Subject: [core-updates] python-pyyaml fails on sanity-check
From: John Kehayias <[email-masked]>
To: "[email-masked]" <[email-masked]>
Date: Fri, 09 Jul 2021 03:55:30 +0000
List-Id: <debbugs-submit.debbugs.gnu.org>

Perhaps due to recent addition/changes for python sanity-check?

Here is the relevant portion of the log from running ./pre-inst-env guix build python-pyyaml on core-updates:

warning: build_py: byte-compiling is disabled, skipping.

running build_ext
building 'yaml._yaml' extension
creating build/temp.linux-x86_64-3.9
creating build/temp.linux-x86_64-3.9/yaml
gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fno-semantic-interposition -fPIC -I/gnu/store/4nrih35yjsz2kwhr4pwxnkdzjmkgxxfq-python-3.9.5/include/python3.9 -c yaml/_yaml.c -o build/temp.linux-x86_64-3.9/yaml/_yaml.o
gcc: error: yaml/_yaml.c: No such file or directory
gcc: fatal error: no input files
compilation terminated.
Error compiling module, falling back to pure Python
phase `build' succeeded after 0.3 seconds
starting phase `install'
running "python setup.py" with command "install" and parameters ("--prefix=/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1" "--no-compile" "--single-version-externally-managed" "--root=/")
running install
running build
running build_py
warning: build_py: byte-compiling is disabled, skipping.

running build_ext
building 'yaml._yaml' extension
gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fno-semantic-interposition -fPIC -I/gnu/store/4nrih35yjsz2kwhr4pwxnkdzjmkgxxfq-python-3.9.5/include/python3.9 -c yaml/_yaml.c -o build/temp.linux-x86_64-3.9/yaml/_yaml.o
gcc: error: yaml/_yaml.c: No such file or directory
gcc: fatal error: no input files
compilation terminated.
Error compiling module, falling back to pure Python
running install_lib
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/_yaml
copying build/lib.linux-x86_64-3.9/_yaml/__init__.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/_yaml
creating /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/__init__.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/composer.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/constructor.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/cyaml.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/dumper.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/emitter.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/error.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/events.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/loader.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/nodes.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/parser.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/reader.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/representer.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/resolver.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/scanner.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/serializer.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
copying build/lib.linux-x86_64-3.9/yaml/tokens.py -> /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml
warning: install_lib: byte-compiling is disabled, skipping.

running install_egg_info
running egg_info
writing lib3/PyYAML.egg-info/PKG-INFO
writing dependency_links to lib3/PyYAML.egg-info/dependency_links.txt
writing top-level names to lib3/PyYAML.egg-info/top_level.txt
warning: the 'license_file' option is deprecated, use 'license_files' instead
adding license file 'LICENSE' (matched pattern 'LICENSE')
reading manifest file 'lib3/PyYAML.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
writing manifest file 'lib3/PyYAML.egg-info/SOURCES.txt'
Copying lib3/PyYAML.egg-info to /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/PyYAML-5.4.1-py3.9.egg-info
running install_scripts
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/PyYAML-5.4.1-py3.9.egg-info'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/_yaml'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/_yaml/__init__.py'...
Listing '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/__init__.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/composer.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/constructor.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/cyaml.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/dumper.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/emitter.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/error.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/events.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/loader.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/nodes.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/parser.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/reader.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/representer.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/resolver.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/scanner.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/serializer.py'...
Compiling '/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/yaml/tokens.py'...
phase `install' succeeded after 0.5 seconds
starting phase `add-install-to-pythonpath'
phase `add-install-to-pythonpath' succeeded after 0.0 seconds
starting phase `add-install-to-path'
phase `add-install-to-path' succeeded after 0.0 seconds
starting phase `wrap'
find-files: /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/bin: No such file or directory
find-files: /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/sbin: No such file or directory
phase `wrap' succeeded after 0.0 seconds
starting phase `check'
running "python setup.py" with command "test" and parameters ()
running test
running build_py
warning: build_py: byte-compiling is disabled, skipping.

running build_ext
building 'yaml._yaml' extension
gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fno-semantic-interposition -fPIC -I/gnu/store/4nrih35yjsz2kwhr4pwxnkdzjmkgxxfq-python-3.9.5/include/python3.9 -c yaml/_yaml.c -o build/temp.linux-x86_64-3.9/yaml/_yaml.o
gcc: error: yaml/_yaml.c: No such file or directory
gcc: fatal error: no input files
compilation terminated.
Error compiling module, falling back to pure Python
........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
===========================================================================
TESTS: 1288
phase `check' succeeded after 4.3 seconds
starting phase `sanity-check'
validating 'PyYAML' /gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages
...checking requirements: OK
...trying to load module _yaml: ERROR:
Traceback (most recent call last):
  File "/gnu/store/slim8x2ppjhici2iiabmyvg9lxyikiwy-sanity-check.py", line 69, in <module>
    importlib.import_module(name)
  File "/gnu/store/4nrih35yjsz2kwhr4pwxnkdzjmkgxxfq-python-3.9.5/lib/python3.9/importlib/__init__.py", line 127, in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
  File "<frozen importlib._bootstrap>", line 1030, in _gcd_import
  File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
  File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
  File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 855, in exec_module
  File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
  File "/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages/_yaml/__init__.py", line 14, in <module>
    raise exc("No module named '_yaml'")
ModuleNotFoundError: No module named '_yaml'
...trying to load module yaml: OK
error: in phase 'sanity-check': uncaught exception:
%exception #<&invoke-error program: "python" arguments: ("/gnu/store/slim8x2ppjhici2iiabmyvg9lxyikiwy-sanity-check.py" "/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages") exit-status: 1 term-signal: #f stop-signal: #f>
phase `sanity-check' failed after 0.2 seconds
command "python" "/gnu/store/slim8x2ppjhici2iiabmyvg9lxyikiwy-sanity-check.py" "/gnu/store/i9aqd2hcrfc68ykd24nnjw1nzrdyazrs-python-pyyaml-5.4.1/lib/python3.9/site-packages" failed with status 1
builder for `/gnu/store/m9vvvh5qpkrcd0hra3dpri1yqns9m36w-python-pyyaml-5.4.1.drv' failed with exit code 1
build of /gnu/store/m9vvvh5qpkrcd0hra3dpri1yqns9m36w-python-pyyaml-5.4.1.drv failed
View build log at '/var/log/guix/drvs/m9/vvvh5qpkrcd0hra3dpri1yqns9m36w-python-pyyaml-5.4.1.drv.bz2'.
guix build: error: build of `/gnu/store/m9vvvh5qpkrcd0hra3dpri1yqns9m36w-python-pyyaml-5.4.1.drv' failed