Bioops

Bioinformatics=(ACGAAG->AK)+(#!/bin/sh)+(P(A|B)=P(B|A)*P(A)/P(B))

Transfering to Github

| Comments

受《像黑客一样写博客》的启发和《像黑客一样写博客——Jekyll入门》的技术指导，打算把bioops迁移到github上。不怎么懂github和jekyll。搞了半天，基本上follow jekyllbootstrap上的文档。模版用make-reid；代码高亮用google-code-prettify；参照Markdown语法说明开始写博客。暂不打算整站迁移，先练练手。

补充：github+jekyll太nerdy了。现在的处理办法是两个都保留，但github只发原创，欢迎访问（RSS）。

大部分时间在折腾这个代码高亮，走了很多弯路，现将最后简易可行的方法记录如下：

  1. 在/_includes/themes/mark-reid/default.html中的</head>前加入
  • 在<body> tag中加入onload="prettyPrint()"
  • 在代码前后加<pre class="prettyprint">...</pre>标识高亮
  • 貌似对javascript代码无效，总是出错。所以用gist代替（如上所示）。

    • 另外，按照jekyll wiki上迁移wordpress文档的时候在安装mysqlplus会报错 

    ERROR:  Error installing mysqlplus:
    ERROR: Failed to build gem native extension.

        /usr/bin/ruby1.8 extconf.rb
checking for mysql_query() in -lmysqlclient... no
checking for main() in -lm... yes
checking for mysql_query() in -lmysqlclient... no
checking for main() in -lz... yes
checking for mysql_query() in -lmysqlclient... no
checking for main() in -lsocket... no
checking for mysql_query() in -lmysqlclient... no
checking for main() in -lnsl... yes
checking for mysql_query() in -lmysqlclient... no
checking for main() in -lmygcc... no
checking for mysql_query() in -lmysqlclient... no
*** extconf.rb failed ***
Could not create Makefile due to some reason, probably lack of
necessary libraries and/or headers.  Check the mkmf.log file for more
details.  You may need configuration options.

Provided configuration options:
    --with-opt-dir
    --without-opt-dir
    --with-opt-include
    --without-opt-include=${opt-dir}/include
    --with-opt-lib
    --without-opt-lib=${opt-dir}/lib
    --with-make-prog
    --without-make-prog
    --srcdir=.
    --curdir
    --ruby=/usr/bin/ruby1.8
    --with-mysql-config
    --without-mysql-config
    --with-mysql-dir
    --without-mysql-dir
    --with-mysql-include
    --without-mysql-include=${mysql-dir}/include
    --with-mysql-lib
    --without-mysql-lib=${mysql-dir}/lib
    --with-mysqlclientlib
    --without-mysqlclientlib
    --with-mlib
    --without-mlib
    --with-mysqlclientlib
    --without-mysqlclientlib
    --with-zlib
    --without-zlib
    --with-mysqlclientlib
    --without-mysqlclientlib
    --with-socketlib
    --without-socketlib
    --with-mysqlclientlib
    --without-mysqlclientlib
    --with-nsllib
    --without-nsllib
    --with-mysqlclientlib
    --without-mysqlclientlib
    --with-mygcclib
    --without-mygcclib
    --with-mysqlclientlib
    --without-mysqlclientlib

Gem files will remain installed in /var/lib/gems/1.8/gems/mysqlplus-0.1.2 for inspection.
Results logged to /var/lib/gems/1.8/gems/mysqlplus-0.1.2/ext/gem_make.out

    解决办法参照https://github.com/lorensr/mysqlplus/tree/及自己琢磨： 

    sudo apt-get install libmysql++-dev
sudo gem install hpricot
    转换成功后生成的是html文件，并且换行符显示的是^M（dos下的回车符），为了让转换后的文章正确分段，可先将html后缀变成md，然后批量去掉^M 
    rename -v s/\.html/\.md/ *
dos2unix *.md

    Comments