ERROR: Failed building wheel for lxml #8
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Hi thanks for catching this!. The problem seems to be that the newest version of Python is missing a header file required by lxml. Since I don't work at MfN-Berlin anymore, I corrected this here: https://github.com/aot29/RDF-to-SemanticWiki cheers |
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Hi.
I am trying to configure the RDF-to-SemanticWiki and When i use
docker-compose up -duntil #7 it works fine but then it gives thisERROR: Failed building wheel for lxml. Below is the error. Also, i did upgrade the pip but still the same error.`#8 [ontology 4/5] RUN pip install --no-cache-dir -r requirements.txt
#8 2.765 Collecting atomicwrites==1.3.0 (from -r requirements.txt (line 1))
#8 2.917 Downloading atomicwrites-1.3.0-py2.py3-none-any.whl (5.9 kB)
#8 2.969 Collecting attrs==19.1.0 (from -r requirements.txt (line 2))
#8 2.981 Downloading attrs-19.1.0-py2.py3-none-any.whl (35 kB)
#8 3.025 Collecting certifi==2019.6.16 (from -r requirements.txt (line 3))
#8 3.040 Downloading certifi-2019.6.16-py2.py3-none-any.whl (157 kB)
#8 3.067 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 157.1/157.1 kB 9.1 MB/s eta 0:00:00
#8 3.122 Collecting chardet==3.0.4 (from -r requirements.txt (line 4))
#8 3.134 Downloading chardet-3.0.4-py2.py3-none-any.whl (133 kB)
#8 3.152 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 133.4/133.4 kB 394.7 MB/s eta 0:00:00
#8 3.183 Collecting colorama==0.4.1 (from -r requirements.txt (line 5))
#8 3.220 Downloading colorama-0.4.1-py2.py3-none-any.whl (15 kB)
#8 3.250 Collecting configparser==3.7.4 (from -r requirements.txt (line 6))
#8 3.263 Downloading configparser-3.7.4-py2.py3-none-any.whl (22 kB)
#8 3.892 Collecting coverage==4.4.1 (from -r requirements.txt (line 7))
#8 3.909 Downloading coverage-4.4.1.tar.gz (369 kB)
#8 3.945 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 369.8/369.8 kB 13.6 MB/s eta 0:00:00
#8 4.071 Preparing metadata (setup.py): started
#8 4.538 Preparing metadata (setup.py): finished with status 'done'
#8 4.598 Collecting green==2.16.1 (from -r requirements.txt (line 8))
#8 4.617 Downloading green-2.16.1.tar.gz (66 kB)
#8 4.640 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 66.2/66.2 kB 7.5 MB/s eta 0:00:00
#8 4.663 Preparing metadata (setup.py): started
#8 4.929 Preparing metadata (setup.py): finished with status 'done'
#8 4.955 Collecting idna==2.8 (from -r requirements.txt (line 9))
#8 4.974 Downloading idna-2.8-py2.py3-none-any.whl (58 kB)
#8 4.977 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 58.6/58.6 kB 198.3 MB/s eta 0:00:00
#8 5.062 Collecting importlib-metadata==0.19 (from -r requirements.txt (line 10))
#8 5.080 Downloading importlib_metadata-0.19-py2.py3-none-any.whl (26 kB)
#8 5.376 Collecting lxml==4.4.0 (from -r requirements.txt (line 11))
#8 5.393 Downloading lxml-4.4.0.tar.gz (4.5 MB)
#8 5.843 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.5/4.5 MB 10.1 MB/s eta 0:00:00
#8 6.446 Preparing metadata (setup.py): started
#8 6.944 Preparing metadata (setup.py): finished with status 'done'
#8 7.069 Collecting MarkupSafe==1.1.1 (from -r requirements.txt (line 12))
#8 7.085 Downloading MarkupSafe-1.1.1.tar.gz (19 kB)
#8 7.108 Preparing metadata (setup.py): started
#8 7.293 Preparing metadata (setup.py): finished with status 'done'
#8 7.354 Collecting more-itertools==7.2.0 (from -r requirements.txt (line 13))
#8 7.371 Downloading more_itertools-7.2.0-py3-none-any.whl (57 kB)
#8 7.433 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 57.3/57.3 kB 937.3 kB/s eta 0:00:00
#8 7.495 Collecting packaging==19.1 (from -r requirements.txt (line 14))
#8 7.509 Downloading packaging-19.1-py2.py3-none-any.whl (30 kB)
#8 7.571 Collecting pluggy==0.12.0 (from -r requirements.txt (line 15))
#8 7.623 Downloading pluggy-0.12.0-py2.py3-none-any.whl (17 kB)
#8 7.705 Collecting py==1.8.0 (from -r requirements.txt (line 16))
#8 7.739 Downloading py-1.8.0-py2.py3-none-any.whl (83 kB)
#8 7.751 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 83.7/83.7 kB 167.1 MB/s eta 0:00:00
#8 7.813 Collecting pyparsing==2.4.2 (from -r requirements.txt (line 17))
#8 7.840 Downloading pyparsing-2.4.2-py2.py3-none-any.whl (65 kB)
#8 7.847 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 65.5/65.5 kB 17.2 MB/s eta 0:00:00
#8 7.936 Collecting pytest==5.0.1 (from -r requirements.txt (line 18))
#8 7.954 Downloading pytest-5.0.1-py3-none-any.whl (221 kB)
#8 7.971 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 221.8/221.8 kB 16.3 MB/s eta 0:00:00
#8 8.011 Collecting pytest-cov==2.7.1 (from -r requirements.txt (line 19))
#8 8.022 Downloading pytest_cov-2.7.1-py2.py3-none-any.whl (17 kB)
#8 8.095 Collecting requests==2.22.0 (from -r requirements.txt (line 20))
#8 8.113 Downloading requests-2.22.0-py2.py3-none-any.whl (57 kB)
#8 8.116 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 58.0/58.0 kB 312.5 MB/s eta 0:00:00
#8 8.146 Collecting six==1.12.0 (from -r requirements.txt (line 21))
#8 8.161 Downloading six-1.12.0-py2.py3-none-any.whl (10 kB)
#8 8.195 Collecting Unidecode==1.1.1 (from -r requirements.txt (line 22))
#8 8.231 Downloading Unidecode-1.1.1-py2.py3-none-any.whl (238 kB)
#8 8.239 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 238.3/238.3 kB 108.2 MB/s eta 0:00:00
#8 8.300 Collecting urllib3==1.24.3 (from -r requirements.txt (line 23))
#8 8.341 Downloading urllib3-1.24.3-py2.py3-none-any.whl (118 kB)
#8 8.361 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 118.8/118.8 kB 403.3 MB/s eta 0:00:00
#8 8.409 Collecting wcwidth==0.1.7 (from -r requirements.txt (line 24))
#8 8.423 Downloading wcwidth-0.1.7-py2.py3-none-any.whl (21 kB)
#8 8.473 Collecting zipp==0.5.2 (from -r requirements.txt (line 25))
#8 8.501 Downloading zipp-0.5.2-py2.py3-none-any.whl (3.8 kB)
#8 8.845 Building wheels for collected packages: coverage, green, lxml, MarkupSafe
#8 8.849 Building wheel for coverage (setup.py): started
#8 9.986 Building wheel for coverage (setup.py): finished with status 'done'
#8 9.989 Created wheel for coverage: filename=coverage-4.4.1-py3-none-any.whl size=166618 sha256=6410c5f6a14bd7c9ba1c8532d78c07b9a42954c4ba62d07c35d22dcf1e03851f
#8 9.990 Stored in directory: /tmp/pip-ephem-wheel-cache-hesm3jr4/wheels/53/ca/3d/bb1d63ac88d345a8d8fbe5f3b50f0cc85ec0d55ec3e861d422
#8 9.997 Building wheel for green (setup.py): started
#8 10.35 Building wheel for green (setup.py): finished with status 'done'
#8 10.35 Created wheel for green: filename=green-2.16.1-py3-none-any.whl size=69351 sha256=5437c70b67071889a16e6d8d5ba82b3803009a9f26933edfcd8721bf3bda2645
#8 10.35 Stored in directory: /tmp/pip-ephem-wheel-cache-hesm3jr4/wheels/61/67/57/ef7f834f1ebbb83a56d28464eea87e2a33b22462053775fa0e
#8 10.36 Building wheel for lxml (setup.py): started
#8 11.24 Building wheel for lxml (setup.py): finished with status 'error'
#8 11.26 error: subprocess-exited-with-error
#8 11.26
#8 11.26 × python setup.py bdist_wheel did not run successfully.
#8 11.26 │ exit code: 1
#8 11.26 ╰─> [88 lines of output]
#8 11.26 Building lxml version 4.4.0.
#8 11.26 /tmp/pip-install-4ewc_aj4/lxml_6cb829a2acf040e595ce0229a5c39c04/setup.py:61: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
#8 11.26 import pkg_resources
#8 11.26 Building without Cython.
#8 11.26 Using build configuration of libxslt 1.1.35
#8 11.26 running bdist_wheel
#8 11.26 running build
#8 11.26 running build_py
#8 11.26 creating build
#8 11.26 creating build/lib.linux-x86_64-cpython-312
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/pyclasslookup.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/usedoctest.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/sax.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/cssselect.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/init.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/_elementpath.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/doctestcompare.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/builder.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/ElementInclude.py -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/init.py -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/_setmixin.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/usedoctest.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/diff.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/defs.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/html5parser.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/ElementSoup.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/init.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/soupparser.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/builder.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/clean.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/formfill.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/_html5builder.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 copying src/lxml/html/_diffcommand.py -> build/lib.linux-x86_64-cpython-312/lxml/html
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/isoschematron
#8 11.26 copying src/lxml/isoschematron/init.py -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron
#8 11.26 copying src/lxml/etree.h -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/etree_api.h -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/lxml.etree.h -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/lxml.etree_api.h -> build/lib.linux-x86_64-cpython-312/lxml
#8 11.26 copying src/lxml/includes/xmlparser.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/relaxng.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/xmlerror.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/xslt.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/tree.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/dtdvalid.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/xpath.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/etreepublic.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/uri.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/schematron.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/config.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/xmlschema.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/init.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/htmlparser.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/c14n.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/xinclude.pxd -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/etree_defs.h -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 copying src/lxml/includes/lxml-version.h -> build/lib.linux-x86_64-cpython-312/lxml/includes
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/rng
#8 11.26 copying src/lxml/isoschematron/resources/rng/iso-schematron.rng -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/rng
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl
#8 11.26 copying src/lxml/isoschematron/resources/xsl/RNG2Schtrn.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl
#8 11.26 copying src/lxml/isoschematron/resources/xsl/XSD2Schtrn.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl
#8 11.26 creating build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_schematron_skeleton_for_xslt1.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_dsdl_include.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_svrl_for_xslt1.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_schematron_message.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/iso_abstract_expand.xsl -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 copying src/lxml/isoschematron/resources/xsl/iso-schematron-xslt1/readme.txt -> build/lib.linux-x86_64-cpython-312/lxml/isoschematron/resources/xsl/iso-schematron-xslt1
#8 11.26 running build_ext
#8 11.26 building 'lxml.etree' extension
#8 11.26 creating build/temp.linux-x86_64-cpython-312
#8 11.26 creating build/temp.linux-x86_64-cpython-312/src
#8 11.26 creating build/temp.linux-x86_64-cpython-312/src/lxml
#8 11.26 gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -fPIC -DCYTHON_CLINE_IN_TRACEBACK=0 -I/usr/include/libxml2 -Isrc -Isrc/lxml/includes -I/usr/local/include/python3.12 -c src/lxml/etree.c -o build/temp.linux-x86_64-cpython-312/src/lxml/etree.o -w
#8 11.26 src/lxml/etree.c:289:12: fatal error: longintrepr.h: No such file or directory
#8 11.26 289 | #include "longintrepr.h"
#8 11.26 | ^~~~~~~~~~~~~~~
#8 11.26 compilation terminated.
#8 11.26 Compile failed: command '/usr/bin/gcc' failed with exit code 1
#8 11.26 creating tmp
#8 11.26 cc -I/usr/include/libxml2 -I/usr/include/libxml2 -c /tmp/xmlXPathInitwz6p2wa3.c -o tmp/xmlXPathInitwz6p2wa3.o
#8 11.26 cc tmp/xmlXPathInitwz6p2wa3.o -lxml2 -o a.out
#8 11.26 error: command '/usr/bin/gcc' failed with exit code 1
#8 11.26 [end of output]
#8 11.26
#8 11.26 note: This error originates from a subprocess, and is likely not a problem with pip.
#8 11.26 Running setup.py clean for lxml
#8 11.26 ERROR: Failed building wheel for lxml
#8 11.46 Building wheel for MarkupSafe (setup.py): started
#8 11.99 Building wheel for MarkupSafe (setup.py): finished with status 'done'
#8 12.00 Created wheel for MarkupSafe: filename=MarkupSafe-1.1.1-cp312-cp312-linux_x86_64.whl size=30292 sha256=8687e6d9ddd0b3a61aa10daf7e1e89b2145e2be36093572ac607d6684a252a16
#8 12.00 Stored in directory: /tmp/pip-ephem-wheel-cache-hesm3jr4/wheels/ff/6d/06/f08a8fbf292f9c43851e9d71174d98d1262f11ddaeb5dbe290
#8 12.02 Successfully built coverage green MarkupSafe
#8 12.02 Failed to build lxml
#8 12.03 ERROR: Could not build wheels for lxml, which is required to install pyproject.toml-based projects
#8 12.25
#8 12.25 [notice] A new release of pip is available: 23.2.1 -> 23.3.1
#8 12.25 [notice] To update, run: pip install --upgrade pip
#8 ERROR: process "/bin/sh -c pip install --no-cache-dir -r requirements.txt" did not complete successfully: exit code: 1
failed to solve: process "/bin/sh -c pip install --no-cache-dir -r requirements.txt" did not complete successfully: exit code: 1
`
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