Snakemake storage plugin: apd

https://img.shields.io/badge/repository-unknown-blue?color=%23022c22 https://img.shields.io/badge/author-Chris%20Burr%20%3Cchristopher.burr%40cern.ch%3E-purple?color=%23064e3b https://img.shields.io/badge/author-Matthew%20Monk%20%3Cmatthew.david.monk%40cern.ch%3E-purple?color=%23064e3b PyPI - Version PyPI - License

Error

Cannot be installed with latest stable snakemake: Collecting snakemake
  Using cached snakemake-9.5.1-py3-none-any.whl.metadata (2.7 kB)
Collecting snakemake-storage-plugin-apd==0.1.4
  Downloading snakemake_storage_plugin_apd-0.1.4-py3-none-any.whl.metadata (1.1 kB)
Collecting apd<1.0,>=0.8.1 (from snakemake-storage-plugin-apd==0.1.4)
  Downloading apd-0.8.1-py3-none-any.whl.metadata (3.8 kB)
Collecting snakemake-interface-common<2,>=1.15.0 (from snakemake-storage-plugin-apd==0.1.4)
  Using cached snakemake_interface_common-1.18.0-py3-none-any.whl.metadata (474 bytes)
Collecting snakemake-interface-storage-plugins<5,>=4.1 (from snakemake-storage-plugin-apd==0.1.4)
  Using cached snakemake_interface_storage_plugins-4.2.1-py3-none-any.whl.metadata (11 kB)
Collecting xrootd<6,>=5.6 (from snakemake-storage-plugin-apd==0.1.4)
  Downloading xrootd-5.8.2.tar.gz (6.9 MB)
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  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Collecting requests (from apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
Collecting click (from apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Downloading click-8.2.1-py3-none-any.whl.metadata (2.5 kB)
Collecting click-log (from apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Downloading click_log-0.4.0-py2.py3-none-any.whl.metadata (1.2 kB)
Collecting rich (from apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Downloading rich-14.0.0-py3-none-any.whl.metadata (18 kB)
Collecting argparse-dataclass>=2.0.0 (from snakemake-interface-common<2,>=1.15.0->snakemake-storage-plugin-apd==0.1.4)
  Using cached argparse_dataclass-2.0.0-py3-none-any.whl.metadata (7.2 kB)
Collecting ConfigArgParse>=1.7 (from snakemake-interface-common<2,>=1.15.0->snakemake-storage-plugin-apd==0.1.4)
  Using cached configargparse-1.7.1-py3-none-any.whl.metadata (24 kB)
Collecting reretry>=0.11.8 (from snakemake-interface-storage-plugins<5,>=4.1->snakemake-storage-plugin-apd==0.1.4)
  Using cached reretry-0.11.8-py2.py3-none-any.whl.metadata (5.5 kB)
Collecting throttler>=1.2.2 (from snakemake-interface-storage-plugins<5,>=4.1->snakemake-storage-plugin-apd==0.1.4)
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Collecting wrapt>=1.15.0 (from snakemake-interface-storage-plugins<5,>=4.1->snakemake-storage-plugin-apd==0.1.4)
  Using cached wrapt-1.17.2-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.4 kB)
Collecting appdirs (from snakemake)
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Collecting connection_pool>=0.0.3 (from snakemake)
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Collecting docutils (from snakemake)
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Collecting gitpython (from snakemake)
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Collecting jinja2<4.0,>=3.0 (from snakemake)
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Collecting psutil (from snakemake)
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Collecting pulp<3.2,>=2.3.1 (from snakemake)
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Collecting pyyaml (from snakemake)
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Collecting smart-open<8.0,>=4.0 (from snakemake)
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Collecting snakemake-interface-executor-plugins<10.0,>=9.3.2 (from snakemake)
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Collecting snakemake-interface-report-plugins<2.0.0,>=1.1.0 (from snakemake)
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Collecting tabulate (from snakemake)
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Collecting dpath<3.0.0,>=2.1.6 (from snakemake)
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Collecting conda-inject<2.0,>=1.3.1 (from snakemake)
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Collecting MarkupSafe>=2.0 (from jinja2<4.0,>=3.0->snakemake)
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Collecting charset-normalizer<4,>=2 (from requests->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
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Collecting idna<4,>=2.5 (from requests->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
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Collecting urllib3<3,>=1.21.1 (from requests->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Using cached urllib3-2.4.0-py3-none-any.whl.metadata (6.5 kB)
Collecting certifi>=2017.4.17 (from requests->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
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Collecting plac<2.0.0,>=1.3.4 (from yte<2.0,>=1.5.5->snakemake)
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Collecting gitdb<5,>=4.0.1 (from gitpython->snakemake)
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Collecting smmap<6,>=3.0.1 (from gitdb<5,>=4.0.1->gitpython->snakemake)
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Collecting attrs>=22.2.0 (from jsonschema->snakemake)
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Collecting traitlets>=5.1 (from nbformat->snakemake)
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Collecting platformdirs>=2.5 (from jupyter-core!=5.0.*,>=4.12->nbformat->snakemake)
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Collecting markdown-it-py>=2.2.0 (from rich->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Downloading markdown_it_py-3.0.0-py3-none-any.whl.metadata (6.9 kB)
Collecting pygments<3.0.0,>=2.13.0 (from rich->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
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Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->apd<1.0,>=0.8.1->snakemake-storage-plugin-apd==0.1.4)
  Downloading mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
Downloading snakemake_storage_plugin_apd-0.1.4-py3-none-any.whl (4.7 kB)
Downloading apd-0.8.1-py3-none-any.whl (37 kB)
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Building wheels for collected packages: xrootd
  Building wheel for xrootd (pyproject.toml): started
  Building wheel for xrootd (pyproject.toml): finished with status 'error'
  error: subprocess-exited-with-error

  × Building wheel for xrootd (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [140 lines of output]
      running bdist_wheel
      running build
      running build_py
      creating build/lib.linux-x86_64-cpython-311/XRootD
      copying bindings/python/libs/__init__.py -> build/lib.linux-x86_64-cpython-311/XRootD
      creating build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/flags.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/file.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/__init__.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/filesystem.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/env.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/_version.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/glob_funcs.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/url.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/responses.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/finalize.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/utils.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      copying bindings/python/libs/client/copyprocess.py -> build/lib.linux-x86_64-cpython-311/XRootD/client
      creating build/lib.linux-x86_64-cpython-311/pyxrootd
      copying bindings/python/src/__init__.py -> build/lib.linux-x86_64-cpython-311/pyxrootd
      running build_ext
      -- The C compiler identification is GNU 13.3.0
      -- The CXX compiler identification is GNU 13.3.0
      -- Detecting C compiler ABI info
      -- Detecting C compiler ABI info - done
      -- Check for working C compiler: /usr/bin/cc - skipped
      -- Detecting C compile features
      -- Detecting C compile features - done
      -- Detecting CXX compiler ABI info
      -- Detecting CXX compiler ABI info - done
      -- Check for working CXX compiler: /usr/bin/c++ - skipped
      -- Detecting CXX compile features
      -- Detecting CXX compile features - done
      -- Looking for setresuid
      -- Looking for setresuid - found
      -- Looking for strlcpy
      -- Looking for strlcpy - found
      -- Looking for fstatat
      -- Looking for fstatat - found
      -- Looking for sigwaitinfo
      -- Looking for sigwaitinfo - found
      -- Looking for shadow.h
      -- Looking for shadow.h - found
      -- Looking for getifaddrs
      -- Looking for getifaddrs - found
      -- Looking for getnameinfo
      -- Looking for getnameinfo - found
      -- Looking for getprotobyname_r
      -- Looking for getprotobyname_r - found
      -- Looking for gethostbyaddr_r
      -- Looking for gethostbyaddr_r - found
      -- Looking for sendfile
      -- Looking for sendfile - found
      -- Looking for crypt
      -- Looking for crypt - not found
      -- Looking for crypt in crypt
      -- Looking for crypt in crypt - found
      -- Looking for et/com_err.h
      -- Looking for et/com_err.h - not found
      -- Performing Test CMAKE_HAVE_LIBC_PTHREAD
      -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
      -- Found Threads: TRUE
      -- Performing Test HAVE_ATOMICS
      -- Performing Test HAVE_ATOMICS - Success
      -- Performing Test HAVE_CXX_ATOMICS_WITHOUT_LIB
      -- Performing Test HAVE_CXX_ATOMICS_WITHOUT_LIB - Success
      -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3")
      -- Checking for module 'uuid'
      --   Package 'uuid', required by 'virtual:world', not found
      CMake Error at /usr/local/share/cmake-3.31/Modules/FindPkgConfig.cmake:645 (message):
        The following required packages were not found:

         - uuid

      Call Stack (most recent call first):
        /usr/local/share/cmake-3.31/Modules/FindPkgConfig.cmake:873 (_pkg_check_modules_internal)
        cmake/Findlibuuid.cmake:73 (pkg_check_modules)
        cmake/XRootDFindLibs.cmake:6 (find_package)
        CMakeLists.txt:37 (include)


      -- Configuring incomplete, errors occurred!
      Traceback (most recent call last):
        File "/home/runner/micromamba/envs/9ba9d8bd3edd46ba9b6ed780ee02725a/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 389, in <module>
          main()
        File "/home/runner/micromamba/envs/9ba9d8bd3edd46ba9b6ed780ee02725a/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 373, in main
          json_out["return_val"] = hook(**hook_input["kwargs"])
                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/home/runner/micromamba/envs/9ba9d8bd3edd46ba9b6ed780ee02725a/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 280, in build_wheel
          return _build_backend().build_wheel(
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 435, in build_wheel
          return _build(['bdist_wheel', '--dist-info-dir', str(metadata_directory)])
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 423, in _build
          return self._build_with_temp_dir(
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 404, in _build_with_temp_dir
          self.run_setup()
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 317, in run_setup
          exec(code, locals())
        File "<string>", line 94, in <module>
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/__init__.py", line 115, in setup
          return distutils.core.setup(**attrs)
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/core.py", line 186, in setup
          return run_commands(dist)
                 ^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/core.py", line 202, in run_commands
          dist.run_commands()
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/dist.py", line 1002, in run_commands
          self.run_command(cmd)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/dist.py", line 1102, in run_command
          super().run_command(command)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
          cmd_obj.run()
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/command/bdist_wheel.py", line 370, in run
          self.run_command("build")
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/cmd.py", line 357, in run_command
          self.distribution.run_command(command)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/dist.py", line 1102, in run_command
          super().run_command(command)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
          cmd_obj.run()
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/command/build.py", line 135, in run
          self.run_command(cmd_name)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/cmd.py", line 357, in run_command
          self.distribution.run_command(command)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/dist.py", line 1102, in run_command
          super().run_command(command)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/dist.py", line 1021, in run_command
          cmd_obj.run()
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/command/build_ext.py", line 96, in run
          _build_ext.run(self)
        File "/tmp/pip-build-env-5meqrg8k/overlay/lib/python3.11/site-packages/setuptools/_distutils/command/build_ext.py", line 368, in run
          self.build_extensions()
        File "<string>", line 89, in build_extensions
        File "/home/runner/micromamba/envs/9ba9d8bd3edd46ba9b6ed780ee02725a/lib/python3.11/subprocess.py", line 413, in check_call
          raise CalledProcessError(retcode, cmd)
      subprocess.CalledProcessError: Command '['/usr/local/bin/cmake', '/tmp/pip-install-26iwvra8/xrootd_bd392ee178564847b6daad298620d366', '-B', 'build/temp.linux-x86_64-cpython-311', '-DPython_EXECUTABLE=/home/runner/micromamba/envs/9ba9d8bd3edd46ba9b6ed780ee02725a/bin/python3.11', '-DCMAKE_BUILD_WITH_INSTALL_RPATH=TRUE', '-DCMAKE_ARCHIVE_OUTPUT_DIRECTORY=build/temp.linux-x86_64-cpython-311/pyxrootd', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/tmp/pip-install-26iwvra8/xrootd_bd392ee178564847b6daad298620d366/build/lib.linux-x86_64-cpython-311/pyxrootd', '-DENABLE_PYTHON=1', '-DENABLE_XRDCL=1', '-DXRDCL_LIB_ONLY=1', '-DPYPI_BUILD=1', '-DCMAKE_INSTALL_RPATH=$ORIGIN']' returned non-zero exit status 1.
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for xrootd
Failed to build xrootd
ERROR: Failed to build installable wheels for some pyproject.toml based projects (xrootd)


Please contact the plugin authors.

Warning

No repository URL found in Pypi metadata. The plugin should specify a repository URL in its pyproject.toml (key 'repository'). It is unclear whether the plugin is maintained and reviewed by the official Snakemake organization (https://github.com/snakemake).