Gfold安装:Error while loading shar

conda 下安装gfold

conda activate python27
conda install -c bioconda gfold

###安装后 ，gfold -h出现报错：Error while loading shared libraries: libgsl.so.0: cannot object file: No such fileopen shared object file: No such file or directory

解决：

1. gfold 依赖于gsl库，先确认好已安装好gsl相关软件，which gsl查找一下；
2. 查找到已安装过gsl, ln -s软连接到conda 指定环境下的share文件夹，并重命名gsl为 libgsl.so.0；
3. 确定没有安装，安装一下，再重复2的动作

下载gsl软件包

wget -c http://mirrors.ustc.edu.cn/gnu/gsl/gsl-2.4.tar.gz
##解压
tar -zxvf gsl-2.4.tar.gz

进入软件目录开始安装

cd /home/u20111230014/workspace/software/gsl-2.4

###先configure
./configure --prefix=/home/u20111230014/workspace/software/gsl-2.4

##编译：
make
###安装库之前测试一下是否make成功：
make check
PS:若make 或 make check报错:fatal error: gsl/gsl_minmax.h: No such file or directory
则修改文件夹gsl-2.4为gsl, 再重新make，再make check

###安装库：make install
###最后所有都没报错后，重新configure一次
./configure --prefix=/home/u20111230014/workspace/software/gsl-2.4

##配置环境变量，添加以下入：vim ~/.bashrc
export C_INCLUDE_PATH=$C_INCLUDE_PATH:/home/u20111230014/workspace/software/gsl-2.4/include
export CPLUS_INCLUDE_PATH=$CPLUS_INCLUDE_PATH:/home/u20111230014/workspace/software/gsl-2.4
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH::/home/u20111230014/workspace/software/gsl-2.4/lib
export LIBRARY_PATH=$LIBRARY_PATH::/home/u20111230014/workspace/software/gsl-2.4/lib

###测试安装是否成功
##输入两句，分别生成test.o 和a.out，出现 a.out执行文件则成功
gcc -Wall -I/home/u20111230014/workspace/software/gsl-2.4/include -c test.c
chmod 755 test.c 
gcc -L/home/u20111230014/workspace/software/gsl-2.4/lib test.o -lgsl -lgslcblas -lm

#
##软连接到conda指定环境下的lib和share文件夹 
/home/u20111230014/miniconda3/envs/python27/lib
/home/u20111230014/miniconda3/envs/python27/share/:

ln -s /home/u20111230014/workspace/software/gsl-2.4/lib/libgsl.so.23.0.0
ln -s /home/u20111230014/workspace/software/gsl-2.4/lib/libgsl.so.23.0.0 libgsl.so.0

必须两个文件夹均有软连接，不然重启conda 后又会一样报错

唤醒软件

gfold -h
     =============================================================================== 
          gfold    :   Generalized fold change for ranking differentially expressed   
                       genes from RNA-seq data.

          Author   :   Jianxing Feng (jianxing.tongji@gmail.com)
            Date   :   Sun May 24 07:42:36 CST 2015
          Version  :   V1.1.4
      =============================================================================== 

      USAGE:   Please go to the source code directory and use command 'man doc/gfold.man' 
               or open doc/gfold.html to find documentation.

      Quick Examples: 
               gfold count -ann hg19Ref.gtf -tag sample1.sam -o sample1.read_cnt          
               gfold count -ann hg19Ref.gtf -tag sample2.sam -o sample2.read_cnt          
               gfold diff -s1 sample1 -s2 sample2 -suf .read_cnt -o sample1VSsample2.diff 

参考：
https://blog.csdn.net/u012248802/article/details/80655902

转自：https://www.jianshu.com/p/551ab323b593
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