compile pindel in macOS

Compiling this software is so painful. Take a note of the install process:

(1) install port and gcc-47:
https://www.macports.org/install.php
http://www.ficksworkshop.com/blog/post/installing-gcc-on-mac

A thread may be useful for your reference: https://www.biostars.org/p/59235/

(2) download pindel

git clone git://github.com/genome/pindel.git

(3) download samtools

https://sourceforge.net/projects/samtools/files/samtools/1.2/

In my mac pro, only this version works!!!!!

*****DO NOT INSTALL samtools but the htslib-1.2.1

by ./configure 

make

make install

(4) ./INSTALL Full path to /samtools-1.2/htslib-1.2.1



https://www.biostars.org/p/59235/#266755