Read the Docs build information Build id: 334037 Project: tiledb-inc-tiledb-py Version: release-0.6 Commit: b0591ca862d4e01476d0ff383f59d4fcbff96a87 Date: 2020-05-21T02:08:10.773384Z State: finished Success: False [rtd-command-info] start-time: 2020-05-21T02:08:12.779374Z, end-time: 2020-05-21T02:08:13.878775Z, duration: 1, exit-code: 0 git clone --no-single-branch --depth 50 https://github.com/TileDB-Inc/TileDB-Py.git . Cloning into '.'... [rtd-command-info] start-time: 2020-05-21T02:08:14.674845Z, end-time: 2020-05-21T02:08:14.878328Z, duration: 0, exit-code: 0 git checkout --force origin/release-0.6 Note: checking out 'origin/release-0.6'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by performing another checkout. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -b with the checkout command again. Example: git checkout -b HEAD is now at b0591ca Update Readthedocs configuration [rtd-command-info] start-time: 2020-05-21T02:08:14.989950Z, end-time: 2020-05-21T02:08:15.188857Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-05-21T02:08:16.568987Z, end-time: 2020-05-21T02:09:37.542952Z, duration: 80, exit-code: 0 conda env create --quiet --name release-0.6 --file doc/environment.yml Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [rtd-command-info] start-time: 2020-05-21T02:09:37.752345Z, end-time: 2020-05-21T02:10:02.177731Z, duration: 24, exit-code: 0 conda install --yes --quiet --name release-0.6 mock pillow sphinx sphinx_rtd_theme Collecting package metadata (current_repodata.json): ...working... done Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve. Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6 added / updated specs: - mock - pillow - sphinx - sphinx_rtd_theme The following packages will be downloaded: package | build ---------------------------|----------------- alabaster-0.7.12 | py37_0 18 KB babel-2.8.0 | py_0 5.3 MB ca-certificates-2020.1.1 | 0 125 KB certifi-2020.4.5.1 | py37_0 155 KB cffi-1.14.0 | py37h2e261b9_0 224 KB chardet-3.0.4 | py37_1003 174 KB cryptography-2.9.2 | py37h1ba5d50_0 552 KB docutils-0.16 | py37_0 668 KB freetype-2.9.1 | h8a8886c_1 550 KB idna-2.9 | py_1 49 KB imagesize-1.2.0 | py_0 10 KB jinja2-2.11.2 | py_0 103 KB jpeg-9b | h024ee3a_2 214 KB libpng-1.6.37 | hbc83047_0 278 KB libtiff-4.0.9 | he85c1e1_2 422 KB markupsafe-1.1.1 | py37h7b6447c_0 29 KB mock-4.0.2 | py_0 32 KB olefile-0.46 | py37_0 50 KB openssl-1.1.1g | h7b6447c_0 2.5 MB packaging-20.3 | py_0 36 KB pillow-5.4.1 | py37h34e0f95_0 569 KB pip-20.0.2 | py37_3 1.7 MB pycparser-2.20 | py_0 92 KB pygments-2.6.1 | py_0 654 KB pyopenssl-19.1.0 | py37_0 87 KB pyparsing-2.4.7 | py_0 65 KB pysocks-1.7.1 | py37_0 31 KB python-3.7.2 | h0371630_0 31.9 MB pytz-2020.1 | py_0 184 KB requests-2.23.0 | py37_0 92 KB setuptools-46.4.0 | py37_0 514 KB six-1.14.0 | py37_0 27 KB snowballstemmer-2.0.0 | py_0 62 KB sphinx-3.0.3 | py_0 1.1 MB sphinx_rtd_theme-0.4.3 | py_0 4.4 MB sphinxcontrib-applehelp-1.0.2| py_0 27 KB sphinxcontrib-devhelp-1.0.2| py_0 22 KB sphinxcontrib-htmlhelp-1.0.3| py_0 27 KB sphinxcontrib-jsmath-1.0.1 | py_0 9 KB sphinxcontrib-qthelp-1.0.3 | py_0 25 KB sphinxcontrib-serializinghtml-1.1.4| py_0 24 KB sqlite-3.26.0 | h7b6447c_0 973 KB urllib3-1.25.8 | py37_0 169 KB wheel-0.34.2 | py37_0 51 KB ------------------------------------------------------------ Total: 54.2 MB The following NEW packages will be INSTALLED: alabaster pkgs/main/linux-64::alabaster-0.7.12-py37_0 babel pkgs/main/noarch::babel-2.8.0-py_0 certifi pkgs/main/linux-64::certifi-2020.4.5.1-py37_0 cffi pkgs/main/linux-64::cffi-1.14.0-py37h2e261b9_0 chardet pkgs/main/linux-64::chardet-3.0.4-py37_1003 cryptography pkgs/main/linux-64::cryptography-2.9.2-py37h1ba5d50_0 docutils pkgs/main/linux-64::docutils-0.16-py37_0 freetype pkgs/main/linux-64::freetype-2.9.1-h8a8886c_1 idna pkgs/main/noarch::idna-2.9-py_1 imagesize pkgs/main/noarch::imagesize-1.2.0-py_0 jinja2 pkgs/main/noarch::jinja2-2.11.2-py_0 jpeg pkgs/main/linux-64::jpeg-9b-h024ee3a_2 libffi pkgs/main/linux-64::libffi-3.2.1-hd88cf55_4 libpng pkgs/main/linux-64::libpng-1.6.37-hbc83047_0 libtiff pkgs/main/linux-64::libtiff-4.0.9-he85c1e1_2 markupsafe pkgs/main/linux-64::markupsafe-1.1.1-py37h7b6447c_0 mock pkgs/main/noarch::mock-4.0.2-py_0 olefile pkgs/main/linux-64::olefile-0.46-py37_0 packaging pkgs/main/noarch::packaging-20.3-py_0 pillow pkgs/main/linux-64::pillow-5.4.1-py37h34e0f95_0 pip pkgs/main/linux-64::pip-20.0.2-py37_3 pycparser pkgs/main/noarch::pycparser-2.20-py_0 pygments pkgs/main/noarch::pygments-2.6.1-py_0 pyopenssl pkgs/main/linux-64::pyopenssl-19.1.0-py37_0 pyparsing pkgs/main/noarch::pyparsing-2.4.7-py_0 pysocks pkgs/main/linux-64::pysocks-1.7.1-py37_0 python pkgs/main/linux-64::python-3.7.2-h0371630_0 pytz pkgs/main/noarch::pytz-2020.1-py_0 readline pkgs/main/linux-64::readline-7.0-h7b6447c_5 requests pkgs/main/linux-64::requests-2.23.0-py37_0 setuptools pkgs/main/linux-64::setuptools-46.4.0-py37_0 six pkgs/main/linux-64::six-1.14.0-py37_0 snowballstemmer pkgs/main/noarch::snowballstemmer-2.0.0-py_0 sphinx pkgs/main/noarch::sphinx-3.0.3-py_0 sphinx_rtd_theme pkgs/main/noarch::sphinx_rtd_theme-0.4.3-py_0 sphinxcontrib-app~ pkgs/main/noarch::sphinxcontrib-applehelp-1.0.2-py_0 sphinxcontrib-dev~ pkgs/main/noarch::sphinxcontrib-devhelp-1.0.2-py_0 sphinxcontrib-htm~ pkgs/main/noarch::sphinxcontrib-htmlhelp-1.0.3-py_0 sphinxcontrib-jsm~ pkgs/main/noarch::sphinxcontrib-jsmath-1.0.1-py_0 sphinxcontrib-qth~ pkgs/main/noarch::sphinxcontrib-qthelp-1.0.3-py_0 sphinxcontrib-ser~ pkgs/main/noarch::sphinxcontrib-serializinghtml-1.1.4-py_0 sqlite pkgs/main/linux-64::sqlite-3.26.0-h7b6447c_0 urllib3 pkgs/main/linux-64::urllib3-1.25.8-py37_0 wheel pkgs/main/linux-64::wheel-0.34.2-py37_0 The following packages will be SUPERSEDED by a higher-priority channel: ca-certificates conda-forge::ca-certificates-2020.4.5~ --> pkgs/main::ca-certificates-2020.1.1-0 openssl conda-forge::openssl-1.1.1g-h516909a_0 --> pkgs/main::openssl-1.1.1g-h7b6447c_0 Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [rtd-command-info] start-time: 2020-05-21T02:10:02.655617Z, end-time: 2020-05-21T02:10:03.818516Z, duration: 1, exit-code: 0 /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/bin/python -m pip install -U --no-cache-dir recommonmark readthedocs-sphinx-ext Collecting recommonmark Downloading recommonmark-0.6.0-py2.py3-none-any.whl (10 kB) Collecting readthedocs-sphinx-ext Downloading readthedocs_sphinx_ext-1.0.3-py2.py3-none-any.whl (28 kB) Requirement already satisfied, skipping upgrade: docutils>=0.11 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from recommonmark) (0.16) Requirement already satisfied, skipping upgrade: sphinx>=1.3.1 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from recommonmark) (3.0.3) Collecting commonmark>=0.8.1 Downloading commonmark-0.9.1-py2.py3-none-any.whl (51 kB) Requirement already satisfied, skipping upgrade: Jinja2>=2.9 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from readthedocs-sphinx-ext) (2.11.2) Requirement already satisfied, skipping upgrade: requests in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from readthedocs-sphinx-ext) (2.23.0) Requirement already satisfied, skipping upgrade: sphinxcontrib-applehelp in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.0.2) Requirement already satisfied, skipping upgrade: sphinxcontrib-devhelp in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.0.2) Requirement already satisfied, skipping upgrade: alabaster<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (0.7.12) Requirement already satisfied, skipping upgrade: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.2.0) Requirement already satisfied, skipping upgrade: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (46.4.0.post20200518) Requirement already satisfied, skipping upgrade: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (2.0.0) Requirement already satisfied, skipping upgrade: sphinxcontrib-qthelp in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.0.3) Requirement already satisfied, skipping upgrade: sphinxcontrib-serializinghtml in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.1.4) Requirement already satisfied, skipping upgrade: sphinxcontrib-jsmath in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.0.1) Requirement already satisfied, skipping upgrade: sphinxcontrib-htmlhelp in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (1.0.3) Requirement already satisfied, skipping upgrade: Pygments>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (2.6.1) Requirement already satisfied, skipping upgrade: babel>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (2.8.0) Requirement already satisfied, skipping upgrade: packaging in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from sphinx>=1.3.1->recommonmark) (20.3) Requirement already satisfied, skipping upgrade: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from Jinja2>=2.9->readthedocs-sphinx-ext) (1.1.1) Requirement already satisfied, skipping upgrade: chardet<4,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from requests->readthedocs-sphinx-ext) (3.0.4) Requirement already satisfied, skipping upgrade: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from requests->readthedocs-sphinx-ext) (2020.4.5.1) Requirement already satisfied, skipping upgrade: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from requests->readthedocs-sphinx-ext) (1.25.8) Requirement already satisfied, skipping upgrade: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from requests->readthedocs-sphinx-ext) (2.9) Requirement already satisfied, skipping upgrade: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from babel>=1.3->sphinx>=1.3.1->recommonmark) (2020.1) Requirement already satisfied, skipping upgrade: pyparsing>=2.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from packaging->sphinx>=1.3.1->recommonmark) (2.4.7) Requirement already satisfied, skipping upgrade: six in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/lib/python3.7/site-packages (from packaging->sphinx>=1.3.1->recommonmark) (1.14.0) Installing collected packages: commonmark, recommonmark, readthedocs-sphinx-ext Successfully installed commonmark-0.9.1 readthedocs-sphinx-ext-1.0.3 recommonmark-0.6.0 [rtd-command-info] start-time: 2020-05-21T02:10:03.987514Z, end-time: 2020-05-21T02:10:24.517418Z, duration: 20, exit-code: 1 /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/bin/python ./setup.py install --force setup.py sys.argv is: ['./setup.py', 'install', '--force'] TILEDB_PATH from env: '' libtiledb_exists checking 'library_dirs': [] libtiledb_exists found: 'libtiledb.so' running install running bdist_egg ext_modules: [, ] tiledb_ext: core_ext: tiledb_ext.library_dirs: [] libtiledb_exists checking 'library_dirs': [] libtiledb_exists found: 'libtiledb.so' prefix_dir: do_install: False running egg_info creating tiledb.egg-info writing tiledb.egg-info/PKG-INFO writing dependency_links to tiledb.egg-info/dependency_links.txt writing requirements to tiledb.egg-info/requires.txt writing top-level names to tiledb.egg-info/top_level.txt writing manifest file 'tiledb.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/setuptools_scm-3.5.0-py3.7.egg/setuptools_scm/git.py:68: UserWarning: "/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6" is shallow and may cause errors warnings.warn('"{}" is shallow and may cause errors'.format(wd.path)) warning: no files found matching 'README.rst' writing manifest file 'tiledb.egg-info/SOURCES.txt' installing library code to build/bdist.linux-x86_64/egg running install_lib running build_py creating build creating build/lib.linux-x86_64-3.7 creating build/lib.linux-x86_64-3.7/tiledb copying tiledb/dataframe_.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/highlevel.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/__init__.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/version.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/array.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/metadata.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/multirange_indexing.py -> build/lib.linux-x86_64-3.7/tiledb creating build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_metadata.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_pandas_dataframe.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_dask.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_domain_index.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_core.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/__init__.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/all.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_multi_index.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_libtiledb.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_util.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/check_csv_dir.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/test_examples.py -> build/lib.linux-x86_64-3.7/tiledb/tests copying tiledb/tests/common.py -> build/lib.linux-x86_64-3.7/tiledb/tests running build_ext ext_modules: [, ] tiledb_ext: core_ext: tiledb_ext.library_dirs: [] libtiledb_exists checking 'library_dirs': [] libtiledb_exists found: 'libtiledb.so' prefix_dir: do_install: False cythoning tiledb/libtiledb.pyx to tiledb/libtiledb.cpp building 'tiledb.libtiledb' extension creating build/temp.linux-x86_64-3.7 creating build/temp.linux-x86_64-3.7/tiledb gcc -pthread -B /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/numpy-1.18.4-py3.7-linux-x86_64.egg/numpy/core/include -I/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/conda/release-0.6/include/python3.7m -c tiledb/libtiledb.cpp -o build/temp.linux-x86_64-3.7/tiledb/libtiledb.o -std=c++11 -Wno-deprecated-declarations cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ In file included from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/numpy-1.18.4-py3.7-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1832:0, from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/numpy-1.18.4-py3.7-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:12, from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/numpy-1.18.4-py3.7-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4, from tiledb/libtiledb.cpp:622: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/numpy-1.18.4-py3.7-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ tiledb/libtiledb.cpp:624:10: fatal error: tiledb/tiledb.h: No such file or directory #include "tiledb/tiledb.h" ^~~~~~~~~~~~~~~~~ compilation terminated. /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/.eggs/Cython-0.29.19-py3.7-linux-x86_64.egg/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/release-0.6/tiledb/libtiledb.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: tiledb/libtiledb.pyx:4808:0: Overriding cdef method with def method. error: command 'gcc' failed with exit status 1