Ubuntu安装cummeRbund

安装好R语言后，接下来安装cummeRbund

biocLite("cummeRbund")

由于系统环境原因，有些文件没安装，如libxml2-dev libcurl-dev，这些都是安装cummeRbund时需要提前配置的。由于错误可能很多，所以我选择先手动安装cummeRbund所需要的包。过程如下：

  install.packages("RSQLite") 

  install.packages("ggplot2") 

  install.packages("plyr") 

  install.packages("fastcluster") 

  source("http://www.bioconductor.org/biocLite.R") 

  biocLite("rtracklayer") 

  biocLite("Gviz") 

  biocLite("BiocGenerics") 

  biocLite("cummeRbund")

如果出现以下错误：

Cannot find xml2-config

ERROR: configuration failed for package ‘XML’

* removing ‘/usr/local/lib/R/site-library/XML’

* installing *source* package ‘RCurl’ ...

** package ‘RCurl’ successfully unpacked and MD5 sums checked

checking for curl-config... no

Cannot find curl-config

ERROR: configuration failed for package ‘RCurl’

* removing ‘/usr/local/lib/R/site-library/RCurl’

ERROR: dependencies ‘XML’, ‘RCurl’ are not available for package ‘rtracklayer’

* removing ‘/usr/local/lib/R/site-library/rtracklayer’

The downloaded source packages are in

‘/tmp/RtmpM5a8Xe/downloaded_packages’

Warning messages:

1: In install.packages(pkgs = doing, lib = lib, ...) :

  installation of package ‘XML’ had non-zero exit status

2: In install.packages(pkgs = doing, lib = lib, ...) :

  installation of package ‘RCurl’ had non-zero exit status

3: In install.packages(pkgs = doing, lib = lib, ...) :

  installation of package ‘rtracklayer’ had non-zero exit status

> q(0

+ )

Error in quit(save, status, runLast) : 

  one of "yes", "no", "ask" or "default" expected.

RCurl和XML这两个包解决之后,其他基本就没有问题了.

具体解决步骤如下:
打开terminal终端运行以下命令,安装-dev包, 解决curl-config和xml-config的问题
sudo apt-get install libcurl4-gnutls-dev
sudo apt-get install libxml2-dev

然后继续安装就没有问题了。

ps 2.18版本错误