to reproducing bugs... |
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Apart from the situation with conda, we were hit by this issue when trying to use a PEP 508 URL requirement in an
Perhaps it should print the full problematic line and hide the useless |
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1723: Scheduled weekly dependency update for week 05 r=mythmon a=pyup-bot ### Update [atomicwrites](https://pypi.org/project/atomicwrites) from **1.2.1** to **1.3.0**. *The bot wasn't able to find a changelog for this release. [Got an idea?](https://github.com/pyupio/changelogs/issues/new)* <details> <summary>Links</summary> - PyPI: https://pypi.org/project/atomicwrites - Repo: https://github.com/untitaker/python-atomicwrites </details> ### Update [botocore](https://pypi.org/project/botocore) from **1.12.82** to **1.12.86**. <details> <summary>Changelog</summary> ### 1.12.86 ``` ======= * api-change:``devicefarm``: Update devicefarm client to latest version * api-change:``codecommit``: Update codecommit client to latest version * api-change:``medialive``: Update medialive client to latest version * api-change:``mediaconnect``: Update mediaconnect client to latest version ``` ### 1.12.85 ``` ======= * api-change:``logs``: Update logs client to latest version * api-change:``elbv2``: Update elbv2 client to latest version * api-change:``rds``: Update rds client to latest version * api-change:``codebuild``: Update codebuild client to latest version * api-change:``sms-voice``: Update sms-voice client to latest version * api-change:``ecr``: Update ecr client to latest version ``` ### 1.12.84 ``` ======= * api-change:``worklink``: Update worklink client to latest version * api-change:``apigatewaymanagementapi``: Update apigatewaymanagementapi client to latest version * api-change:``acm-pca``: Update acm-pca client to latest version ``` ### 1.12.83 ``` ======= * api-change:``appstream``: Update appstream client to latest version * api-change:``discovery``: Update discovery client to latest version * api-change:``dms``: Update dms client to latest version * api-change:``fms``: Update fms client to latest version * api-change:``ssm``: Update ssm client to latest version ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/botocore - Changelog: https://pyup.io/changelogs/botocore/ - Repo: https://github.com/boto/botocore </details> ### Update [Faker](https://pypi.org/project/Faker) from **1.0.1** to **1.0.2**. <details> <summary>Changelog</summary> ### 1.0.2 ``` -------------------------------------------------------------------------------------- * Fix state abbreviations for ``id_ID`` to be 2-letters. Thanks dt-ap. * Fix format for ``city_with_postcode`` on ``de_DE`` locale. Thanks TZanke. * Update ``person`` providers for ``zh_CN``. Thanks TimeFinger. * Implement ``zipcode_in_state`` and aliases in ``en_US`` locale for generating a zipcode for a specified state. Thanks mattyg. * Group first names by gender on ``zh_CN`` provider. Thanks TimeFinger. ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/faker - Changelog: https://pyup.io/changelogs/faker/ - Repo: https://github.com/joke2k/faker </details> ### Update [pycodestyle](https://pypi.org/project/pycodestyle) from **2.4.0** to **2.5.0**. <details> <summary>Changelog</summary> ### 2.5.0 ``` ------------------ New checks: * E117: Over-indented code blocks * W505: Maximum doc-string length only when configured with --max-doc-length Changes: * Remove support for EOL Python 2.6 and 3.3. PR 720. * Add E117 error for over-indented code blocks. * Allow W605 to be silenced by ` noqa` and fix the position reported by W605 * Allow users to omit blank lines around one-liner definitions of classes and functions * Include the function return annotation (``->``) as requiring surrounding whitespace only on Python 3 * Verify that only names can follow ``await``. Previously we allowed numbers and strings. * Add support for Python 3.7 * Fix detection of annotated argument defaults for E252 * Cprrect the position reported by W504 ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pycodestyle - Changelog: https://pyup.io/changelogs/pycodestyle/ - Docs: https://pycodestyle.readthedocs.io/ </details> ### Update [pyflakes](https://pypi.org/project/pyflakes) from **2.0.0** to **2.1.0**. <details> <summary>Changelog</summary> ### 2.1.0 ``` - Allow intentional assignment to variables named ``_`` - Recognize ``__module__`` as a valid name in class scope - ``pyflakes.checker.Checker`` supports checking of partial ``ast`` trees - Detect assign-before-use for local variables which shadow builtin names - Detect invalid ``print`` syntax using ``>>`` operator - Treat ``async for`` the same as a ``for`` loop for introducing variables - Add detection for list concatenation in ``__all__`` - Exempt ``typing.overload`` from duplicate function declaration - Importing a submodule of an ``as``-aliased ``import``-import is marked as used - Report undefined names from ``__all__`` as possibly coming from a ``*`` import - Add support for changes in Python 3.8-dev - Add support for PEP 563 (``from __future__ import annotations``) - Include Python version and platform information in ``pyflakes --version`` - Recognize ``__annotations__`` as a valid magic global in Python 3.6+ - Mark names used in PEP 484 `` type: ...`` comments as used - Add check for use of ``is`` operator with ``str``, ``bytes``, and ``int`` literals ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pyflakes - Changelog: https://pyup.io/changelogs/pyflakes/ - Repo: https://github.com/PyCQA/pyflakes </details> ### Update [setuptools](https://pypi.org/project/setuptools) from **40.6.3** to **40.7.3**. <details> <summary>Changelog</summary> ### 40.7.3 ``` ------- * 1670: In package_index, revert to using a copy of splituser from Python 3.8. Attempts to use ``urllib.parse.urlparse`` led to problems as reported in 1663 and 1668. This change serves as an alternative to 1499 and fixes 1668. ``` ### 40.7.2 ``` ------- * 1666: Restore port in URL handling in package_index. ``` ### 40.7.1 ``` ------- * 1660: On Python 2, when reading config files, downcast options from text to bytes to satisfy distutils expectations. ``` ### 40.7.0 ``` ------- * 1551: File inputs for the `license` field in `setup.cfg` files now explicitly raise an error. * 1180: Add support for non-ASCII in setup.cfg (1062). Add support for native strings on some parameters (1136). * 1499: ``setuptools.package_index`` no longer relies on the deprecated ``urllib.parse.splituser`` per Python 27485. * 1544: Added tests for PackageIndex.download (for git URLs). * 1625: In PEP 517 build_meta builder, ensure that sdists are built as gztar per the spec. ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/setuptools - Changelog: https://pyup.io/changelogs/setuptools/ - Repo: https://github.com/pypa/setuptools </details> ### Update [cachetools](https://pypi.org/project/cachetools) from **3.0.0** to **3.1.0**. <details> <summary>Changelog</summary> ### 3.1.0 ``` ------------------- - Fix Python 3.8 compatibility issue. - Use ``time.monotonic`` as default timer if available. - Improve documentation regarding thread safety. ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/cachetools - Changelog: https://pyup.io/changelogs/cachetools/ - Repo: https://github.com/tkem/cachetools </details> ### Update [boto3](https://pypi.org/project/boto3) from **1.9.82** to **1.9.86**. <details> <summary>Changelog</summary> ### 1.9.86 ``` ====== * api-change:``devicefarm``: [``botocore``] Update devicefarm client to latest version * api-change:``codecommit``: [``botocore``] Update codecommit client to latest version * api-change:``medialive``: [``botocore``] Update medialive client to latest version * api-change:``mediaconnect``: [``botocore``] Update mediaconnect client to latest version ``` ### 1.9.85 ``` ====== * api-change:``logs``: [``botocore``] Update logs client to latest version * api-change:``elbv2``: [``botocore``] Update elbv2 client to latest version * api-change:``rds``: [``botocore``] Update rds client to latest version * api-change:``codebuild``: [``botocore``] Update codebuild client to latest version * api-change:``sms-voice``: [``botocore``] Update sms-voice client to latest version * api-change:``ecr``: [``botocore``] Update ecr client to latest version ``` ### 1.9.84 ``` ====== * api-change:``worklink``: [``botocore``] Update worklink client to latest version * api-change:``apigatewaymanagementapi``: [``botocore``] Update apigatewaymanagementapi client to latest version * api-change:``acm-pca``: [``botocore``] Update acm-pca client to latest version ``` ### 1.9.83 ``` ====== * api-change:``appstream``: [``botocore``] Update appstream client to latest version * api-change:``discovery``: [``botocore``] Update discovery client to latest version * api-change:``dms``: [``botocore``] Update dms client to latest version * api-change:``fms``: [``botocore``] Update fms client to latest version * api-change:``ssm``: [``botocore``] Update ssm client to latest version ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/boto3 - Changelog: https://pyup.io/changelogs/boto3/ - Repo: https://github.com/boto/boto3 </details> ### Update [flake8](https://pypi.org/project/flake8) from **3.6.0** to **3.7.5**. <details> <summary>Changelog</summary> ### 3.7.5 ``` ------------------- You can view the `3.7.5 milestone`_ on GitLab for more details. Bugs Fixed ~~~~~~~~~~ - Fix reporting of pyflakes "referenced before assignment" error (See also `GitLab!301`_, `GitLab503`_) .. all links .. _3.7.5 milestone: https://gitlab.com/pycqa/flake8/milestones/28 .. issue links .. _GitLab503: https://gitlab.com/pycqa/flake8/issues/503 .. merge request links .. _GitLab!301: https://gitlab.com/pycqa/flake8/merge_requests/301 ``` ### 3.7.4 ``` ------------------- You can view the `3.7.4 milestone`_ on GitLab for more details. Bugs Fixed ~~~~~~~~~~ - Fix performance regression with lots of ``per-file-ignores`` and errors (See also `GitLab!299`_, `GitLab501`_) .. all links .. _3.7.4 milestone: https://gitlab.com/pycqa/flake8/milestones/27 .. issue links .. _GitLab501: https://gitlab.com/pycqa/flake8/issues/501 .. merge request links .. _GitLab!299: https://gitlab.com/pycqa/flake8/merge_requests/299 ``` ### 3.7.3 ``` ------------------- You can view the `3.7.3 milestone`_ on GitLab for more details. Bugs Fixed ~~~~~~~~~~ - Fix imports of ``typing`` in python 3.5.0 / 3.5.1 (See also `GitLab!294`_, `GitLab498`_) - Fix ``flake8 --statistics`` (See also `GitLab!295`_, `GitLab499`_) - Gracefully ignore ``flake8-per-file-ignores`` plugin if installed (See also `GitLab!297`_, `GitLab495`_) - Improve error message for malformed ``per-file-ignores`` (See also `GitLab!298`_, `GitLab489`_) .. all links .. _3.7.3 milestone: https://gitlab.com/pycqa/flake8/milestones/26 .. issue links .. _GitLab489: https://gitlab.com/pycqa/flake8/issues/489 .. _GitLab495: https://gitlab.com/pycqa/flake8/issues/495 .. _GitLab498: https://gitlab.com/pycqa/flake8/issues/498 .. _GitLab499: https://gitlab.com/pycqa/flake8/issues/499 .. merge request links .. _GitLab!294: https://gitlab.com/pycqa/flake8/merge_requests/294 .. _GitLab!295: https://gitlab.com/pycqa/flake8/merge_requests/295 .. _GitLab!297: https://gitlab.com/pycqa/flake8/merge_requests/297 .. _GitLab!298: https://gitlab.com/pycqa/flake8/merge_requests/298 ``` ### 3.7.2 ``` ------------------- You can view the `3.7.2 milestone`_ on GitLab for more details. Bugs Fixed ~~~~~~~~~~ - Fix broken ``flake8 --diff`` (regressed in 3.7.0) (See also `GitLab!292`_, `GitLab490`_) - Fix typo in plugin exception reporting (See also `GitLab!275`_, `GitLab491`_) - Fix ``AttributeError`` while attempting to use the legacy api (regressed in 3.7.0) (See also `GitLab!293`_, `GitLab497`_) .. all links .. _3.7.2 milestone: https://gitlab.com/pycqa/flake8/milestones/25 .. issue links .. _GitLab490: https://gitlab.com/pycqa/flake8/issues/490 .. _GitLab491: https://gitlab.com/pycqa/flake8/issues/491 .. _GitLab497: https://gitlab.com/pycqa/flake8/issues/497 .. merge request links .. _GitLab!292: https://gitlab.com/pycqa/flake8/merge_requests/292 .. _GitLab!275: https://gitlab.com/pycqa/flake8/merge_requests/275 .. _GitLab!293: https://gitlab.com/pycqa/flake8/merge_requests/293 ``` ### 3.7.1 ``` ------------------- You can view the `3.7.1 milestone`_ on GitLab for more details. Bugs Fixed ~~~~~~~~~~ - Fix capitalized filenames in ``per-file-ignores`` setting (See also `GitLab!290`_, `GitLab488`_) .. all links .. _3.7.1 milestone: https://gitlab.com/pycqa/flake8/milestones/24 .. issue links .. _GitLab488: https://gitlab.com/pycqa/flake8/issues/488 .. merge request links .. _GitLab!290: https://gitlab.com/pycqa/flake8/merge_requests/290 ``` ### 3.7.0 ``` ------------------- You can view the `3.7.0 milestone`_ on GitLab for more details. New Dependency Information ~~~~~~~~~~~~~~~~~~~~~~~~~~ - Add dependency on ``entrypoints`` >= 0.3, < 0.4 (See also `GitLab!264`_, `GitLab!288`_) - Pyflakes has been updated to >= 2.1.0, < 2.2.0 (See also `GitLab!283`_, `GitLab!285`_) - pycodestyle has been updated to >= 2.5.0, < 2.6.0 (See also `GitLab!287`_) Features ~~~~~~~~ - Add support for ``per-file-ignores`` (See also `GitLab!259`_, `GitLab156`_, `GitLab!281`_, `GitLab471`_) - Enable use of ``float`` and ``complex`` option types (See also `GitLab!261`_, `GitLab452`_) - Improve startup performance by switching from ``pkg_resources`` to ``entrypoints`` (See also `GitLab!264`_) - Add metadata for use through the `pre-commit`_ git hooks framework (See also `GitLab!268`_, `GitLab!284`_) - Allow physical line checks to return more than one result (See also `GitLab!269`_) - Allow `` noqa:X123`` comments without space between the colon and codes list (See also `GitLab!273`_, `GitLab470`_) - Remove broken and unused ``flake8.listen`` plugin type (See also `GitLab!274`_, `GitLab480`_) .. all links .. _3.7.0 milestone: https://gitlab.com/pycqa/flake8/milestones/23 .. _pre-commit: https://pre-commit.com/ .. issue links .. _GitLab156: https://gitlab.com/pycqa/flake8/issues/156 .. _GitLab452: https://gitlab.com/pycqa/flake8/issues/452 .. _GitLab470: https://gitlab.com/pycqa/flake8/issues/470 .. _GitLab471: https://gitlab.com/pycqa/flake8/issues/471 .. _GitLab480: https://gitlab.com/pycqa/flake8/issues/480 .. merge request links .. _GitLab!259: https://gitlab.com/pycqa/flake8/merge_requests/259 .. _GitLab!261: https://gitlab.com/pycqa/flake8/merge_requests/261 .. _GitLab!264: https://gitlab.com/pycqa/flake8/merge_requests/264 .. _GitLab!268: https://gitlab.com/pycqa/flake8/merge_requests/268 .. _GitLab!269: https://gitlab.com/pycqa/flake8/merge_requests/269 .. _GitLab!273: https://gitlab.com/pycqa/flake8/merge_requests/273 .. _GitLab!274: https://gitlab.com/pycqa/flake8/merge_requests/274 .. _GitLab!281: https://gitlab.com/pycqa/flake8/merge_requests/281 .. _GitLab!283: https://gitlab.com/pycqa/flake8/merge_requests/283 .. _GitLab!284: https://gitlab.com/pycqa/flake8/merge_requests/284 .. _GitLab!285: https://gitlab.com/pycqa/flake8/merge_requests/285 .. _GitLab!287: https://gitlab.com/pycqa/flake8/merge_requests/287 .. _GitLab!288: https://gitlab.com/pycqa/flake8/merge_requests/288 ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/flake8 - Changelog: https://pyup.io/changelogs/flake8/ - Repo: https://gitlab.com/pycqa/flake8 </details> ### Update [newrelic](https://pypi.org/project/newrelic) from **4.10.0.112** to **4.12.0.113**. <details> <summary>Changelog</summary> ### 4.12.0.113 ``` This release of the Python agent extends support of Amazon's boto3 library and includes bug fixes. The agent can be installed using easy_install/pip/distribute via the Python Package Index or can be downloaded directly from the New Relic download site. Features AWS operation and request ID will now be reported in transaction traces and spans when using boto3 and botocore. The agent will now report aws.requestId and aws.operation for all calls to AWS made using botocore and boto3. DynamoDB calls are now reported under the Databases tab. The agent will now record DynamoDB query performance in the Databases tab in APM in addition to table name for the following calls: put_item get_item update_item delete_item create_table delete_table query scan Certain SQS calls will now report additional data for spans and transaction traces. The agent will now record the queue name in spans and transaction traces for the following SQS calls: send_message send_message_batch receive_message SNS publish will now report additional data for spans and transaction traces. The SNS topic, target, or the string literal PhoneNumber will be reported to New Relic inside of spans and transaction traces. The full URL path will now be recorded on span events and transaction traces when using boto3 or botocore. The agent will now record the full URL path for API calls made to AWS through the boto3 / botocore libraries. The path will be available through span events and transaction traces. Bug Fixes Using newrelic-admin to start a GunicornWebWorker with an application factory resulted in an application crash. The agent would fail to start if using the newrelic-admin command to start an aiohttp application factory with GunicornWebWorker. This issue has now been fixed. ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/newrelic - Changelog: https://pyup.io/changelogs/newrelic/ - Homepage: http://newrelic.com/docs/python/new-relic-for-python </details> ### Update [psycopg2](https://pypi.org/project/psycopg2) from **2.7.6.1** to **2.7.7**. <details> <summary>Changelog</summary> ### 2.7.7 ``` ^^^^^^^^^^^^^^^^^^^^^^^^^^^ - Cleanup of the cursor results assignment code, which might have solved double free and inconsistencies in concurrent usage (🎟️`346, 384`). - Wheel package compiled against OpenSSL 1.0.2q. ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/psycopg2 - Changelog: https://pyup.io/changelogs/psycopg2/ - Homepage: http://initd.org/psycopg/ </details> ### Update [pyasn1-modules](https://pypi.org/project/pyasn1-modules) from **0.2.3** to **0.2.4**. *The bot wasn't able to find a changelog for this release. [Got an idea?](https://github.com/pyupio/changelogs/issues/new)* <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pyasn1-modules - Changelog: https://pyup.io/changelogs/pyasn1-modules/ - Repo: https://github.com/etingof/pyasn1-modules </details> ### Update [pytest-django](https://pypi.org/project/pytest-django) from **3.4.5** to **3.4.7**. <details> <summary>Changelog</summary> ### 3.4.7 ``` ------------------ Bugfixes ^^^^^^^^ * Fix disabling/handling of unittest methods with pytest 4.2+ (700) ``` ### 3.4.6 ``` ------------------ Bugfixes ^^^^^^^^ * django_find_project: add cwd as fallback always (690) Misc ^^^^ * Enable tests for Django 2.2 and add classifier (693) * Disallow pytest 4.2.0 in ``install_requires`` (697) ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pytest-django - Changelog: https://pyup.io/changelogs/pytest-django/ - Docs: https://pytest-django.readthedocs.io/ </details> ### Update [pytest](https://pypi.org/project/pytest) from **4.1.1** to **4.2.0**. <details> <summary>Changelog</summary> ### 4.2.0 ``` ========================= Features -------- - `3094 <https://github.com/pytest-dev/pytest/issues/3094>`_: `Class xunit-style <https://docs.pytest.org/en/latest/xunit_setup.html>`__ functions and methods now obey the scope of *autouse* fixtures. This fixes a number of surprising issues like ``setup_method`` being called before session-scoped autouse fixtures (see `517 <https://github.com/pytest-dev/pytest/issues/517>`__ for an example). - `4627 <https://github.com/pytest-dev/pytest/issues/4627>`_: Display a message at the end of the test session when running under Python 2.7 and 3.4 that pytest 5.0 will no longer support those Python versions. - `4660 <https://github.com/pytest-dev/pytest/issues/4660>`_: The number of *selected* tests now are also displayed when the ``-k`` or ``-m`` flags are used. - `4688 <https://github.com/pytest-dev/pytest/issues/4688>`_: ``pytest_report_teststatus`` hook now can also receive a ``config`` parameter. - `4691 <https://github.com/pytest-dev/pytest/issues/4691>`_: ``pytest_terminal_summary`` hook now can also receive a ``config`` parameter. Bug Fixes --------- - `3547 <https://github.com/pytest-dev/pytest/issues/3547>`_: ``--junitxml`` can emit XML compatible with Jenkins xUnit. ``junit_family`` INI option accepts ``legacy|xunit1``, which produces old style output, and ``xunit2`` that conforms more strictly to https://github.com/jenkinsci/xunit-plugin/blob/xunit-2.3.2/src/main/resources/org/jenkinsci/plugins/xunit/types/model/xsd/junit-10.xsd - `4280 <https://github.com/pytest-dev/pytest/issues/4280>`_: Improve quitting from pdb, especially with ``--trace``. Using ``q[quit]`` after ``pdb.set_trace()`` will quit pytest also. - `4402 <https://github.com/pytest-dev/pytest/issues/4402>`_: Warning summary now groups warnings by message instead of by test id. This makes the output more compact and better conveys the general idea of how much code is actually generating warnings, instead of how many tests call that code. - `4536 <https://github.com/pytest-dev/pytest/issues/4536>`_: ``monkeypatch.delattr`` handles class descriptors like ``staticmethod``/``classmethod``. - `4649 <https://github.com/pytest-dev/pytest/issues/4649>`_: Restore marks being considered keywords for keyword expressions. - `4653 <https://github.com/pytest-dev/pytest/issues/4653>`_: ``tmp_path`` fixture and other related ones provides resolved path (a.k.a real path) - `4667 <https://github.com/pytest-dev/pytest/issues/4667>`_: ``pytest_terminal_summary`` uses result from ``pytest_report_teststatus`` hook, rather than hardcoded strings. - `4669 <https://github.com/pytest-dev/pytest/issues/4669>`_: Correctly handle ``unittest.SkipTest`` exception containing non-ascii characters on Python 2. - `4680 <https://github.com/pytest-dev/pytest/issues/4680>`_: Ensure the ``tmpdir`` and the ``tmp_path`` fixtures are the same folder. - `4681 <https://github.com/pytest-dev/pytest/issues/4681>`_: Ensure ``tmp_path`` is always a real path. Trivial/Internal Changes ------------------------ - `4643 <https://github.com/pytest-dev/pytest/issues/4643>`_: Use ``a.item()`` instead of the deprecated ``np.asscalar(a)`` in ``pytest.approx``. ``np.asscalar`` has been `deprecated <https://github.com/numpy/numpy/blob/master/doc/release/1.16.0-notes.rstnew-deprecations>`__ in ``numpy 1.16.``. - `4657 <https://github.com/pytest-dev/pytest/issues/4657>`_: Copy saferepr from pylib ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pytest - Changelog: https://pyup.io/changelogs/pytest/ - Homepage: https://docs.pytest.org/en/latest/ </details> ### Update [pytest-mock](https://pypi.org/project/pytest-mock) from **1.10.0** to **1.10.1**. *The bot wasn't able to find a changelog for this release. [Got an idea?](https://github.com/pyupio/changelogs/issues/new)* <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pytest-mock - Changelog: https://pyup.io/changelogs/pytest-mock/ - Repo: https://github.com/pytest-dev/pytest-mock/ </details> ### Update [Sphinx](https://pypi.org/project/Sphinx) from **1.8.3** to **1.8.4**. <details> <summary>Changelog</summary> ### 1.8.4 ``` ===================================== Bugs fixed ---------- * 3707: latex: no bold checkmark (✔) available. * 5605: with the documentation language set to Chinese, English words could not be searched. * 5889: LaTeX: user ``numfig_format`` is stripped of spaces and may cause build failure * C++, fix hyperlinks for declarations involving east cv-qualifiers. * 5755: C++, fix duplicate declaration error on function templates with constraints in the return type. * C++, parse unary right fold expressions and binary fold expressions. * pycode could not handle egg files on windows * 5928: KeyError: 'DOCUTILSCONFIG' when running build * 5936: LaTeX: PDF build broken by inclusion of image taller than page height in an admonition * 5231: "make html" does not read and build "po" files in "locale" dir * 5954: ``:scale:`` image option may break PDF build if image in an admonition * 5966: mathjax has not been loaded on incremental build * 5960: LaTeX: modified PDF layout since September 2018 TeXLive update of :file:`parskip.sty` * 5948: LaTeX: duplicated labels are generated for sections * 5958: versionadded directive causes crash with Python 3.5.0 * 5995: autodoc: autodoc_mock_imports conflict with metaclass on Python 3.7 * 5871: texinfo: a section title ``.`` is not allowed ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/sphinx - Changelog: https://pyup.io/changelogs/sphinx/ - Homepage: http://sphinx-doc.org/ </details> ### Update [pip](https://pypi.org/project/pip) from **18.1** to **19.0.1**. <details> <summary>Changelog</summary> ### 19.0 ``` ================= Deprecations and Removals ------------------------- - Deprecate support for Python 3.4 (`6106 <https://github.com/pypa/pip/issues/6106>`_) - Start printing a warning for Python 2.7 to warn of impending Python 2.7 End-of-life and prompt users to start migrating to Python 3. (`6148 <https://github.com/pypa/pip/issues/6148>`_) - Remove the deprecated ``--process-dependency-links`` option. (`6060 <https://github.com/pypa/pip/issues/6060>`_) - Remove the deprecated SVN editable detection based on dependency links during freeze. (`5866 <https://github.com/pypa/pip/issues/5866>`_) Features -------- - Implement PEP 517 (allow projects to specify a build backend via pyproject.toml). (`5743 <https://github.com/pypa/pip/issues/5743>`_) - Implement manylinux2010 platform tag support. manylinux2010 is the successor to manylinux1. It allows carefully compiled binary wheels to be installed on compatible Linux platforms. (`5008 <https://github.com/pypa/pip/issues/5008>`_) - Improve build isolation: handle ``.pth`` files, so namespace packages are correctly supported under Python 3.2 and earlier. (`5656 <https://github.com/pypa/pip/issues/5656>`_) - Include the package name in a freeze warning if the package is not installed. (`5943 <https://github.com/pypa/pip/issues/5943>`_) - Warn when dropping an ``--[extra-]index-url`` value that points to an existing local directory. (`5827 <https://github.com/pypa/pip/issues/5827>`_) - Prefix pip's ``--log`` file lines with their timestamp. (`6141 <https://github.com/pypa/pip/issues/6141>`_) Bug Fixes --------- - Avoid creating excessively long temporary paths when uninstalling packages. (`3055 <https://github.com/pypa/pip/issues/3055>`_) - Redact the password from the URL in various log messages. (`4746 <https://github.com/pypa/pip/issues/4746>`_, `6124 <https://github.com/pypa/pip/issues/6124>`_) - Avoid creating excessively long temporary paths when uninstalling packages. (`3055 <https://github.com/pypa/pip/issues/3055>`_) - Avoid printing a stack trace when given an invalid requirement. (`5147 <https://github.com/pypa/pip/issues/5147>`_) - Present 401 warning if username/password do not work for URL (`4833 <https://github.com/pypa/pip/issues/4833>`_) - Handle ``requests.exceptions.RetryError`` raised in ``PackageFinder`` that was causing pip to fail silently when some indexes were unreachable. (`5270 <https://github.com/pypa/pip/issues/5270>`_, `5483 <https://github.com/pypa/pip/issues/5483>`_) - Handle a broken stdout pipe more gracefully (e.g. when running ``pip list | head``). (`4170 <https://github.com/pypa/pip/issues/4170>`_) - Fix crash from setting ``PIP_NO_CACHE_DIR=yes``. (`5385 <https://github.com/pypa/pip/issues/5385>`_) - Fix crash from unparseable requirements when checking installed packages. (`5839 <https://github.com/pypa/pip/issues/5839>`_) - Fix content type detection if a directory named like an archive is used as a package source. (`5838 <https://github.com/pypa/pip/issues/5838>`_) - Fix listing of outdated packages that are not dependencies of installed packages in ``pip list --outdated --not-required`` (`5737 <https://github.com/pypa/pip/issues/5737>`_) - Fix sorting ``TypeError`` in ``move_wheel_files()`` when installing some packages. (`5868 <https://github.com/pypa/pip/issues/5868>`_) - Fix support for invoking pip using ``python src/pip ...``. (`5841 <https://github.com/pypa/pip/issues/5841>`_) - Greatly reduce memory usage when installing wheels containing large files. (`5848 <https://github.com/pypa/pip/issues/5848>`_) - Editable non-VCS installs now freeze as editable. (`5031 <https://github.com/pypa/pip/issues/5031>`_) - Editable Git installs without a remote now freeze as editable. (`4759 <https://github.com/pypa/pip/issues/4759>`_) - Canonicalize sdist file names so they can be matched to a canonicalized package name passed to ``pip install``. (`5870 <https://github.com/pypa/pip/issues/5870>`_) - Properly decode special characters in SVN URL credentials. (`5968 <https://github.com/pypa/pip/issues/5968>`_) - Make ``PIP_NO_CACHE_DIR`` disable the cache also for truthy values like ``"true"``, ``"yes"``, ``"1"``, etc. (`5735 <https://github.com/pypa/pip/issues/5735>`_) Vendored Libraries ------------------ - Include license text of vendored 3rd party libraries. (`5213 <https://github.com/pypa/pip/issues/5213>`_) - Update certifi to 2018.11.29 - Update colorama to 0.4.1 - Update distlib to 0.2.8 - Update idna to 2.8 - Update packaging to 19.0 - Update pep517 to 0.5.0 - Update pkg_resources to 40.6.3 (via setuptools) - Update pyparsing to 2.3.1 - Update pytoml to 0.1.20 - Update requests to 2.21.0 - Update six to 1.12.0 - Update urllib3 to 1.24.1 Improved Documentation ---------------------- - Include the Vendoring Policy in the documentation. (`5958 <https://github.com/pypa/pip/issues/5958>`_) - Add instructions for running pip from source to Development documentation. (`5949 <https://github.com/pypa/pip/issues/5949>`_) - Remove references to removed ``egg=<name>-<version>`` functionality (`5888 <https://github.com/pypa/pip/issues/5888>`_) - Fix omission of command name in HTML usage documentation (`5984 <https://github.com/pypa/pip/issues/5984>`_) ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pip - Changelog: https://pyup.io/changelogs/pip/ - Homepage: https://pip.pypa.io/ </details> Co-authored-by: pyup-bot <github-bot@pyup.io> Co-authored-by: Peter Bengtsson <mail@peterbe.com>
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### Update [pip](https://pypi.org/project/pip) from **18.1** to **19.0.1**. <details> <summary>Changelog</summary> ### 19.0 ``` ================= Deprecations and Removals ------------------------- - Deprecate support for Python 3.4 (`6106 <https://github.com/pypa/pip/issues/6106>`_) - Start printing a warning for Python 2.7 to warn of impending Python 2.7 End-of-life and prompt users to start migrating to Python 3. (`6148 <https://github.com/pypa/pip/issues/6148>`_) - Remove the deprecated ``--process-dependency-links`` option. (`6060 <https://github.com/pypa/pip/issues/6060>`_) - Remove the deprecated SVN editable detection based on dependency links during freeze. (`5866 <https://github.com/pypa/pip/issues/5866>`_) Features -------- - Implement PEP 517 (allow projects to specify a build backend via pyproject.toml). (`5743 <https://github.com/pypa/pip/issues/5743>`_) - Implement manylinux2010 platform tag support. manylinux2010 is the successor to manylinux1. It allows carefully compiled binary wheels to be installed on compatible Linux platforms. (`5008 <https://github.com/pypa/pip/issues/5008>`_) - Improve build isolation: handle ``.pth`` files, so namespace packages are correctly supported under Python 3.2 and earlier. (`5656 <https://github.com/pypa/pip/issues/5656>`_) - Include the package name in a freeze warning if the package is not installed. (`5943 <https://github.com/pypa/pip/issues/5943>`_) - Warn when dropping an ``--[extra-]index-url`` value that points to an existing local directory. (`5827 <https://github.com/pypa/pip/issues/5827>`_) - Prefix pip's ``--log`` file lines with their timestamp. (`6141 <https://github.com/pypa/pip/issues/6141>`_) Bug Fixes --------- - Avoid creating excessively long temporary paths when uninstalling packages. (`3055 <https://github.com/pypa/pip/issues/3055>`_) - Redact the password from the URL in various log messages. (`4746 <https://github.com/pypa/pip/issues/4746>`_, `6124 <https://github.com/pypa/pip/issues/6124>`_) - Avoid creating excessively long temporary paths when uninstalling packages. (`3055 <https://github.com/pypa/pip/issues/3055>`_) - Avoid printing a stack trace when given an invalid requirement. (`5147 <https://github.com/pypa/pip/issues/5147>`_) - Present 401 warning if username/password do not work for URL (`4833 <https://github.com/pypa/pip/issues/4833>`_) - Handle ``requests.exceptions.RetryError`` raised in ``PackageFinder`` that was causing pip to fail silently when some indexes were unreachable. (`5270 <https://github.com/pypa/pip/issues/5270>`_, `5483 <https://github.com/pypa/pip/issues/5483>`_) - Handle a broken stdout pipe more gracefully (e.g. when running ``pip list | head``). (`4170 <https://github.com/pypa/pip/issues/4170>`_) - Fix crash from setting ``PIP_NO_CACHE_DIR=yes``. (`5385 <https://github.com/pypa/pip/issues/5385>`_) - Fix crash from unparseable requirements when checking installed packages. (`5839 <https://github.com/pypa/pip/issues/5839>`_) - Fix content type detection if a directory named like an archive is used as a package source. (`5838 <https://github.com/pypa/pip/issues/5838>`_) - Fix listing of outdated packages that are not dependencies of installed packages in ``pip list --outdated --not-required`` (`5737 <https://github.com/pypa/pip/issues/5737>`_) - Fix sorting ``TypeError`` in ``move_wheel_files()`` when installing some packages. (`5868 <https://github.com/pypa/pip/issues/5868>`_) - Fix support for invoking pip using ``python src/pip ...``. (`5841 <https://github.com/pypa/pip/issues/5841>`_) - Greatly reduce memory usage when installing wheels containing large files. (`5848 <https://github.com/pypa/pip/issues/5848>`_) - Editable non-VCS installs now freeze as editable. (`5031 <https://github.com/pypa/pip/issues/5031>`_) - Editable Git installs without a remote now freeze as editable. (`4759 <https://github.com/pypa/pip/issues/4759>`_) - Canonicalize sdist file names so they can be matched to a canonicalized package name passed to ``pip install``. (`5870 <https://github.com/pypa/pip/issues/5870>`_) - Properly decode special characters in SVN URL credentials. (`5968 <https://github.com/pypa/pip/issues/5968>`_) - Make ``PIP_NO_CACHE_DIR`` disable the cache also for truthy values like ``"true"``, ``"yes"``, ``"1"``, etc. (`5735 <https://github.com/pypa/pip/issues/5735>`_) Vendored Libraries ------------------ - Include license text of vendored 3rd party libraries. (`5213 <https://github.com/pypa/pip/issues/5213>`_) - Update certifi to 2018.11.29 - Update colorama to 0.4.1 - Update distlib to 0.2.8 - Update idna to 2.8 - Update packaging to 19.0 - Update pep517 to 0.5.0 - Update pkg_resources to 40.6.3 (via setuptools) - Update pyparsing to 2.3.1 - Update pytoml to 0.1.20 - Update requests to 2.21.0 - Update six to 1.12.0 - Update urllib3 to 1.24.1 Improved Documentation ---------------------- - Include the Vendoring Policy in the documentation. (`5958 <https://github.com/pypa/pip/issues/5958>`_) - Add instructions for running pip from source to Development documentation. (`5949 <https://github.com/pypa/pip/issues/5949>`_) - Remove references to removed ``egg=<name>-<version>`` functionality (`5888 <https://github.com/pypa/pip/issues/5888>`_) - Fix omission of command name in HTML usage documentation (`5984 <https://github.com/pypa/pip/issues/5984>`_) ``` </details> <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pip - Changelog: https://pyup.io/changelogs/pip/ - Homepage: https://pip.pypa.io/ </details> ### Update [tox](https://pypi.org/project/tox) from **3.6.1** to **3.7.0**. *The bot wasn't able to find a changelog for this release. [Got an idea?](https://github.com/pyupio/changelogs/issues/new)* <details> <summary>Links</summary> - PyPI: https://pypi.org/project/tox - Docs: https://tox.readthedocs.org/ </details> ### Update [PyYAML](https://pypi.org/project/PyYAML) from **4.2b1** to **4.2b4**. *The bot wasn't able to find a changelog for this release. [Got an idea?](https://github.com/pyupio/changelogs/issues/new)* <details> <summary>Links</summary> - PyPI: https://pypi.org/project/pyyaml - Homepage: http://pyyaml.org/wiki/PyYAML </details>
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Environment
OS: Ubuntu 16.04 (nvidia/cuda:8.0-cudnn6-devel)
Python version: 3.6.5
Conda version:
conda 4.5.10
Pip version:
pip 18.0
Description
Pip install stopped working during docker build of a complex docker container (based on Kaggle/docker-python) and it cannot be repaired by simple methods such as reinstalling / downgrading with pip itself, with conda or a Miniconda script, unless you change the default installation location (/opt/conda) to an alternative folder when using Minconda script to re-install pip (effectively moving all subsequent libraries installs with pip to a separate location). Note that pip uninstall still works (and can be used to remove pip - apparently not effectively enough).
Expected behavior
pip install should be working even in these conditions, i.e. . pip install scipy should succeed regardless of the complexity of the installation.
How to Reproduce
I managed to make it reproducible by providing a functional but only partially completed docker container produced by docker build just before the error occured (I verified that it is reproducible on two different servers).
The bug can be reproduced by executing pip install in bash in this archived docker image that captures this bug (no login requried):
Possible causes
The last completed operation during build and hence the possible culprit was Jupyter Notebook (or Notebook Extensions) installation with conda (the only installer that makes Jupyter Notebook Extensions work in Jupyter Notebook - pip installation made earlier did not suffice). When I moved Jupyter (Notebook, Lab and Notebook Extensions) installation to the end of the build process (i.e. after all other libraries), the build completed and all libraries can be loaded (from a single standard location in /opt/conda). However, Jupyter section was once again the last one to succeed with pip install, and pip still gets broken, raising the same error (which can be even considered a feature not a bug as it helps maintain library / ML models reproducibility:). I also notice that the same error is raised by pip show and pipdeptree (e.g. !pipdeptree --reverse --packages xgboost) but not by pip freeze.
An intial workaround
A complex but universal workaround I found was to change the pip installation location into an alternative folder when using Miniconda script to re-install pip.
Dockerfile excerpt that repairs this issue and allows the build to succeed:
Output
The expected error message is:
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