Read the Docs build information Build id: 274405 Project: tiledb-inc-tiledb-py Version: latest Commit: 28cbaa98020ea054daf123285148a0921c86c480 Date: 2020-01-08T20:46:24.610843Z State: finished Success: True [rtd-command-info] start-time: 2020-01-08T20:50:58.813294Z, end-time: 2020-01-08T20:50:59.661052Z, duration: 0, 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: 2020-01-08T20:51:00.026024Z, end-time: 2020-01-08T20:51:00.041841Z, duration: 0, exit-code: 0 git checkout --force origin/dev Note: checking out 'origin/dev'. 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 28cbaa9 Bump Dockerfile target versions [rtd-command-info] start-time: 2020-01-08T20:51:00.174788Z, end-time: 2020-01-08T20:51:00.183120Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-01-08T20:51:01.211925Z, end-time: 2020-01-08T20:51:05.354456Z, duration: 4, exit-code: 0 python3.7 -mvirtualenv --no-site-packages --no-download Using base prefix '/home/docs/.pyenv/versions/3.7.3' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin/python3.7 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2020-01-08T20:51:05.458574Z, end-time: 2020-01-08T20:51:07.878069Z, duration: 2, exit-code: 0 python -m pip install --upgrade --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/.cache/pip pip Collecting pip Downloading https://files.pythonhosted.org/packages/00/b6/9cfa56b4081ad13874b0c6f96af8ce16cfbc1cb06bedf8e9164ce5551ec1/pip-19.3.1-py2.py3-none-any.whl (1.4MB) Installing collected packages: pip Found existing installation: pip 19.1.1 Uninstalling pip-19.1.1: Successfully uninstalled pip-19.1.1 Successfully installed pip-19.3.1 [rtd-command-info] start-time: 2020-01-08T20:51:08.196228Z, end-time: 2020-01-08T20:51:21.713489Z, duration: 13, exit-code: 0 python -m pip install --upgrade --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/.cache/pip Pygments==2.3.1 setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 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https://files.pythonhosted.org/packages/14/2c/cd551d81dbe15200be1cf41cd03869a46fe7226e7450af7a6545bfc474c9/idna-2.8-py2.py3-none-any.whl (58kB) Collecting pyparsing>=2.0.2 Downloading https://files.pythonhosted.org/packages/5d/bc/1e58593167fade7b544bfe9502a26dc860940a79ab306e651e7f13be68c2/pyparsing-2.4.6-py2.py3-none-any.whl (67kB) Building wheels for collected packages: mock, future Building wheel for mock (setup.py): started Building wheel for mock (setup.py): finished with status 'done' Created wheel for mock: filename=mock-1.0.1-cp37-none-any.whl size=23754 sha256=17b98c6f1089e6234768131a04daa91c585d219440af5312dd5f26f71630a35c Stored in directory: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/.cache/pip/wheels/7e/72/92/744b532c779242b57aab4bcba80c312b30c069bbd60025e7e6 Building wheel for future (setup.py): started Building wheel for future (setup.py): finished with status 'done' Created wheel for future: filename=future-0.18.2-cp37-none-any.whl size=491057 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sphinxcontrib-websupport-1.1.2 urllib3-1.25.7 [rtd-command-info] start-time: 2020-01-08T20:51:21.802781Z, end-time: 2020-01-08T20:51:32.751006Z, duration: 10, exit-code: 0 python -m pip install --exists-action=w --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/.cache/pip -r requirements.txt Collecting cmake>=3.11.0 Downloading https://files.pythonhosted.org/packages/ff/34/0a311fedffcc7a153bbc0390ef4c378dbc7f09f9865247137f82d62f8e7a/cmake-3.15.3-py3-none-manylinux2010_x86_64.whl (16.5MB) Collecting cython>=0.27.3 Downloading https://files.pythonhosted.org/packages/d8/58/2deb24de3c10cc4c0f09639b46f4f4b50059f0fdc785128a57dd9fdce026/Cython-0.29.14-cp37-cp37m-manylinux1_x86_64.whl (2.1MB) Collecting numpy==1.16.* Downloading https://files.pythonhosted.org/packages/17/06/337132f52ae41fca603473f44f4ea100eb030e096da0ea38563a74f63872/numpy-1.16.6-cp37-cp37m-manylinux1_x86_64.whl (17.3MB) Requirement already satisfied: setuptools>=18.0.1 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages (from -r requirements.txt (line 4)) (41.0.1) Collecting setuptools-scm>=1.5.4 Downloading https://files.pythonhosted.org/packages/1d/70/97966deebaeeda0b81d3cd63ba9f8ec929b838871ed17476de9d8159db3e/setuptools_scm-3.3.3-py2.py3-none-any.whl Requirement already satisfied: wheel>=0.30 in /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages (from -r requirements.txt (line 6)) (0.33.4) Collecting psutil Downloading https://files.pythonhosted.org/packages/73/93/4f8213fbe66fc20cb904f35e6e04e20b47b85bee39845cc66a0bcf5ccdcb/psutil-5.6.7.tar.gz (448kB) Building wheels for collected packages: psutil Building wheel for psutil (setup.py): started Building wheel for psutil (setup.py): finished with status 'done' Created wheel for psutil: filename=psutil-5.6.7-cp37-cp37m-linux_x86_64.whl size=277346 sha256=aec2673efc55db8fb323e2cc6c8f34d31d1973fb78dac4250e17bc1915e4d224 Stored in directory: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/.cache/pip/wheels/52/41/b0/bf50409fe2b1d3b79afa3eed71b54b3e30fe5b695db2c7ba2e Successfully built psutil Installing collected packages: cmake, cython, numpy, setuptools-scm, psutil Successfully installed cmake-3.15.3 cython-0.29.14 numpy-1.16.6 psutil-5.6.7 setuptools-scm-3.3.3 [rtd-command-info] start-time: 2020-01-08T20:51:33.533352Z, end-time: 2020-01-08T21:03:58.588884Z, duration: 745, exit-code: 0 python ./setup.py install --force libtiledb_exists checking 'library_dirs': [] libtiledb_exists found: 'None' running install running bdist_egg GNU Make 4.1 Built for x86_64-pc-linux-gnu Copyright (C) 1988-2014 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. -- The C compiler identification is GNU 7.4.0 -- The CXX compiler identification is GNU 7.4.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Starting TileDB superbuild. -- Found Bzip2: /usr/lib/x86_64-linux-gnu/libbz2.so -- Could NOT find LZ4 (missing: LZ4_LIBRARIES LZ4_INCLUDE_DIR) -- Adding LZ4 as an external project -- Could NOT find Spdlog (missing: SPDLOG_INCLUDE_DIR) -- Adding Spdlog as an external project -- Found Zlib: /usr/lib/x86_64-linux-gnu/libz.so -- Could NOT find Zstd (missing: ZSTD_LIBRARIES ZSTD_INCLUDE_DIR) -- Adding Zstd as an external project -- Found OpenSSL: /usr/lib/x86_64-linux-gnu/libssl.so -- OpenSSL crypto: /usr/lib/x86_64-linux-gnu/libcrypto.so -- root: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install;/usr/local/opt/openssl -- Could NOT find CURL (missing: CURL_LIBRARY CURL_INCLUDE_DIR) -- Could NOT find Curl (missing: CURL_LIBRARIES CURL_INCLUDE_DIR) -- Adding Curl as an external project CMake Warning at cmake/Modules/FindCurl_EP.cmake:105 (message): TileDB FindOpenSSL_EP did not set TILEDB_OPENSSL_DIR. Falling back to autotools detection. Call Stack (most recent call first): cmake/TileDB-Superbuild.cmake:87 (include) CMakeLists.txt:146 (include) -- Could NOT find AWSSDK -- Adding AWSSDK as an external project -- Could NOT find TBB (missing: TBB_LIBRARIES TBB_INCLUDE_DIR) -- Adding TBB as an external project -- Not found clang-tidy -- Not found clang-format -- Found Doxygen: /usr/bin/doxygen (found version "1.8.13") found components: doxygen dot -- Install prefix is /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist -- Configuring done -- Generating done -- Build files have been written to: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build Scanning dependencies of target ep_lz4 Scanning dependencies of target ep_spdlog [ 1%] Creating directories for 'ep_lz4' [ 3%] Creating directories for 'ep_spdlog' [ 5%] Performing download step (download, verify and extract) for 'ep_lz4' [ 7%] Performing download step (download, verify and extract) for 'ep_spdlog' -- ep_spdlog download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_spdlog-stamp/ep_spdlog-download-*.log [ 8%] No patch step for 'ep_spdlog' [ 10%] No update step for 'ep_spdlog' [ 12%] No configure step for 'ep_spdlog' [ 14%] No build step for 'ep_spdlog' [ 16%] No install step for 'ep_spdlog' [ 17%] Completed 'ep_spdlog' [ 17%] Built target ep_spdlog Scanning dependencies of target ep_zstd [ 19%] Creating directories for 'ep_zstd' [ 21%] Performing download step (download, verify and extract) for 'ep_zstd' -- ep_lz4 download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_lz4-stamp/ep_lz4-download-*.log [ 23%] No patch step for 'ep_lz4' [ 25%] No update step for 'ep_lz4' [ 26%] Performing configure step for 'ep_lz4' -- ep_zstd download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_zstd-stamp/ep_zstd-download-*.log [ 28%] No patch step for 'ep_zstd' [ 30%] No update step for 'ep_zstd' [ 32%] Performing configure step for 'ep_zstd' -- ep_lz4 configure command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_lz4-stamp/ep_lz4-configure-*.log [ 33%] Performing build step for 'ep_lz4' -- ep_zstd configure command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_zstd-stamp/ep_zstd-configure-*.log [ 35%] Performing build step for 'ep_zstd' -- ep_lz4 build command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_lz4-stamp/ep_lz4-build-*.log [ 37%] Performing install step for 'ep_lz4' -- ep_lz4 install command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_lz4-stamp/ep_lz4-install-*.log [ 39%] Completed 'ep_lz4' [ 39%] Built target ep_lz4 Scanning dependencies of target ep_tbb [ 41%] Creating directories for 'ep_tbb' [ 42%] Performing download step (download, verify and extract) for 'ep_tbb' -- ep_tbb download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_tbb-stamp/ep_tbb-download-*.log [ 44%] No patch step for 'ep_tbb' [ 46%] No update step for 'ep_tbb' [ 48%] No configure step for 'ep_tbb' [ 50%] No build step for 'ep_tbb' [ 51%] No install step for 'ep_tbb' [ 53%] Completed 'ep_tbb' [ 53%] Built target ep_tbb Scanning dependencies of target ep_curl [ 55%] Creating directories for 'ep_curl' [ 57%] Performing download step (download, verify and extract) for 'ep_curl' -- ep_curl download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_curl-stamp/ep_curl-download-*.log [ 58%] No patch step for 'ep_curl' [ 60%] No update step for 'ep_curl' [ 62%] Performing configure step for 'ep_curl' -- ep_zstd build command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_zstd-stamp/ep_zstd-build-*.log [ 64%] Performing install step for 'ep_zstd' -- ep_zstd install command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_zstd-stamp/ep_zstd-install-*.log [ 66%] Completed 'ep_zstd' [ 66%] Built target ep_zstd -- ep_curl configure command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_curl-stamp/ep_curl-configure-*.log [ 67%] Performing build step for 'ep_curl' -- ep_curl build command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_curl-stamp/ep_curl-build-*.log [ 69%] Performing install step for 'ep_curl' -- ep_curl install command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_curl-stamp/ep_curl-install-*.log [ 71%] Completed 'ep_curl' [ 71%] Built target ep_curl Scanning dependencies of target ep_awssdk [ 73%] Creating directories for 'ep_awssdk' [ 75%] Performing download step (download, verify and extract) for 'ep_awssdk' -- ep_awssdk download command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_awssdk-stamp/ep_awssdk-download-*.log [ 76%] No update step for 'ep_awssdk' [ 78%] No patch step for 'ep_awssdk' [ 80%] Performing configure step for 'ep_awssdk' -- ep_awssdk configure command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_awssdk-stamp/ep_awssdk-configure-*.log [ 82%] Performing build step for 'ep_awssdk' -- ep_awssdk build command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_awssdk-stamp/ep_awssdk-build-*.log [ 83%] Performing install step for 'ep_awssdk' -- ep_awssdk install command succeeded. See also /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_awssdk-stamp/ep_awssdk-install-*.log [ 85%] Completed 'ep_awssdk' [ 85%] Built target ep_awssdk Scanning dependencies of target tiledb [ 87%] Creating directories for 'tiledb' [ 89%] No download step for 'tiledb' [ 91%] No update step for 'tiledb' [ 92%] No patch step for 'tiledb' [ 94%] Performing configure step for 'tiledb' -- The C compiler identification is GNU 7.4.0 -- The CXX compiler identification is GNU 7.4.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Starting TileDB regular build. -- TileDB C++ API is not built. -- The TileDB library is compiled with stats enabled. -- Found OpenSSL: /usr/lib/x86_64-linux-gnu/libssl.so -- OpenSSL crypto: /usr/lib/x86_64-linux-gnu/libcrypto.so -- root: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install;/usr/local/opt/openssl -- The TileDB library is compiled with S3 support. -- Found AWS SDK for C++, Version: 1.7.108, Install Root:/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install, Platform Prefix:, Platform Dependent Libraries: pthread;crypto;ssl;z;curl -- Found AWS lib: aws-cpp-sdk-s3 (/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libaws-cpp-sdk-s3.a) -- Found AWS lib: aws-cpp-sdk-core (/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libaws-cpp-sdk-core.a) -- Found AWS lib: aws-c-common (/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libaws-c-common.a) -- Found AWS lib: aws-c-event-stream (/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libaws-c-event-stream.a) -- Found AWS lib: aws-checksums (/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libaws-checksums.a) -- Found CURL: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libcurl.a (found version "7.65.3") -- Found CURL: '/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libcurl.a' (found version "") -- The TileDB library is compiled with HDFS support. -- Building Intel TBB: /usr/bin/make -j2 compiler=gcc tbb_build_dir=/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_tbb-build tbb_build_prefix= extra_inc=big_iron.inc -- Found TBB: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_tbb-build/_release/libtbb.a -- Found TBB imported target: TBB::tbb -- Found Bzip2: /usr/lib/x86_64-linux-gnu/libbz2.so -- Found LZ4: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/liblz4.a -- Found Spdlog: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/src/ep_spdlog/include -- Found Zlib: /usr/lib/x86_64-linux-gnu/libz.so -- Found Zstd: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libzstd.a -- Found curl-config: '/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/bin/curl-config' -- Adding transitive Curl library links to TileDB targets: '/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/externals/install/lib/libcurl.a;-lssl;-lcrypto;-lssl;-lcrypto;-lz' -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- Configuring done -- Generating done -- Build files have been written to: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build/tiledb [ 96%] Performing build step for 'tiledb' Scanning dependencies of target TILEDB_CORE_OBJECTS [ 0%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/array/array.cc.o [ 1%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/array_schema/array_schema.cc.o [ 3%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/array_schema/attribute.cc.o [ 3%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/array_schema/dimension.cc.o [ 4%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/array_schema/domain.cc.o [ 6%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/buffer/buffer.cc.o [ 7%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/buffer/buffer_list.cc.o [ 7%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/buffer/const_buffer.cc.o [ 9%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/buffer/preallocated_buffer.cc.o [ 11%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/c_api/tiledb.cc.o [ 12%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/cache/lru_cache.cc.o [ 12%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/bzip_compressor.cc.o [ 14%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/dd_compressor.cc.o [ 15%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/gzip_compressor.cc.o [ 15%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/lz4_compressor.cc.o [ 17%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/rle_compressor.cc.o [ 19%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/compressors/zstd_compressor.cc.o [ 20%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/config/config.cc.o [ 20%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/config/config_iter.cc.o [ 22%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/encryption/encryption.cc.o [ 23%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/encryption/encryption_key.cc.o [ 25%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/encryption/encryption_key_validation.cc.o [ 25%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/encryption/encryption_openssl.cc.o [ 26%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/encryption/encryption_win32.cc.o [ 28%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/hdfs_filesystem.cc.o [ 28%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/posix.cc.o [ 30%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/s3.cc.o [ 31%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/s3_thread_pool_executor.cc.o [ 33%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/vfs.cc.o [ 33%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/vfs_file_handle.cc.o [ 34%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filesystem/win.cc.o [ 36%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/bit_width_reduction_filter.cc.o [ 38%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/bitshuffle_filter.cc.o [ 38%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/byteshuffle_filter.cc.o [ 39%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/compression_filter.cc.o [ 41%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/encryption_aes256gcm_filter.cc.o [ 42%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/filter.cc.o [ 42%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/filter_buffer.cc.o [ 44%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/filter_pipeline.cc.o [ 46%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/filter_storage.cc.o [ 46%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/noop_filter.cc.o [ 47%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/filter/positive_delta_filter.cc.o [ 49%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/fragment/fragment_metadata.cc.o [ 50%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/global_state.cc.o [ 50%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/libcurl_state.cc.o [ 52%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/openssl_state.cc.o [ 53%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/signal_handlers.cc.o [ 55%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/tbb_state.cc.o [ 55%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/global_state/watchdog.cc.o [ 57%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/metadata/metadata.cc.o [ 58%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/cancelable_tasks.cc.o [ 58%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/constants.cc.o [ 60%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/logger.cc.o [ 61%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/stats.cc.o [ 63%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/status.cc.o [ 63%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/thread_pool.cc.o [ 65%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/uri.cc.o [ 66%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/utils.cc.o [ 68%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/uuid.cc.o [ 68%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/win_constants.cc.o [ 69%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/misc/work_arounds.cc.o [ 71%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/query/query.cc.o [ 71%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/query/reader.cc.o [ 73%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/query/read_cell_slab_iter.cc.o [ 74%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/query/writer.cc.o [ 76%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/query/write_cell_slab_iter.cc.o [ 76%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/rest/rest_client.cc.o [ 77%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/rtree/rtree.cc.o [ 79%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/serialization/array_schema.cc.o [ 80%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/serialization/query.cc.o [ 80%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/storage_manager/context.cc.o [ 82%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/storage_manager/consolidator.cc.o [ 84%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/storage_manager/open_array.cc.o [ 85%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/storage_manager/storage_manager.cc.o [ 85%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/subarray/cell_slab_iter.cc.o [ 87%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/subarray/subarray.cc.o [ 88%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/subarray/subarray_partitioner.cc.o [ 88%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/tile/tile.cc.o [ 90%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/sm/tile/tile_io.cc.o [ 92%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/md5/md5.cc.o [ 93%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/bitshuffle/iochain.cc.o [ 93%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/bitshuffle/bitshuffle_core.cc.o [ 95%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/blosc/shuffle.cc.o [ 96%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/blosc/shuffle-avx2.cc.o [ 98%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/blosc/shuffle-generic.cc.o [ 98%] Building CXX object tiledb/CMakeFiles/TILEDB_CORE_OBJECTS.dir/__/external/src/blosc/shuffle-sse2.cc.o [ 98%] Built target TILEDB_CORE_OBJECTS Scanning dependencies of target tiledb_shared [100%] Linking CXX shared library libtiledb.so [100%] Built target tiledb_shared [ 98%] No install step for 'tiledb' [100%] Completed 'tiledb' [100%] Built target tiledb Scanning dependencies of target install-tiledb [ 98%] Built target TILEDB_CORE_OBJECTS [100%] Built target tiledb_shared Install the project... -- Install configuration: "Release" -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/libtiledb.so.1.7 -- Set runtime path of "/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/libtiledb.so.1.7" to "/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib" -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/libtiledb.so -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/include/tiledb/tiledb.h -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/include/tiledb/tiledb_enum.h -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/include/tiledb/tiledb_version.h -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/include/tiledb/tiledb_export.h -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/cmake/TileDB/TileDBConfig.cmake -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/cmake/TileDB/TileDBTargets.cmake -- Installing: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/cmake/TileDB/TileDBTargets-release.cmake Built target install-tiledb libtiledb_exists checking 'library_dirs': [] libtiledb_exists found: 'None' Downloading TileDB package from dev... Building libtiledb in directory /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/build... CMake configure command: ['cmake', '-DCMAKE_INSTALL_PREFIX=/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist', '-DTILEDB_TESTS=OFF', '-DTILEDB_S3=ON', '-DTILEDB_HDFS=ON', '-DTILEDB_INSTALL_LIBDIR=lib', '-DTILEDB_CPP_API=OFF', '-DTILEDB_FORCE_ALL_DEPS:BOOL=OFF', '-DTILEDB_SERIALIZATION:BOOL=OFF', '-DCMAKE_BUILD_TYPE=Release', '/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev'] Copying file /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/libtiledb.so to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/tiledb/native/libtiledb.so libtiledb_objects: ['native/libtiledb.so'] 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' 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/lib.linux-x86_64-3.7 creating build/lib.linux-x86_64-3.7/tiledb copying tiledb/__init__.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/array.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/version.py -> build/lib.linux-x86_64-3.7/tiledb copying tiledb/highlevel.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/__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_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/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 copying tiledb/tests/test_domain_index.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_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_metadata.py -> build/lib.linux-x86_64-3.7/tiledb/tests creating build/lib.linux-x86_64-3.7/tiledb/native copying tiledb/native/libtiledb.so -> build/lib.linux-x86_64-3.7/tiledb/native running build_ext libtiledb_exists checking 'library_dirs': ['/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib'] libtiledb_exists found: '/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib/libtiledb.so' 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 -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fPIC -I/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/include -I/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/numpy/core/include -I/home/docs/.pyenv/versions/3.7.3/include/python3.7m -c tiledb/libtiledb.cpp -o build/temp.linux-x86_64-3.7/tiledb/libtiledb.o -std=c++11 -Wno-deprecated-declarations In file included from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0, from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from tiledb/libtiledb.cpp:621: /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/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/indexing.pyx: In function ‘PyObject* __pyx_f_6tiledb_9libtiledb_execute_multi_index(__pyx_obj_6tiledb_9libtiledb_Array*, tiledb_query_t*, PyObject*, PyObject*)’: tiledb/indexing.pyx:177:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for attr_idx in range(nattr): ~~~~~~~~~~~^ tiledb/indexing.pyx:230:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for attr_idx in range(nattr): ~~~~~~~~~~~^ tiledb/indexing.pyx:255:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for attr_idx in range(nattr): ~~~~~~~~~~ ^ tiledb/indexing.pyx: In function ‘PyObject* __pyx_f_6tiledb_9libtiledb_multi_index(__pyx_obj_6tiledb_9libtiledb_Array*, PyObject*, PyObject*, int, __pyx_opt_args_6tiledb_9libtiledb_multi_index*)’: tiledb/indexing.pyx:314:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for dim_idx in range(len(ranges)): ~~~~~~~~~~~^~~~ tiledb/indexing.pyx:322:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for range_idx in range(len(dim_ranges)): ~~~~~~~~~~~^~~~~~~~~~~~ tiledb/libtiledb.pyx: In function ‘PyObject* __pyx_f_6tiledb_9libtiledb_get_query_fragment_info(tiledb_ctx_t*, tiledb_query_t*)’: tiledb/libtiledb.pyx:233:33: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for fragment_idx in range(0, num_fragments): ~~~~~~~~~~^~~~~~~~~~~ tiledb/libtiledb.pyx: In function ‘int __pyx_pf_6tiledb_9libtiledb_9ReadQuery___init__(__pyx_obj_6tiledb_9libtiledb_ReadQuery*, __pyx_obj_6tiledb_9libtiledb_Array*, PyArrayObject*, PyObject*, tiledb_layout_t)’: tiledb/libtiledb.pyx:3607:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for i in range(nattr): ~~~~~ ^ tiledb/libtiledb.pyx:3660:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for i in range(nattr): ~~~~~~~ ^ tiledb/libtiledb.pyx:3695:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for update_res_bytes_idx in range(nattr): ~~~~~~~~~~~^~~~~~~~~~~~ tiledb/libtiledb.pyx:3720:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for i in range(nattr): ~~~~~ ^ tiledb/metadata.pyx: At global scope: tiledb/metadata.pyx:238:18: warning: ‘PyObject* __pyx_f_6tiledb_9libtiledb_put_metadata_dict(__pyx_obj_6tiledb_9libtiledb_Array*, PyObject*)’ defined but not used [-Wunused-function] cdef put_metadata_dict(Array array, kv): ^~~~~~~~~~~~~~~~~~~~~~~ tiledb/np2buf.pyx:22:18: warning: ‘PyObject* __pyx_f_6tiledb_9libtiledb__varlen_type_compat(PyObject*, PyObject*)’ defined but not used [-Wunused-function] cdef _varlen_type_compat(object reftype, object val): ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -pthread -shared -L/home/docs/.pyenv/versions/3.7.3/lib -L/home/docs/.pyenv/versions/3.7.3/lib build/temp.linux-x86_64-3.7/tiledb/libtiledb.o -L/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest/build/TileDB-dev/dist/lib -ltiledb -o build/lib.linux-x86_64-3.7/tiledb/libtiledb.cpython-37m-x86_64-linux-gnu.so creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/tiledb copying build/lib.linux-x86_64-3.7/tiledb/__init__.py -> build/bdist.linux-x86_64/egg/tiledb copying build/lib.linux-x86_64-3.7/tiledb/array.py -> build/bdist.linux-x86_64/egg/tiledb copying build/lib.linux-x86_64-3.7/tiledb/version.py -> build/bdist.linux-x86_64/egg/tiledb creating build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/__init__.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/all.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_libtiledb.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_util.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_examples.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/common.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_domain_index.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_multi_index.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_pandas_dataframe.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_dask.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/tests/test_metadata.py -> build/bdist.linux-x86_64/egg/tiledb/tests copying build/lib.linux-x86_64-3.7/tiledb/highlevel.py -> build/bdist.linux-x86_64/egg/tiledb copying build/lib.linux-x86_64-3.7/tiledb/multirange_indexing.py -> build/bdist.linux-x86_64/egg/tiledb creating build/bdist.linux-x86_64/egg/tiledb/native copying build/lib.linux-x86_64-3.7/tiledb/native/libtiledb.so -> build/bdist.linux-x86_64/egg/tiledb/native copying build/lib.linux-x86_64-3.7/tiledb/libtiledb.cpython-37m-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/egg/tiledb byte-compiling build/bdist.linux-x86_64/egg/tiledb/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/array.py to array.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/version.py to version.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/all.py to all.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_libtiledb.py to test_libtiledb.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_util.py to test_util.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_examples.py to test_examples.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/common.py to common.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_domain_index.py to test_domain_index.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_multi_index.py to test_multi_index.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_pandas_dataframe.py to test_pandas_dataframe.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_dask.py to test_dask.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/tests/test_metadata.py to test_metadata.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/highlevel.py to highlevel.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/tiledb/multirange_indexing.py to multirange_indexing.cpython-37.pyc creating stub loader for tiledb/libtiledb.cpython-37m-x86_64-linux-gnu.so byte-compiling build/bdist.linux-x86_64/egg/tiledb/libtiledb.py to libtiledb.cpython-37.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/not-zip-safe -> build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying tiledb.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO writing build/bdist.linux-x86_64/egg/EGG-INFO/native_libs.txt creating dist creating 'dist/tiledb-0.4.4.dev106-py3.7-linux-x86_64.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing tiledb-0.4.4.dev106-py3.7-linux-x86_64.egg creating /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/tiledb-0.4.4.dev106-py3.7-linux-x86_64.egg Extracting tiledb-0.4.4.dev106-py3.7-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages Adding tiledb 0.4.4.dev106 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/tiledb-0.4.4.dev106-py3.7-linux-x86_64.egg Processing dependencies for tiledb==0.4.4.dev106 Searching for wheel==0.33.4 Best match: wheel 0.33.4 Adding wheel 0.33.4 to easy-install.pth file Installing wheel script to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages Searching for numpy==1.16.6 Best match: numpy 1.16.6 Adding numpy 1.16.6 to easy-install.pth file Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin Installing f2py3 script to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin Installing f2py3.7 script to /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages Finished processing dependencies for tiledb==0.4.4.dev106 /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/setuptools_scm/git.py:68: UserWarning: "/home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/checkouts/latest" is shallow and may cause errors warnings.warn('"%s" is shallow and may cause errors' % (wd.path,)) /home/docs/checkouts/readthedocs.org/user_builds/tiledb-inc-tiledb-py/envs/latest/lib/python3.7/site-packages/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/latest/tiledb/libtiledb.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: tiledb/libtiledb.pyx:4751:0: Overriding cdef method with def method. [rtd-command-info] start-time: 2020-01-08T21:03:59.838797Z, end-time: 2020-01-08T21:04:00.074804Z, duration: 0, exit-code: 0 cat doc/source/conf.py #!/usr/bin/env python3 # -*- coding: utf-8 -*- # # -- Imports configuration ------------------------------------------------- import os import sys from os.path import abspath, join, dirname sys.path.insert(0, abspath(join(dirname(__file__)))) # -- ReadTheDocs configuration --------------------------------------------- # Special handling on ReadTheDocs builds. # Some of this code is from https://github.com/robotpy/robotpy-docs/blob/master/conf.py readthedocs = os.environ.get('READTHEDOCS', None) == 'True' rtd_version = os.environ.get('READTHEDOCS_VERSION', 'latest') rtd_version = rtd_version if rtd_version in ['stable', 'latest'] else 'stable' # -- Project information ----------------------------------------------------- project = 'TileDB-Py' copyright = '2019, TileDB, Inc.' author = 'TileDB, Inc.' # The short X.Y version version = '0.4' # The full version, including alpha/beta/rc tags release = '0.4.0' # -- General configuration --------------------------------------------------- # If your documentation needs a minimal Sphinx version, state it here. # # needs_sphinx = '1.0' # Add any Sphinx extension module names here, as strings. They can be # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom # ones. extensions = [ 'sphinx.ext.autodoc', 'sphinx.ext.doctest', 'sphinx.ext.intersphinx', ] # Mapping for linking between RTD subprojects. if readthedocs: intersphinx_mapping = { 'tiledb': ('https://tiledb-inc-tiledb.readthedocs-hosted.com/en/%s/' % rtd_version, None), 'tiledb-py': ('https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/%s/' % rtd_version, None), 'python': ('https://docs.python.org/', None) } # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] # The suffix(es) of source filenames. # You can specify multiple suffix as a list of string: # # source_suffix = ['.rst', '.md'] source_suffix = '.rst' # The master toctree document. master_doc = 'index' # The language for content autogenerated by Sphinx. Refer to documentation # for a list of supported languages. # # This is also used if you do content translation via gettext catalogs. # Usually you set "language" from the command line for these cases. language = None # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. # This pattern also affects html_static_path and html_extra_path . exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] # The name of the Pygments (syntax highlighting) style to use. pygments_style = 'friendly' # -- Options for HTML output ------------------------------------------------- html_static_path = ['_static'] html_logo = '_static/tileDB_uppercase_600_112.png' html_favicon = '_static/favicon.ico' if readthedocs: html_theme = 'default' else: import sphinx_rtd_theme html_theme = 'sphinx_rtd_theme' html_theme_path = [sphinx_rtd_theme.get_html_theme_path()] # -- Options for HTMLHelp output --------------------------------------------- # Output file base name for HTML help builder. htmlhelp_basename = 'TileDB-Pydoc' # -- Options for LaTeX output ------------------------------------------------ latex_elements = { # The paper size ('letterpaper' or 'a4paper'). # # 'papersize': 'letterpaper', # The font size ('10pt', '11pt' or '12pt'). # # 'pointsize': '10pt', # Additional stuff for the LaTeX preamble. # # 'preamble': '', # Latex figure (float) alignment # # 'figure_align': 'htbp', } # Grouping the document tree into LaTeX files. List of tuples # (source start file, target name, title, # author, documentclass [howto, manual, or own class]). latex_documents = [ (master_doc, 'TileDB-Py.tex', 'TileDB-Py Documentation', 'TileDB, Inc.', 'manual'), ] # -- Options for manual page output ------------------------------------------ # One entry per manual page. List of tuples # (source start file, name, description, authors, manual section). man_pages = [ (master_doc, 'tiledb-py', 'TileDB-Py Documentation', [author], 1) ] # -- Options for Texinfo output ---------------------------------------------- # Grouping the document tree into Texinfo files. List of tuples # (source start file, target name, title, author, # dir menu entry, description, category) texinfo_documents = [ (master_doc, 'TileDB-Py', 'TileDB-Py Documentation', author, 'TileDB-Py', 'One line description of project.', 'Miscellaneous'), ] # -- Custom Document processing ---------------------------------------------- # Generate the sidebar automatically so that it is identical across all subprojects. # This (and gensidebar.py) from https://github.com/robotpy/robotpy-docs import gensidebar gensidebar.generate_sidebar({'on_rtd': readthedocs, 'rtd_version': rtd_version}, 'tiledb-py') # -- Custom setup ----------------------------------------------------------- def setup(app): app.add_stylesheet('custom.css') ########################################################################### # auto-created readthedocs.org specific configuration # ########################################################################### # # The following code was added during an automated build on readthedocs.org # It is auto created and injected for every build. The result is based on the # conf.py.tmpl file found in the readthedocs.org codebase: # https://github.com/rtfd/readthedocs.org/blob/master/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl # import importlib import sys import os.path from six import string_types from sphinx import version_info # Get suffix for proper linking to GitHub # This is deprecated in Sphinx 1.3+, # as each page can have its own suffix if globals().get('source_suffix', False): if isinstance(source_suffix, string_types): SUFFIX = source_suffix elif isinstance(source_suffix, (list, tuple)): # Sphinx >= 1.3 supports list/tuple to define multiple suffixes SUFFIX = source_suffix[0] elif isinstance(source_suffix, dict): # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes SUFFIX = list(source_suffix.keys())[0] # make a ``list()`` for py2/py3 compatibility else: # default to .rst SUFFIX = '.rst' else: SUFFIX = '.rst' # Add RTD Static Path. Add to the end because it overwrites previous files. if not 'html_static_path' in globals(): html_static_path = [] if os.path.exists('_static'): html_static_path.append('_static') # Add RTD Theme only if they aren't overriding it already using_rtd_theme = ( ( 'html_theme' in globals() and html_theme in ['default'] and # Allow people to bail with a hack of having an html_style 'html_style' not in globals() ) or 'html_theme' not in globals() ) if using_rtd_theme: theme = importlib.import_module('sphinx_rtd_theme') html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} if 'html_theme_path' in globals(): html_theme_path.append(theme.get_html_theme_path()) else: html_theme_path = [theme.get_html_theme_path()] if globals().get('websupport2_base_url', False): websupport2_base_url = 'https://readthedocs.com/websupport' websupport2_static_url = 'https://media.readthedocs.com/' #Add project information to the template context. context = { 'using_theme': using_rtd_theme, 'html_theme': html_theme, 'current_version': "latest", 'version_slug': "latest", 'MEDIA_URL': "https://media.readthedocs.com/media/", 'STATIC_URL': "https://media.readthedocs.com/", 'PRODUCTION_DOMAIN': "readthedocs.com", 'versions': [ ("latest", "/en/latest/"), ("stable", "/en/stable/"), ("0.3.0", "/en/0.3.0/"), ("0.2.0", "/en/0.2.0/"), ], 'downloads': [ ], 'subprojects': [ ], 'slug': 'tiledb-inc-tiledb-py', 'name': u'TileDB-Py', 'rtd_language': u'en', 'programming_language': u'words', 'canonical_url': 'https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/tiledb-py/en/stable/', 'analytics_code': '', 'single_version': False, 'conf_py_path': '/doc/source/', 'api_host': 'https://readthedocs.com', 'proxied_api_host': 'https://readthedocs.com', 'github_user': 'TileDB-Inc', 'github_repo': 'TileDB-Py', 'github_version': 'dev', 'display_github': True, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'dev', 'display_bitbucket': False, 'gitlab_user': 'None', 'gitlab_repo': 'None', 'gitlab_version': 'dev', 'display_gitlab': False, 'READTHEDOCS': True, 'using_theme': (html_theme == "default"), 'new_theme': (html_theme == "sphinx_rtd_theme"), 'source_suffix': SUFFIX, 'ad_free': False, 'user_analytics_code': '', 'global_analytics_code': 'UA-17997319-2', 'commit': '28cbaa98', } if 'html_context' in globals(): html_context.update(context) else: html_context = context # Add custom RTD extension if 'extensions' in globals(): # Insert at the beginning because it can interfere # with other extensions. # See https://github.com/rtfd/readthedocs.org/pull/4054 extensions.insert(0, "readthedocs_ext.readthedocs") else: extensions = ["readthedocs_ext.readthedocs"] # Add External version warning banner to the external version documentation if 'branch' == 'external': extensions.insert(1, "readthedocs_ext.external_version_warning") project_language = 'en' # User's Sphinx configurations language_user = globals().get('language', None) latex_engine_user = globals().get('latex_engine', None) latex_elements_user = globals().get('latex_elements', None) # Remove this once xindy gets installed in Docker image and XINDYOPS # env variable is supported # https://github.com/rtfd/readthedocs-docker-images/pull/98 latex_use_xindy = False chinese = any([ language_user in ('zh_CN', 'zh_TW'), project_language in ('zh_CN', 'zh_TW'), ]) japanese = any([ language_user == 'ja', project_language == 'ja', ]) if chinese: latex_engine = latex_engine_user or 'xelatex' latex_elements_rtd = { 'preamble': '\\usepackage[UTF8]{ctex}\n', } latex_elements = latex_elements_user or latex_elements_rtd elif japanese: latex_engine = latex_engine_user or 'platex' [rtd-command-info] start-time: 2020-01-08T21:04:00.184197Z, end-time: 2020-01-08T21:04:07.088935Z, duration: 6, exit-code: 0 python sphinx-build -T -E -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v1.8.5 loading translations [en]... done making output directory... loading intersphinx inventory from https://tiledb-inc-tiledb.readthedocs-hosted.com/en/latest/objects.inv... loading intersphinx inventory from https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/latest/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/latest/objects.inv' not fetchable due to : 404 Client Error: Not Found for url: https://tiledb-inc-tiledb.readthedocs-hosted.com/projects/python-api/en/latest/objects.inv loading intersphinx inventory from https://docs.python.org/objects.inv... intersphinx inventory has moved: https://docs.python.org/objects.inv -> https://docs.python.org/3/objects.inv building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 2 source files that are out of date updating environment: 2 added, 0 changed, 0 removed reading sources... [ 50%] index reading sources... [100%] python-api looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 50%] index writing output... [100%] python-api generating indices... genindex writing additional pages... search copying static files... done copying readthedocs static files... done copying searchtools... done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 1 warning. The HTML pages are in _build/html.