将Cython标记为构建依赖关系？

时间：2013-08-02 18:12:53

标签： python pip cython distutils pypi

有一个带有setup.py的Python包，可以这样读取：

from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext

setup(
  name = 'fastahack',
  ext_modules=[
    Extension("fastahack.cfastahack",
              sources=["fastahack/cfastahack.pyx", "lib/Fasta.cpp", "lib/split.cpp"],
              libraries=["stdc++"],
              include_dirs=["lib/"],
              language="c++"),
    ],
    package_data = {'lib': ['*.pyx', "*.c", "*.h", "README.rst"]},
    package_dir = {"fastahack": "fastahack"},
    cmdclass = {'build_ext': build_ext},
    packages = ['fastahack', 'fastahack.tests'],
    author = "Brent Pedersen",
    author_email="bpederse@gmail.com",
    #test_suite='nose.collector'
)

如果未安装Cython，则无法导入此setup.py。据我所知，导入setup.py是像pip这样的工具如何找出包的依赖关系。我想设置这个包，以便它可以上传到PyPI，事实上它依赖于Cython注意到，所以当你尝试“pip install fastahack”时，或当你试图“下载”时，将下载并安装Cython pip“直接从Git存储库安装。

如果未安装Cython，我如何打包此模块以便从Internet正确安装？始终使用最新版本的Cython将是一个优势。

3 个答案:

答案 0 :(得分：3)

我的setup.py标准模板：

have_cython = False
try:
    from Cython.Distutils import build_ext as _build_ext
    have_cython = True
except ImportError:
    from distutils.command.build_ext import build_ext as _build_ext

if have_cython:
    foo  = Extension('foo', ['src/foo.pyx'])
else:
    foo  = Extension('foo', ['src/foo.c'])

setup (
   ...
   ext_modules=[foo],
   cmdclass={'build_ext': build_ext}

并且不要忘记提供带有包的扩展.c文件 - 这将允许用户在不安装cython的情况下构建模块。

答案 1 :(得分：1)

使用try和except进行Cython导入，并根据导入是否成功修改setup。查看setup.py的Pandas example

答案 2 :(得分：1)

您可以使用PEP-518项目规范将Cython指定为构建依赖项。

在文件[INFO] --- tycho-p2-repository-plugin:1.4.0:archive-repository (default-archive-repository) @ at.biooffice.rcp.product --- [INFO] Building zip: D:\WS18\git\at.biooffice.rcp.product\target\at.biooffice.rcp.product-3.0.1-SNAPSHOT.zip [INFO] [INFO] --- tycho-p2-director-plugin:1.4.0:materialize-products (materialize-products) @ at.biooffice.rcp.product --- [INFO] Installing product at.biooffice for environment win32/win32/x86_64 to D:\WS18\git\at.biooffice.rcp.product\target\products\at.biooffice\win32\win32\x86_64 Installing at.biooffice 3.0.1.201907011447. Installation failed. Cannot complete the install because one or more required items could not be found. Software being installed: BioOffice 3.0.1.201907011447 (at.biooffice 3.0.1.201907011447) Missing requirement: toolingwin32.win32.x86_64org.eclipse.equinox.ds 3.0.1.201907011447 requires 'osgi.bundle; org.eclipse.equinox.ds 1.6.0.v20190122-0806' but it could not be found Cannot satisfy dependency: From: BioOffice 3.0.1.201907011447 (at.biooffice 3.0.1.201907011447) To: org.eclipse.equinox.p2.iu; toolingat.biooffice.configuration [3.0.1.201907011447,3.0.1.201907011447] Cannot satisfy dependency: From: toolingat.biooffice.configuration 3.0.1.201907011447 To: org.eclipse.equinox.p2.iu; toolingwin32.win32.x86_64org.eclipse.equinox.ds [3.0.1.201907011447,3.0.1.201907011447] There were errors. See log file: D:\WS18\git\at.biooffice.parent\workspace\.metadata\.log [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary: [INFO] [INFO] BioOffice 3.0.1-SNAPSHOT ........................... SUCCESS [ 2.483 s] [INFO] microsoftsqlserver 2.0.0-SNAPSHOT .................. SUCCESS [ 0.590 s] [INFO] org.eclipse.gemini.dbaccess.microsoftsqlserver 2.0.0-SNAPSHOT SUCCESS [ 0.869 s] [INFO] com.mysql.jdbc 5.1.38-SNAPSHOT ..................... SUCCESS [ 0.170 s] [INFO] org.eclipse.gemini.dbaccess.mysql 5.1.38-SNAPSHOT .. SUCCESS [ 0.298 s] [INFO] at.biooffice.osgi.service.dialog 3.0.1-SNAPSHOT .... SUCCESS [ 0.269 s] [INFO] lumo.osgi.service.notification 3.0.1-SNAPSHOT ...... SUCCESS [ 0.457 s] [INFO] lumo.osgi.service.notification.impl 3.0.1-SNAPSHOT . SUCCESS [ 0.471 s] [INFO] lumo.core.runtime 3.0.1-SNAPSHOT ................... SUCCESS [ 18.182 s] [INFO] at.biooffice.osgi.service.eclipselink 3.0.1-SNAPSHOT SUCCESS [ 2.032 s] [INFO] at.biooffice.rcp 3.0.1-SNAPSHOT .................... SUCCESS [ 2.129 s] [INFO] at.biooffice.osgi.service.eclipselink.impl 3.0.1-SNAPSHOT SUCCESS [ 2.474 s] [INFO] lumo.exports.csv 3.0.1-SNAPSHOT .................... SUCCESS [ 1.399 s] [INFO] lumo.exports.mssql 3.0.1-SNAPSHOT .................. SUCCESS [ 1.387 s] [INFO] lumo.exports.kml 3.0.1-SNAPSHOT .................... SUCCESS [ 1.365 s] [INFO] lumo.exports.shp 3.0.1-SNAPSHOT .................... SUCCESS [ 1.209 s] [INFO] lumo.exports.vcard 3.0.1-SNAPSHOT .................. SUCCESS [ 1.260 s] [INFO] lumo.exports.taxaendangered 3.0.1-SNAPSHOT ......... SUCCESS [ 1.276 s] [INFO] lumo.imports.xml.nls 3.0.1-SNAPSHOT ................ SUCCESS [ 1.272 s] [INFO] lumo.osgi.service.multimedia 3.0.1-SNAPSHOT ........ SUCCESS [ 1.254 s] [INFO] lumo.osgi.service.multimedia.impl 3.0.1-SNAPSHOT ... SUCCESS [ 1.380 s] [INFO] at.biooffice.osgi.service.dialog.impl 3.0.1-SNAPSHOT SUCCESS [ 1.540 s] [INFO] at.biooffice.update 3.0.1-SNAPSHOT ................. SUCCESS [ 1.262 s] [INFO] at.biooffice.osgi.service.map 3.0.1-SNAPSHOT ....... SUCCESS [ 1.224 s] [INFO] at.biooffice.osgi.service.map.impl 3.0.1-SNAPSHOT .. SUCCESS [ 1.537 s] [INFO] at.biooffice.views.attachedliterature 3.0.1-SNAPSHOT SUCCESS [ 1.365 s] [INFO] at.biooffice.views.bioobject 3.0.1-SNAPSHOT ........ SUCCESS [ 1.399 s] [INFO] at.biooffice.common.admin 3.0.1-SNAPSHOT ........... SUCCESS [ 1.278 s] [INFO] at.biooffice.views.collection 3.0.1-SNAPSHOT ....... SUCCESS [ 1.266 s] [INFO] at.biooffice.views.contact 3.0.1-SNAPSHOT .......... SUCCESS [ 1.281 s] [INFO] at.biooffice.views.determination 3.0.1-SNAPSHOT .... SUCCESS [ 1.265 s] [INFO] at.biooffice.views.dataexchange 3.0.1-SNAPSHOT ..... SUCCESS [ 3.052 s] [INFO] at.biooffice.views.excursion 3.0.1-SNAPSHOT ........ SUCCESS [ 1.257 s] [INFO] at.biooffice.views.literature 3.0.1-SNAPSHOT ....... SUCCESS [ 1.263 s] [INFO] at.biooffice.views.lookups 3.0.1-SNAPSHOT .......... SUCCESS [ 1.326 s] [INFO] at.biooffice.views.multimedia 3.0.1-SNAPSHOT ....... SUCCESS [ 1.329 s] [INFO] at.biooffice.views.report 3.0.1-SNAPSHOT ........... SUCCESS [ 2.193 s] [INFO] at.biooffice.views.nls 3.0.1-SNAPSHOT .............. SUCCESS [ 1.284 s] [INFO] at.biooffice.views.project 3.0.1-SNAPSHOT .......... SUCCESS [ 1.279 s] [INFO] at.biooffice.views.querymanager 3.0.1-SNAPSHOT ..... SUCCESS [ 1.798 s] [INFO] at.biooffice.views.site 3.0.1-SNAPSHOT ............. SUCCESS [ 1.313 s] [INFO] at.biooffice.views.taxon 3.0.1-SNAPSHOT ............ SUCCESS [ 1.601 s] [INFO] at.biooffice.views.welcome 3.0.1-SNAPSHOT .......... SUCCESS [ 1.339 s] [INFO] at.biooffice.views.loan 3.0.1-SNAPSHOT ............. SUCCESS [ 1.375 s] [INFO] at.biooffice.views.servicemonitor 3.0.1-SNAPSHOT ... SUCCESS [ 1.235 s] [INFO] jre.win32.win32.x86_64 8.0.66 ...................... SUCCESS [ 2.631 s] [INFO] at.biooffice.feature 3.0.1-SNAPSHOT ................ SUCCESS [ 0.967 s] [INFO] at.biooffice.feature.admin 3.0.1-SNAPSHOT .......... SUCCESS [ 0.226 s] [INFO] at.biooffice.feature.free.addons 3.0.1-SNAPSHOT .... SUCCESS [ 0.275 s] [INFO] at.biooffice.rcp.product 3.0.1-SNAPSHOT ............ FAILURE [ 37.278 s] [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 07:01 min [INFO] Finished at: 2019-07-01T16:54:21+02:00 [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal org.eclipse.tycho:tycho-p2-director-plugin:1.4.0:materialize-products (materialize-products) on project at.biooffice.rcp.product: Installation of product at.biooffice for environment win32/win32/x86_64 failed: Call to p2 director application failed with exit code 13. Program arguments were: [-metadataRepository, file:/D:/WS18/git/at.biooffice.rcp.product/target/,file:/D:/WS18/git/at.biooffice.rcp.product/target/targetPlatformRepository/, -artifactRepository, file:/D:/WS18/git/at.biooffice.rcp.product/target/,file:/resolution-context-artifacts@D%253A%255CWS18%255Cgit%255Cat.biooffice.rcp.product,file:/D:/WS18/git/at.biooffice.rcp.product/target/,file:/D:/WS18/git/at.biooffice.feature/target/,file:/D:/WS18/git/at.biooffice.feature.admin/target/,file:/D:/WS18/git/at.biooffice.feature.free.addons/target/,file:/D:/WS18/git/at.biooffice.common.admin/target/,file:/D:/WS18/git/lumo.core.runtime/target/,file:/D:/WS18/git/at.biooffice.osgi.service.dialog/target/,file:/D:/WS18/git/lumo.osgi.service.notification/target/,file:/D:/WS18/git/at.biooffice.views.lookups/target/,file:/D:/WS18/git/at.biooffice.views.nls/target/,file:/D:/WS18/git/at.biooffice.views.querymanager/target/,file:/D:/WS18/git/lumo.imports.xml.nls/target/,file:/D:/WS18/git/jre.win32.win32.x86_64/target/,file:/D:/WS18/git/lumo.osgi.service.multimedia/target/,file:/D:/WS18/git/lumo.osgi.service.multimedia.impl/target/,file:/D:/WS18/git/lumo.osgi.service.notification.impl/target/,file:/D:/WS18/git/microsoftsqlserver/target/,file:/D:/WS18/git/org.eclipse.gemini.dbaccess.microsoftsqlserver/target/,file:/D:/WS18/git/at.biooffice.osgi.service.dialog.impl/target/,file:/D:/WS18/git/at.biooffice.osgi.service.eclipselink/target/,file:/D:/WS18/git/at.biooffice.osgi.service.eclipselink.impl/target/,file:/D:/WS18/git/at.biooffice.views.bioobject/target/,file:/D:/WS18/git/at.biooffice.views.collection/target/,file:/D:/WS18/git/at.biooffice.views.contact/target/,file:/D:/WS18/git/at.biooffice.views.dataexchange/target/,file:/D:/WS18/git/at.biooffice.views.excursion/target/,file:/D:/WS18/git/at.biooffice.views.literature/target/,file:/D:/WS18/git/at.biooffice.views.multimedia/target/,file:/D:/WS18/git/at.biooffice.views.report/target/,file:/D:/WS18/git/at.biooffice.views.project/target/,file:/D:/WS18/git/at.biooffice.views.site/target/,file:/D:/WS18/git/at.biooffice.views.taxon/target/,file:/D:/WS18/git/at.biooffice.views.welcome/target/,file:/D:/WS18/git/at.biooffice.rcp/target/,file:/D:/WS18/git/at.biooffice.update/target/,file:/D:/WS18/git/at.biooffice.views.determination/target/,file:/D:/WS18/git/at.biooffice.views.attachedliterature/target/,file:/D:/WS18/git/at.biooffice.views.loan/target/,file:/D:/WS18/git/com.mysql.jdbc/target/,file:/D:/WS18/git/org.eclipse.gemini.dbaccess.mysql/target/,file:/D:/WS18/git/lumo.exports.kml/target/,file:/D:/WS18/git/lumo.exports.taxaendangered/target/,file:/D:/WS18/git/lumo.exports.vcard/target/,file:/D:/WS18/git/lumo.exports.shp/target/,file:/D:/WS18/git/lumo.exports.mssql/target/,file:/D:/WS18/git/lumo.exports.csv/target/,file:/D:/WS18/git/at.biooffice.osgi.service.map/target/,file:/D:/WS18/git/at.biooffice.osgi.service.map.impl/target/,file:/C:/Users/BlackPearl/.m2/repository/, -installIU, at.biooffice, -destination, D:\WS18\git\at.biooffice.rcp.product\target\products\at.biooffice\win32\win32\x86_64, -profile, DefaultProfile, -profileProperties, org.eclipse.update.install.features=true, -roaming, -p2.os, win32, -p2.ws, win32, -p2.arch, x86_64]. -> [Help 1] [ERROR] [ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch. [ERROR] Re-run Maven using the -X switch to enable full debug logging. [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException [ERROR] [ERROR] After correcting the problems, you can resume the build with the command [ERROR] mvn <goals> -rf :at.biooffice.rcp.product （与pyproject.toml相同的目录中）中插入：

setup.py

在构建软件包之前，将先安装Cython。

请注意，（当前）如果要以可编辑的方式（例如，使用[build-system] requires = ["setuptools", "wheel", "Cython"] 或--no-use-pep517在本地安装软件包，则需要将pip install传递给--editable

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