Travis CI：安裝rpy2時出錯

我正在開發一個依賴於rpy2的python包。我想用Travis CI進行測試。在.travis.yml我安裝暢達和運行測試與：Travis CI：安裝rpy2時出錯

language: python 

# Be strict when checking our package 
warnings_are_errors: true 

# command to install dependencies 
install: 
    # http://conda.pydata.org/docs/travis.html 
    - wget https://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64.sh -O miniconda.sh; 
    - bash miniconda.sh -b -p $HOME/miniconda 
    - export PATH="$HOME/miniconda/bin:$PATH" 
    - hash -r 
    - conda config --set always_yes yes --set changeps1 no 
    - conda update -q conda 
    # Useful for debugging any issues with conda 
    - conda info -a 
    # Replace dep1 dep2 ... with your dependencies 
    - conda create -q -n test-environment python=$TRAVIS_PYTHON_VERSION numpy scipy matplotlib pandas cython 

    - source activate test-environment 

    - python setup.py install 

# command to run tests 
script: 
    - green ...

在setup.py：

from setuptools import setup, find_packages 

setup(
    version="0.0.0", 
    name="...", 
    packages=find_packages(), 
    install_requires=[ 
     ... 
     "green>=2.0.7", 
     "rpy2>=2.7.7", 
    ], 
)

當特拉維斯CI安裝我的包，我得到以下錯誤：

Installed /home/travis/miniconda/envs/test-environment/lib/python2.7/site-packages/tubtrack-0.0.0-py2.7.egg 
Processing dependencies for tubtrack==0.0.0 
Searching for rpy2>=2.7.7 
Reading https://pypi.python.org/simple/rpy2/ 
Best match: rpy2 2.7.7 
Downloading https://pypi.python.org/packages/source/r/rpy2/rpy2-2.7.7.tar.gz#md5=be93432426744cdae8a0e5d2b157d371 
Processing rpy2-2.7.7.tar.gz 
Writing /tmp/easy_install-CF50ds/rpy2-2.7.7/setup.cfg 
Running rpy2-2.7.7/setup.py -q bdist_egg --dist-dir /tmp/easy_install-CF50ds/rpy2-2.7.7/egg-dist-tmp-TTJjtB 
error: Setup script exited with Error: Tried to guess R's HOME but no command (R) in the PATH.

我想知道如果有人知道如何解決它？我試圖在.travis.yml安裝R：

addons: 
    apt: 
    packages: 
    - r

但是，它並沒有改變錯誤信息......

編輯：在有人指出，我需要至少指定一個評論來源addons.apt.sources APT插件的工作和R包被命名爲r-base。我做了以下修改中.travis.yml：

addons: 
    apt: 
    sources: 
    - r-packages-precise 
    packages: 
    - r-base

現在看來，rpy2可以找到R，但我仍然得到一個錯誤，當測試期間，與運行輸入：

Traceback (most recent call last): 
    File "/home/travis/miniconda/envs/test-environment/lib/python2.7/site-packages/green-2.2.0-py2.7.egg/green/loader.py", line 212, in loadFromModuleFilename 
    __import__(dotted_module) 
    File "xxx/xxx/xxx.py", line 4, in <module> 
    from .. import tools 
    File "xxx/tools.py", line 5, in <module> 
    import rpy2.robjects as robjects 
    File "/home/travis/miniconda/envs/test-environment/lib/python2.7/site-packages/rpy2-2.7.7-py2.7-linux-x86_64.egg/rpy2/robjects/__init__.py", line 15, in <module> 
    import rpy2.rinterface as rinterface 
    File "/home/travis/miniconda/envs/test-environment/lib/python2.7/site-packages/rpy2-2.7.7-py2.7-linux-x86_64.egg/rpy2/rinterface/__init__.py", line 99, in <module> 
    from rpy2.rinterface._rinterface import * 
ImportError: /home/travis/miniconda/envs/test-environment/lib/libreadline.so.6: undefined symbol: PC

但是，在我的筆記本電腦上它工作正常！所以我想這個問題仍然是rpy2沒有正確安裝。

來源

2016-01-26 desa

R不是包裝。從[這裏]安裝（https://cran.r-project.org/）。當然，確保它在你的PATH上。 – alistaire

你知道如何自動使用Travis CI嗎？ – desa

Sorta在我的區域之外，但可能類似[this]（https://docs.travis-ci.com/user/languages/r）。 – alistaire

錯誤ImportError: /home/travis/miniconda/envs/test-environment/lib/libreadline.so.6: undefined symbol: PC實際上是由於由conda安裝的readline引起的。

這個Github issue有關於這個問題的更多細節。

我已驗證工作的解決方法是添加import readline。當我在.travis.yml script調用一個Python腳本，只有有

import rpy2.robjects

我得到同樣的錯誤ImportError: /home/travis/miniconda/envs/test-environment/lib/libreadline.so.6: undefined symbol: PC。

當我使用下面的代碼時，我的構建變綠。

import readline 
import rpy2.robjects

來源

2016-02-06 02:26:56 Chris

Travis CI：安裝rpy2時出錯

回答

相關問題