ubuntu安装hicpro

ref：GitHub - nservant/HiC-Pro: HiC-Pro: An optimized and flexible pipeline for Hi-C data processing

To install HiC-Pro (>=2.7.8), be sure to have the appropriate rights and run :

tar -zxvf HiC-Pro-master.tar.gz

cd HiC-Pro-master

## Edit config-install.txt file if necessary

make configure

make install

# Q:

报错

解决：

emmm

发现用的py3.6

改用py2.7：

source activate py2.7

make configure

# Q2：

R packages NOT installed successfully. Look at the tmp/install_Rpackages.Rout for additional informations

看来是R包的原因喽！

文件中：R with the RColorBrewer and ggplot2 (>2.2.1) packages

install.packages("RColorBrewer")

install.packages("ggplot2")

主要问题为：

安装程序包‘ggplot2’时退出狀態的值不是0

1.尝试用：

install.packages("ggplot2", repos = "http://cran.r-project.org")

不行！

2.R版本的问题:

在py2.7下:

which R

发现是conda安装的并且是3.4

于是全部卸载;

本机安装的是R3.5的,卸载后再进入R就是R3.5

which R

/usr/bin/R

---

# make configure

顺利成功!

# make install

安装成功!

---

SYSTEM CONFIGURATION

PREFIXPath to installation folder

BOWTIE2_PATHFull path the bowtie2 installation directory

SAMTOOLS_PATHFull path to the samtools installation directory (>1.1 )

R_PATHFull path to the R installation directory

PYTHON_PATHFull path to the python installation directory (>2.7 - python3 not supported)

CLUSTER_SYSScheduler to use for cluster submission. Must be TORQUE, SGE, SLURM or LSF

---

# 使用测试数据试一把后完全OK!