安装deepTools需要依赖pyBigWig包。
安装pyBigWig包时出错：
$ pip install pyBigWig==0.2.5
Downloading/unpacking pyBigWig==0.2.5
Downloading pyBigWig-0.2.5.tar.gz (48kB): 48kB downloaded
Running setup.py (path:/tmp/pip_build_labubuntu/pyBigWig/setup.py) egg_info fo r package pyBigWig
/usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'classifier'
warnings.warn(msg)
warning: no files found matching 'galaxy/*'
warning: no previously-included files found matching 'pyBigWig.egg-info/*'
Installing collected packages: pyBigWig
Running setup.py install for pyBigWig
/usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'classifier'
warnings.warn(msg)
warning: no files found matching 'galaxy/*'
building 'pyBigWig' extension
x86_64-linux-gnu-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 - Wall -Wstrict-prototypes -fPIC -IlibBigWig -I/usr/include/python2.7 -I/usr/inclu de/python2.7 -c libBigWig/bwWrite.c -o build/temp.linux-x86_64-2.7/libBigWig/bwW rite.o
In file included from libBigWig/bigWig.h:1:0,
from libBigWig/bwWrite.c:6:
libBigWig/io.h:1:23: fatal error: curl/curl.h: No such file or directory
#include
^
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
Complete output from command /usr/bin/python -c "import setuptools, tokenize ;__file__='/tmp/pip_build_labubuntu/pyBigWig/setup.py';exec(compile(getattr(toke nize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-nDt9LG-record/install-record.txt --single-version-exte rnally-managed --compile:
/usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'classifier'
warnings.warn(msg)
running install
running build
running build_py
creating build
creating build/lib.linux-x86_64-2.7
creating build/lib.linux-x86_64-2.7/pyBigWigTest
copying pyBigWigTest/test.py -> build/lib.linux-x86_64-2.7/pyBigWigTest
copying pyBigWigTest/__init__.py -> build/lib.linux-x86_64-2.7/pyBigWigTest
running egg_info
writing pyBigWig.egg-info/PKG-INFO
writing top-level names to pyBigWig.egg-info/top_level.txt
writing dependency_links to pyBigWig.egg-info/dependency_links.txt
warning: manifest_maker: standard file '-c' not found
reading manifest file 'pyBigWig.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'galaxy/*'
writing manifest file 'pyBigWig.egg-info/SOURCES.txt'
copying pyBigWigTest/test.bw -> build/lib.linux-x86_64-2.7/pyBigWigTest
running build_ext
building 'pyBigWig' extension
creating build/temp.linux-x86_64-2.7
creating build/temp.linux-x86_64-2.7/libBigWig
x86_64-linux-gnu-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -IlibBigWig -I/usr/include/python2.7 -I/usr/include/p ython2.7 -c libBigWig/bwWrite.c -o build/temp.linux-x86_64-2.7/libBigWig/bwWrite .o
In file included from libBigWig/bigWig.h:1:0,
from libBigWig/bwWrite.c:6:
libBigWig/io.h:1:23: fatal error: curl/curl.h: No such file or directory
#include
^
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Cleaning up...
Command /usr/bin/python -c "import setuptools, tokenize;__file__='/tmp/pip_build _labubuntu/pyBigWig/setup.py';exec(compile(getattr(tokenize, 'open', open)(__fil e__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip -nDt9LG-record/install-record.txt --single-version-externally-managed --compile failed with error code 1 in /tmp/pip_build_labubuntu/pyBigWig
Storing debug log for failure in /home/labubuntu/.pip/pip.log
找到错误
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
上网搜索解决方法发现，原来是安装pyBigWig需要的依赖包没有安装全；
再回到报错中寻找,发现是因为没有安装curl模块：
libBigWig/io.h:1:23: fatal error: curl/curl.h: No such file or directory
安装curl模块
$ sudo apt-get install curl libcurl3 libcurl3-dev php5-curl
再次安装pyBigWig包
$ pip install pyBigWig==0.2.5
还是失败，发现是权限不够：
error: [Errno 13] Permission denied: '/usr/local/lib/python2.7/dist-packages/pyB igWig.so'
root权限
$ sudo pip install pyBigWig==0.2.5