Works on Mac OS 10.11.6, HDF5 1.8.17
$ CC=/usr/local/bin/mpicc ./configure --with-zlib=/usr/local/opt --disable-fortran --prefix=/usr/local/ --enable-shared --enable-parallel
Bayesian phylogentic programs like MrBayes and BEAST work better when the BEAGLE library is installed. BEAGLE provides these programs with an MCMC sampler using CPU-based or GPU-based computation. Therefore, before compiling or using MrBayes and BEAST, BEAGLE and other prerequisites must be set-up and installed first. Unfortunately, setting-up all these software and libraries can become pretty frustrating very quickly.
Here I show how to properly set-up these programs to keep your frustration to a minimum. Broadly speaking, these instructions are applicable for Windows, Mac, and Linux. However, because I am specifically recounting my own experiencing setting-up my Linux machine, the more detailed parts of this guide focuses on installing on Linux.
| GENETIC_CODE = { | |
| 'AAA': 'K', | |
| 'AAC': 'N', | |
| 'AAG': 'K', | |
| 'AAT': 'N', | |
| 'ACA': 'T', | |
| 'ACC': 'T', | |
| 'ACG': 'T', | |
| 'ACT': 'T', | |
| 'AGA': 'R', |
| # 1. What will the following code print out? | |
| x = 0 | |
| if x > 10: | |
| print(True) | |
| else: | |
| print(False) | |
| # 2. Refer to the following function | |
| def f(a, b=0): | |
| if 0 in a: |
| def fibo_r(x): | |
| if x <= 2: | |
| return 1 | |
| return fibo_r(x-1) + fibo_r(x-2) | |
| def fibo_l(x): | |
| l = [0, 1, 1] | |
| if x <= 2: | |
| return 1 | |
| for i in range(3, x): |
| # Add .asoundrc file | |
| Copied from https://gist.github.com/AfzalivE/54214bf437ca1775b5b8e7934cc137db | |
| ``` | |
| # ps3 eye + 3.5mm speaker Raspberry Pi | |
| ## Suggested by http://julius.sourceforge.jp/forum/viewtopic.php?f=9&t=66 | |
| ## Modified by https://github.com/afzalive | |
| pcm.jack { | |
| type hw | |
| card ALSA |