测序质控软件-trim_galore安装

1. 源代码下载：https://github.com/FelixKrueger/TrimGalore

2. 查看安装日志：

Installation

Trim Galore!is a a Perl wrapper around two tools: Cutadapt and FastQC. To use, ensure that these two pieces of software are available and copy the trim_galore script to a location available on the PATH.

For example:

#Check that cutadapt is installed

cutadapt --version

#Check that FastQC is installed

fastqc -v

#Install Trim Galore!

curl -fsSL https://github.com/FelixKrueger/TrimGalore/archive/0.4.5.tar.gz -o trim_galore.tar.gz tar xvzf trim_galore.tar.gz

mv TrimGalore-0.4.5/trim_galore /usr/bin

大概是说安装这个软件上之前需要安装Fastqc和cutadapt两个软件，Fastqc 使用conda 就可以安装。

3. cutadapt下载源代码：https://github.com/marcelm/cutadapt

安装：

          git clone https://github.com/marcelm/cutadapt/

          cd cutadapt

          python setup.py build_ext -i

需要下载cython，下载安装还是无法进行

没跑通，后面再看吧

4.使用conda安装cutadapt

cutadapt安装

5.安装trim_galore

export PATH=path$PATH

已安装