ghmm在 Linux 上安装

ghmm在 Linux 上安装

http://ghmm.sourceforge.net/documentation.html

http://www.ghmm.org

http://www.comp.leeds.ac.uk/roger/HiddenMarkovModels/html_dev/main.html

1）先安装pcre, libxml2

rhel6:

yum install pcre-devel
yum install libxml2
yum install libxml2-devel

ubuntu:

sudo apt-get install libpcre3 libpcre3-dev

你可能还需要安装
sudo apt-get install openssl libssl-dev
sudo apt-get install automake
sudo apt-get install libxml2-dev
sudo apt-get install pkg-config

2）再安装swig

ftp://pub:pub@pepstack.com/tarball/swig-3.0.10.tgz

./configure
make
sudo make install

3）安装ghmm

从下面的网址下载。原网站的代码里面含有很多错误。我都fix掉了。

ftp://pub:pub@pepstack.com/tarball/ghmm-0.9rc3-fix.tgz

cd ghmm
sh autogen.sh
vi ./configure

在15003行，修改：
$RM "$cfgfile"
为：
$RM -f "$cfgfile"
./configure
make
sudo make install

或者：

cd ghmm
sh autogen.sh
./configure
make
sudo make install
cd ghmmwrapper
python2.7 setup.py build
sudo python2.7 setup.py install

如果是anaconda2环境，则：

/opt/anaconda2/bin/python setup.py build
sudo /opt/anaconda2/bin/python setup.py install

最后：

rhel6:

sudo ln -s /usr/local/lib/libghmm.so.1 /usr/lib64/libghmm.so.1

ubuntu:

sudo ln -s /usr/local/lib/libghmm.so.1 /usr/lib/libghmm.so.1

试试吧：

python2.7 -c "import ghmm"

如果是anaconda2:

/opt/anaconda2/bin/python -c "import ghmm"

可以用c或python玩hmm了！