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gbif / pygbif

GBIF Python client
https://pygbif.readthedocs.io/en/latest/
MIT License
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No current publication of pygbif on conda-forge #83

Open pjgoodall opened 3 years ago

pjgoodall commented 3 years ago

The current publication of pygbif on the conda platform is nearly 5 years old. Can I encourage pygbif to be published on conda-forge please? Recently python-dwca-reader was given an automated build onto conda-forge after a 7-year hiatus (many thanks to Jordan Cook).

Please see:

  1. https://github.com/conda-forge/python-dwca-reader-feedstock
  2. https://github.com/conda-forge/staged-recipes/pull/14969
  3. python-dwca-reader on conda-forge
sckott commented 3 years ago

thanks for the ping @pjgoodall

I set up a recipe but it didn't work when I ran it locally. Perhaps I need to include something about requirements.txt in the recipe

CONFIG=osx64 ./.scripts/run_docker_build.sh ``` Client: Context: default Debug Mode: false Plugins: app: Docker App (Docker Inc., v0.9.1-beta3) buildx: Build with BuildKit (Docker Inc., v0.5.1-docker) compose: Docker Compose (Docker Inc., 2.0.0-beta.1) scan: Docker Scan (Docker Inc., v0.8.0) Server: Containers: 1 Running: 0 Paused: 0 Stopped: 1 Images: 174 Server Version: 20.10.6 Storage Driver: overlay2 Backing Filesystem: extfs Supports d_type: true Native Overlay Diff: true userxattr: false Logging Driver: json-file Cgroup Driver: cgroupfs Cgroup Version: 1 Plugins: Volume: local Network: bridge host ipvlan macvlan null overlay Log: awslogs fluentd gcplogs gelf journald json-file local logentries splunk syslog Swarm: inactive Runtimes: io.containerd.runc.v2 io.containerd.runtime.v1.linux runc Default Runtime: runc Init Binary: docker-init containerd version: 05f951a3781f4f2c1911b05e61c160e9c30eaa8e runc version: 12644e614e25b05da6fd08a38ffa0cfe1903fdec init version: de40ad0 Security Options: seccomp Profile: default Kernel Version: 5.10.25-linuxkit Operating System: Docker Desktop OSType: linux Architecture: x86_64 CPUs: 2 Total Memory: 1.942GiB Name: docker-desktop ID: 5ZSH:XI6P:ITWO:NJ4Q:HJ24:XDL6:EXII:PCPP:V6DI:ARFE:SWTA:42AO Docker Root Dir: /var/lib/docker Debug Mode: true File Descriptors: 42 Goroutines: 46 System Time: 2021-06-01T22:46:15.748640314Z EventsListeners: 3 HTTP Proxy: http.docker.internal:3128 HTTPS Proxy: http.docker.internal:3128 Registry: https://index.docker.io/v1/ Labels: Experimental: true Insecure Registries: 127.0.0.0/8 Live Restore Enabled: false ./.scripts/run_docker_build.sh: line 24: shyaml: command not found WARNING: DOCKER_IMAGE variable not set and shyaml not installed. Falling back to quay.io/condaforge/linux-anvil-comp7 useradd: warning: the home directory already exists. Not copying any file from skel directory into it. + export PYTHONUNBUFFERED=1 + PYTHONUNBUFFERED=1 + cat + cp -r /home/conda/staged-recipes /home/conda/staged-recipes-copy + find /home/conda/staged-recipes-copy/recipes -maxdepth 1 -name .DS_Store -delete + echo 'Pending recipes.' Pending recipes. + ls -la /home/conda/staged-recipes-copy/recipes total 32 drwxr-xr-x 8 conda conda 4096 Jun 1 22:46 . drwxr-xr-x 10 conda conda 4096 Jun 1 22:46 .. drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 example drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 fcmaes drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 koncept drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 pygbif drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 r-available drwxr-xr-x 2 conda conda 4096 Jun 1 22:46 r-freqprof + echo 'Finding recipes merged in master and removing them from the build.' Finding recipes merged in master and removing them from the build. + pushd /home/conda/staged-recipes/recipes + '[' False == True ']' + git ls-tree --name-only master -- . + xargs -I '{}' sh -c 'rm -rf ~/staged-recipes-copy/recipes/{} && echo Removing recipe: {}' Removing recipe: example Removing recipe: fcmaes Removing recipe: koncept Removing recipe: r-available Removing recipe: r-freqprof + popd + conda index /home/conda/staged-recipes/build_artifacts + conda install --yes --quiet 'conda>4.7.12' 'conda-forge-ci-setup=3.*' conda-forge-pinning networkx=2.4 'conda-build>=3.16' Collecting package metadata (current_repodata.json): ...working... done Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve. Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /opt/conda added / updated specs: - conda-build[version='>=3.16'] - conda-forge-ci-setup=3 - conda-forge-pinning - conda[version='>4.7.12'] - networkx=2.4 The following packages will be downloaded: package | build ---------------------------|----------------- ca-certificates-2021.5.30 | ha878542_0 136 KB conda-forge certifi-2021.5.30 | py38h578d9bd_0 141 KB conda-forge click-8.0.1 | py38h578d9bd_0 146 KB conda-forge conda-env-2.6.0 | 1 2 KB conda-forge conda-forge-ci-setup-3.9.4 | py38hcd7a344_0 36 KB conda-forge conda-forge-pinning-2021.06.01.05.21.06| hd8ed1ab_0 16 KB conda-forge decorator-5.0.9 | pyhd8ed1ab_0 11 KB conda-forge jq-1.6 | h36c2ea0_1000 346 KB conda-forge networkx-2.4 | py_1 1.2 MB conda-forge oniguruma-6.9.7.1 | h7f98852_0 409 KB conda-forge shyaml-0.6.2 | pyhd3deb0d_0 21 KB conda-forge ------------------------------------------------------------ Total: 2.4 MB The following NEW packages will be INSTALLED: click conda-forge/linux-64::click-8.0.1-py38h578d9bd_0 conda-env conda-forge/noarch::conda-env-2.6.0-1 conda-forge-ci-se~ conda-forge/linux-64::conda-forge-ci-setup-3.9.4-py38hcd7a344_0 conda-forge-pinni~ conda-forge/noarch::conda-forge-pinning-2021.06.01.05.21.06-hd8ed1ab_0 decorator conda-forge/noarch::decorator-5.0.9-pyhd8ed1ab_0 jq conda-forge/linux-64::jq-1.6-h36c2ea0_1000 networkx conda-forge/noarch::networkx-2.4-py_1 oniguruma conda-forge/linux-64::oniguruma-6.9.7.1-h7f98852_0 shyaml conda-forge/noarch::shyaml-0.6.2-pyhd3deb0d_0 The following packages will be UPDATED: ca-certificates 2020.12.5-ha878542_0 --> 2021.5.30-ha878542_0 certifi 2020.12.5-py38h578d9bd_1 --> 2021.5.30-py38h578d9bd_0 Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done + export FEEDSTOCK_ROOT=/home/conda/staged-recipes + FEEDSTOCK_ROOT=/home/conda/staged-recipes + export CI_SUPPORT=/home/conda/staged-recipes-copy/.ci_support + CI_SUPPORT=/home/conda/staged-recipes-copy/.ci_support + setup_conda_rc /home/conda/staged-recipes /home/conda/staged-recipes-copy/recipes /home/conda/staged-recipes-copy/.ci_support/osx64.yaml Warning: 'conda-forge' already in 'channels' list, moving to the top + source run_conda_forge_build_setup ++ export PYTHONUNBUFFERED=1 ++ PYTHONUNBUFFERED=1 ++ conda config --set show_channel_urls true ++ conda config --set auto_update_conda false ++ conda config --set add_pip_as_python_dependency false ++ export CONDA_BLD_PATH=/home/conda/staged-recipes/build_artifacts ++ CONDA_BLD_PATH=/home/conda/staged-recipes/build_artifacts ++ set +u ++ '[' '' = drone ']' ++ export CPU_COUNT=2 ++ CPU_COUNT=2 +++ cat /home/conda/staged-recipes/conda-forge.yml +++ shyaml get-value channel_priority strict ++ conda config --set channel_priority strict ++ [[ ! -z '' ]] ++ '[' '!' -z osx64 ']' ++ '[' '!' -z '' ']' ++ cat /home/conda/staged-recipes-copy/.ci_support/osx64.yaml c_compiler: - clang cxx_compiler: - clangxx fortran_compiler: - gfortran channel_sources: - conda-forge,defaults target_platform: - osx-64 ++ set -u ++ mkdir -p /opt/conda/etc/conda/activate.d ++ echo 'export CONDA_BLD_PATH='\''/home/conda/staged-recipes/build_artifacts'\''' ++ '[' -n 2 ']' ++ echo 'export CPU_COUNT='\''2'\''' ++ echo 'export PYTHONUNBUFFERED='\''1'\''' +++ cat /home/conda/staged-recipes-copy/.ci_support/osx64.yaml +++ shyaml get-value cuda_compiler_version.0 None ++ CUDA_VERSION=None ++ [[ None != \N\o\n\e ]] ++++ dirname /opt/conda/bin/run_conda_forge_build_setup +++ cd /opt/conda/bin +++ pwd ++ SCRIPT_DIR=/opt/conda/bin ++ source /opt/conda/bin/cross_compile_support.sh ++++ jq -r .platform ++++ conda info --json +++ BUILD_PLATFORM=linux-64 +++ '[' -f /home/conda/staged-recipes-copy/.ci_support/osx64.yaml ']' ++++ cat /home/conda/staged-recipes-copy/.ci_support/osx64.yaml ++++ shyaml get-value target_platform.0 linux-64 +++ HOST_PLATFORM=osx-64 +++ HOST_PLATFORM=osx-64 +++ [[ osx-64 != \l\i\n\u\x\-\6\4 ]] +++ echo 'export CONDA_BUILD_CROSS_COMPILATION=1' +++ export CONDA_BUILD_CROSS_COMPILATION=1 +++ CONDA_BUILD_CROSS_COMPILATION=1 +++ '[' -f /home/conda/staged-recipes-copy/.ci_support/osx64.yaml ']' +++ echo build_platform: +++ echo '- linux-64' +++ [[ linux-64 == \l\i\n\u\x\-\6\4 ]] +++ [[ osx-64 == linux-* ]] ++ '[' -f /home/conda/staged-recipes-copy/.ci_support/osx64.yaml ']' +++ shyaml get-value MACOSX_DEPLOYMENT_TARGET.0 0 +++ cat /home/conda/staged-recipes-copy/.ci_support/osx64.yaml ++ need_osx_sdk=0 ++ [[ 0 != \0 ]] ++ conda info active environment : base active env location : /opt/conda shell level : 1 user config file : /home/conda/.condarc populated config files : /home/conda/.condarc conda version : 4.10.1 conda-build version : 3.21.4 python version : 3.8.10.final.0 virtual packages : __linux=5.10.25=0 __glibc=2.12=0 __unix=0=0 __archspec=1=x86_64 base environment : /opt/conda (writable) conda av data dir : /opt/conda/etc/conda conda av metadata url : https://repo.anaconda.com/pkgs/main channel URLs : https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /opt/conda/pkgs /home/conda/.conda/pkgs envs directories : /opt/conda/envs /home/conda/.conda/envs platform : linux-64 user-agent : conda/4.10.1 requests/2.25.1 CPython/3.8.10 Linux/5.10.25-linuxkit centos/6.10 glibc/2.12 UID:GID : 501:501 netrc file : None offline mode : False ++ conda config --show-sources ==> /home/conda/.condarc <== add_pip_as_python_dependency: False auto_update_conda: False channel_priority: strict channels: - conda-forge - defaults show_channel_urls: True conda-build: root-dir: /home/conda/staged-recipes/build_artifacts ==> envvars <== bld_path: /home/conda/staged-recipes/build_artifacts ++ conda list --show-channel-urls # packages in environment at /opt/conda: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge anaconda-client 1.7.2 pyhd8ed1ab_1 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge beautifulsoup4 4.9.3 pyhb0f4dca_0 conda-forge brotlipy 0.7.0 py38h497a2fe_1001 conda-forge bzip2 1.0.8 h7f98852_4 conda-forge c-ares 1.17.1 h7f98852_1 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge certifi 2021.5.30 py38h578d9bd_0 conda-forge cffi 1.14.5 py38ha65f79e_0 conda-forge chardet 4.0.0 py38h578d9bd_1 conda-forge click 8.0.1 py38h578d9bd_0 conda-forge clyent 1.2.2 py_1 conda-forge conda 4.10.1 py38h578d9bd_0 conda-forge conda-build 3.21.4 py38h578d9bd_0 conda-forge conda-env 2.6.0 1 conda-forge conda-forge-ci-setup 3.9.4 py38hcd7a344_0 conda-forge conda-forge-pinning 2021.06.01.05.21.06 hd8ed1ab_0 conda-forge conda-package-handling 1.7.3 py38h497a2fe_0 conda-forge cryptography 3.4.7 py38ha5dfef3_0 conda-forge curl 7.76.1 hea6ffbf_2 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge expat 2.3.0 h9c3ff4c_0 conda-forge filelock 3.0.12 pyh9f0ad1d_0 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge git 2.30.2 pl5320h24fefe6_1 conda-forge glob2 0.7 py_0 conda-forge icu 68.1 h58526e2_0 conda-forge idna 2.10 pyh9f0ad1d_0 conda-forge importlib-metadata 4.0.1 py38h578d9bd_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge jinja2 3.0.0 pyhd8ed1ab_0 conda-forge jq 1.6 h36c2ea0_1000 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter_core 4.7.1 py38h578d9bd_0 conda-forge krb5 1.19.1 hcc1bbae_0 conda-forge ld_impl_linux-64 2.35.1 hea4e1c9_2 conda-forge libarchive 3.5.1 h3f442fb_1 conda-forge libcurl 7.76.1 h2574ce0_2 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libev 4.33 h516909a_1 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 9.3.0 h2828fa1_19 conda-forge libgomp 9.3.0 h2828fa1_19 conda-forge libiconv 1.16 h516909a_0 conda-forge liblief 0.10.1 he1b5a44_2 conda-forge libnghttp2 1.43.0 h812cca2_0 conda-forge libssh2 1.9.0 ha56f1ee_6 conda-forge libstdcxx-ng 9.3.0 h6de172a_19 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_0 conda-forge lzo 2.10 h516909a_1000 conda-forge markupsafe 2.0.0 py38h497a2fe_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge networkx 2.4 py_1 conda-forge oniguruma 6.9.7.1 h7f98852_0 conda-forge openssl 1.1.1k h7f98852_0 conda-forge patch 2.7.6 h7f98852_1002 conda-forge patchelf 0.11 he1b5a44_0 conda-forge pcre 8.44 he1b5a44_0 conda-forge perl 5.32.0 h36c2ea0_0 conda-forge pip 21.1.1 pyhd8ed1ab_0 conda-forge pkginfo 1.7.0 pyhd8ed1ab_0 conda-forge psutil 5.8.0 py38h497a2fe_1 conda-forge py-lief 0.10.1 py38h348cfbe_2 conda-forge pycosat 0.6.3 py38h497a2fe_1006 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pyopenssl 20.0.1 pyhd8ed1ab_0 conda-forge pyrsistent 0.17.3 py38h497a2fe_2 conda-forge pysocks 1.7.1 py38h578d9bd_3 conda-forge python 3.8.10 h49503c6_1_cpython conda-forge python-dateutil 2.8.1 py_0 conda-forge python-libarchive-c 2.9 py38h578d9bd_2 conda-forge python_abi 3.8 1_cp38 conda-forge pytz 2021.1 pyhd8ed1ab_0 conda-forge pyyaml 5.4.1 py38h497a2fe_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge requests 2.25.1 pyhd3deb0d_0 conda-forge ripgrep 12.1.1 h516909a_1 conda-forge ruamel_yaml 0.15.80 py38h497a2fe_1004 conda-forge setuptools 49.6.0 py38h578d9bd_3 conda-forge shyaml 0.6.2 pyhd3deb0d_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge soupsieve 2.0.1 py_1 conda-forge sqlite 3.35.5 h74cdb3f_0 conda-forge su-exec 0.2 h516909a_1002 conda-forge tini 0.18.0 h14c3975_1001 conda-forge tk 8.6.10 h21135ba_1 conda-forge tqdm 4.60.0 pyhd8ed1ab_0 conda-forge traitlets 5.0.5 py_0 conda-forge urllib3 1.26.4 pyhd8ed1ab_0 conda-forge wheel 0.36.2 pyhd3deb0d_0 conda-forge xz 5.2.5 h516909a_1 conda-forge yaml 0.2.5 h516909a_0 conda-forge zipp 3.4.1 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.4.9 ha95c52a_0 conda-forge + find /home/conda/staged-recipes-copy/recipes -mindepth 2 -maxdepth 2 -type f -name yum_requirements.txt + xargs -r /usr/bin/sudo -n yum install -y + grep -v -e '^#' -e '^$' + xargs -n1 cat + test 1 == 1 + python /home/conda/staged-recipes-copy/.ci_support/build_all.py Building pygbif with conda-forge/label/main Setting build arch. This is only useful when pretending to be on another arch, such as for rendering necessary dependencies on a non-native arch. I trust that you know what you're doing. WARNING conda_build.config:arch(318): Setting build arch. This is only useful when pretending to be on another arch, such as for rendering necessary dependencies on a non-native arch. I trust that you know what you're doing. rendering /home/conda/staged-recipes-copy/recipes/pygbif for linux-64 Setting build platform. This is only useful when pretending to be on another platform, such as for rendering necessary dependencies on a non-native platform. I trust that you know what you're doing. WARNING conda_build.config:platform(332): Setting build platform. This is only useful when pretending to be on another platform, such as for rendering necessary dependencies on a non-native platform. I trust that you know what you're doing. Computed that there are 1 distributions to build from 1 recipes Resolved dependencies, will be built in the following order: pygbif-0.5.0-on-linux-64 No numpy version specified in conda_build_config.yaml. Falling back to default numpy value of 1.16 WARNING conda_build.metadata:ns_cfg(118): No numpy version specified in conda_build_config.yaml. Falling back to default numpy value of 1.16 Adding in variants from internal_defaults INFO conda_build.variants:_combine_spec_dictionaries(234): Adding in variants from internal_defaults Adding in variants from /opt/conda/conda_build_config.yaml INFO conda_build.variants:_combine_spec_dictionaries(234): Adding in variants from /opt/conda/conda_build_config.yaml Adding in variants from /home/conda/staged-recipes-copy/.ci_support/linux64.yaml INFO conda_build.variants:_combine_spec_dictionaries(234): Adding in variants from /home/conda/staged-recipes-copy/.ci_support/linux64.yaml Attempting to finalize metadata for pygbif INFO conda_build.metadata:finalize_outputs_pass(748): Attempting to finalize metadata for pygbif Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done BUILD START: ['pygbif-0.5.0-pyh6c4a22f_0.tar.bz2'] Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac The following NEW packages will be INSTALLED: _libgcc_mutex: 0.1-conda_forge conda-forge _openmp_mutex: 4.5-1_gnu conda-forge ca-certificates: 2021.5.30-ha878542_0 conda-forge certifi: 2021.5.30-py39hf3d152e_0 conda-forge ld_impl_linux-64: 2.35.1-hea4e1c9_2 conda-forge libffi: 3.3-h58526e2_2 conda-forge libgcc-ng: 9.3.0-h2828fa1_19 conda-forge libgomp: 9.3.0-h2828fa1_19 conda-forge libstdcxx-ng: 9.3.0-h6de172a_19 conda-forge ncurses: 6.2-h58526e2_4 conda-forge openssl: 1.1.1k-h7f98852_0 conda-forge pip: 21.1.2-pyhd8ed1ab_0 conda-forge python: 3.9.4-hffdb5ce_0_cpython conda-forge python_abi: 3.9-1_cp39 conda-forge readline: 8.1-h46c0cb4_0 conda-forge setuptools: 49.6.0-py39hf3d152e_3 conda-forge sqlite: 3.35.5-h74cdb3f_0 conda-forge tk: 8.6.10-h21135ba_1 conda-forge tzdata: 2021a-he74cb21_0 conda-forge wheel: 0.36.2-pyhd3deb0d_0 conda-forge xz: 5.2.5-h516909a_1 conda-forge zlib: 1.2.11-h516909a_1010 conda-forge Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done Source cache directory is: /home/conda/staged-recipes/build_artifacts/src_cache INFO conda_build.source:download_to_cache(44): Source cache directory is: /home/conda/staged-recipes/build_artifacts/src_cache Downloading source to cache: pygbif-0.5.0_342988e96f.tar.gz INFO conda_build.source:download_to_cache(69): Downloading source to cache: pygbif-0.5.0_342988e96f.tar.gz Downloading https://pypi.io/packages/source/p/pygbif/pygbif-0.5.0.tar.gz INFO conda_build.source:download_to_cache(83): Downloading https://pypi.io/packages/source/p/pygbif/pygbif-0.5.0.tar.gz Success INFO conda_build.source:download_to_cache(94): Success Extracting download source tree in: /home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/work export PREFIX=/home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac export BUILD_PREFIX=/home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/_build_env export SRC_DIR=/home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/work Using pip 21.1.2 from $PREFIX/lib/python3.9/site-packages/pip (python 3.9) Non-user install because user site-packages disabled Ignoring indexes: https://pypi.org/simple Created temporary directory: /tmp/pip-ephem-wheel-cache-w46zhc41 Created temporary directory: /tmp/pip-req-tracker-6c0x8lcn Initialized build tracking at /tmp/pip-req-tracker-6c0x8lcn Created build tracker: /tmp/pip-req-tracker-6c0x8lcn Entered build tracker: /tmp/pip-req-tracker-6c0x8lcn Created temporary directory: /tmp/pip-install-8wa295w3 Processing $SRC_DIR Created temporary directory: /tmp/pip-req-build-jmpg1lev DEPRECATION: A future pip version will change local packages to be built in-place without first copying to a temporary directory. We recommend you use --use-feature=in-tree-build to test your packages with this new behavior before it becomes the default. pip 21.3 will remove support for this functionality. You can find discussion regarding this at https://github.com/pypa/pip/issues/7555. Added file://$SRC_DIR to build tracker '/tmp/pip-req-tracker-6c0x8lcn' Running setup.py (path:/tmp/pip-req-build-jmpg1lev/setup.py) egg_info for package from file://$SRC_DIR Created temporary directory: /tmp/pip-pip-egg-info-l8js60ig Running command python setup.py egg_info Traceback (most recent call last): File "", line 1, in File "/tmp/pip-req-build-jmpg1lev/setup.py", line 5, in from pygbif import package_metadata File "/tmp/pip-req-build-jmpg1lev/pygbif/__init__.py", line 38, in from .occurrences import search, get, count, download File "/tmp/pip-req-build-jmpg1lev/pygbif/occurrences/__init__.py", line 21, in from .search import search File "/tmp/pip-req-build-jmpg1lev/pygbif/occurrences/search.py", line 3, in from pygbif.gbifutils import gbif_baseurl, bool2str, requests_argset, gbif_GET File "/tmp/pip-req-build-jmpg1lev/pygbif/gbifutils.py", line 1, in import requests ModuleNotFoundError: No module named 'requests' WARNING: Discarding file:///home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/work. Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output. ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output. Exception information: Traceback (most recent call last): File "$PREFIX/lib/python3.9/site-packages/pip/_internal/cli/base_command.py", line 180, in _main status = self.run(options, args) File "$PREFIX/lib/python3.9/site-packages/pip/_internal/cli/req_command.py", line 204, in wrapper return func(self, options, args) File "$PREFIX/lib/python3.9/site-packages/pip/_internal/commands/install.py", line 318, in run requirement_set = resolver.resolve( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 103, in resolve r = self.factory.make_requirement_from_install_req( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 444, in make_requirement_from_install_req raise self._build_failures[ireq.link] File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 200, in _make_candidate_from_link self._link_candidate_cache[link] = LinkCandidate( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 306, in __init__ super().__init__( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 151, in __init__ self.dist = self._prepare() File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 234, in _prepare dist = self._prepare_distribution() File "$PREFIX/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 317, in _prepare_distribution return self._factory.preparer.prepare_linked_requirement( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/operations/prepare.py", line 508, in prepare_linked_requirement return self._prepare_linked_requirement(req, parallel_builds) File "$PREFIX/lib/python3.9/site-packages/pip/_internal/operations/prepare.py", line 570, in _prepare_linked_requirement dist = _get_prepared_distribution( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/operations/prepare.py", line 60, in _get_prepared_distribution abstract_dist.prepare_distribution_metadata(finder, build_isolation) File "$PREFIX/lib/python3.9/site-packages/pip/_internal/distributions/sdist.py", line 36, in prepare_distribution_metadata self.req.prepare_metadata() File "$PREFIX/lib/python3.9/site-packages/pip/_internal/req/req_install.py", line 563, in prepare_metadata self.metadata_directory = self._generate_metadata() File "$PREFIX/lib/python3.9/site-packages/pip/_internal/req/req_install.py", line 538, in _generate_metadata return generate_metadata_legacy( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/operations/build/metadata_legacy.py", line 67, in generate_metadata call_subprocess( File "$PREFIX/lib/python3.9/site-packages/pip/_internal/utils/subprocess.py", line 244, in call_subprocess raise InstallationSubprocessError(proc.returncode, command_desc) pip._internal.exceptions.InstallationSubprocessError: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output. Removed file://$SRC_DIR from build tracker '/tmp/pip-req-tracker-6c0x8lcn' Removed build tracker: '/tmp/pip-req-tracker-6c0x8lcn' Traceback (most recent call last): File "/home/conda/staged-recipes-copy/.ci_support/build_all.py", line 175, in build_all(os.path.join(root_dir, "recipes"), args.arch) File "/home/conda/staged-recipes-copy/.ci_support/build_all.py", line 100, in build_all build_folders(recipes_dir, folders, arch, channel_urls) File "/home/conda/staged-recipes-copy/.ci_support/build_all.py", line 156, in build_folders conda_build.api.build([recipe], config=get_config(arch, channel_urls)) File "/opt/conda/lib/python3.8/site-packages/conda_build/api.py", line 186, in build return build_tree( File "/opt/conda/lib/python3.8/site-packages/conda_build/build.py", line 3068, in build_tree packages_from_this = build(metadata, stats, File "/opt/conda/lib/python3.8/site-packages/conda_build/build.py", line 2191, in build utils.check_call_env(cmd, env=env, rewrite_stdout_env=rewrite_env, File "/opt/conda/lib/python3.8/site-packages/conda_build/utils.py", line 412, in check_call_env return _func_defaulting_env_to_os_environ('call', *popenargs, **kwargs) File "/opt/conda/lib/python3.8/site-packages/conda_build/utils.py", line 392, in _func_defaulting_env_to_os_environ raise subprocess.CalledProcessError(proc.returncode, _args) subprocess.CalledProcessError: Command '['/bin/bash', '-o', 'errexit', '/home/conda/staged-recipes/build_artifacts/pygbif_1622587822896/work/conda_build.sh']' returned non-zero exit status 1. ```
JWCook commented 3 years ago

Looks like you just need to add the requirements from your setup.py to requirements.run:

requirements:
    host:
        - python
        - pip
    run:
        - requests >=2.7
        - etc.
JWCook commented 3 years ago

Oh, one small problem, though: looks like geojson_rewind and geomet don't have conda packages available, so those would need to be published first.

@pjgoodall If you wanted to give that a try, there's a handy tool called grayskull that can grab package metadata from PyPI and generate a Conda recipe from it. It usually requires a bit of manual adjustment after that, but it does about 80% of the work for you.

Alternatively, you could probably get away with publishing pygbif without those dependencies, and do without the wkt_rewind utils in the Conda version for now. It looks like those are optional features, right?

pjgoodall commented 3 years ago

Thanks @JWCook will put this on my list. I need to learn how to do this anyway.

JWCook commented 3 years ago

If/when you submit PRs for those, feel free to ping me if you run into any problems.

sckott commented 3 years ago

looks like geojson_rewind and geomet don't have conda packages available, so those would need to be published first.

Thanks, so I should wait for this, correct?

JWCook commented 3 years ago

Right, there's nothing else to do until those dependencies are published.

sckott commented 3 years ago

thanks. ran again after adding deps to the meta file - and ran into the missing geojson_rewind - so will wait for that

Rassine commented 7 months ago

thanks. ran again after adding deps to the meta file - and ran into the missing geojson_rewind - so will wait for that

If I'm not mistaken, geojson_rewind exist now as a conda package under the name geojson-rewind here, Are you still planning on building pygbif on conda ?

I would be happy to help but I'm still learning to do conda recepe on tools that needs pygbif

sckott commented 7 months ago

i no longer maintain this. @CecSve ?

CecSve commented 7 months ago

Thank you - we will look into it!