Bioconductor，RforProteomics，安装错误

Question

我的系统配置

sessionInfo()
R version 3.1.2 (2014-10-31)
Platform: x86_64-redhat-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_IN.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_IN.UTF-8        LC_COLLATE=en_IN.UTF-8    
 [5] LC_MONETARY=en_IN.UTF-8    LC_MESSAGES=en_IN.UTF-8   
 [7] LC_PAPER=en_IN.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_IN.UTF-8 LC_IDENTIFICATION=C 

  [1] stats     graphics  grDevices utils     datasets  methods   base 

我的Bioconductor版本

Bioconductor 3.0版(BiocInstaller 1.16.1)

我的问题

我想安装RforProteomics，我认为它有75个依赖项！根据作者的说明，我做了这个依赖(“RforProteomics”，biocLite =T)这是显示错误消息和安装无法完成。据我所知，只有少数依赖项无法安装，因此出现了错误。

错误消息

rnetCDF.h:1:20: fatal error: netcdf.h: No such file or directory
 #include <netcdf.h>
                    ^
compilation terminated.
make: *** [rnetCDF.o] Error 1
ERROR: compilation failed for package ‘mzR’
* removing ‘/usr/lib64/R/library/mzR’
ERROR: dependency ‘mzR’ is not available for package ‘MSnbase’
* removing ‘/usr/lib64/R/library/MSnbase’
ERROR: dependency ‘mzR’ is not available for package ‘xcms’
* removing ‘/usr/lib64/R/library/xcms’
ERROR: dependency ‘mzR’ is not available for package ‘MSGFgui’
* removing ‘/usr/lib64/R/library/MSGFgui’
ERROR: dependency ‘MSnbase’ is not available for package ‘synapter’
* removing ‘/usr/lib64/R/library/synapter’
ERROR: dependency ‘MSnbase’ is not available for package ‘pRoloc’
* removing ‘/usr/lib64/R/library/pRoloc’
ERROR: dependency ‘MSnbase’ is not available for package ‘pRolocdata’
* removing ‘/usr/lib64/R/library/pRolocdata’
ERROR: dependencies ‘MSnbase’, ‘mzR’ are not available for package ‘MSnID’
* removing ‘/usr/lib64/R/library/MSnID’
ERROR: dependency ‘MSnbase’ is not available for package ‘RforProteomics’
* removing ‘/usr/lib64/R/library/RforProteomics’
Error in untar2(tarfile, files, list, exdir, restore_times) : 
  incomplete block on file

The downloaded source packages are in
    ‘/tmp/Rtmpnro4j4/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done

我在这之后做了什么

我发现rnetCDF是没有安装或者我的系统中没有安装的主要组件之一，我做了install.packages("RNetCDF")，它显示了另一组错误

RNetCDF安装错误

==================================================
downloaded 74 Kb

* installing *source* package ‘RNetCDF’ ...
** package ‘RNetCDF’ successfully unpacked and MD5 sums checked
checking for gcc... gcc -m64 -std=gnu99
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -m64 -std=gnu99 accepts -g... yes
checking for gcc -m64 -std=gnu99 option to accept ISO C89... none needed
checking for nc_open in -lnetcdf... no
checking for nc_create in -lnetcdf... no
configure: error: netcdf library not found
ERROR: configuration failed for package ‘RNetCDF’
* removing ‘/usr/lib64/R/library/RNetCDF’

The downloaded source packages are in
    ‘/tmp/Rtmpnro4j4/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
Warning message:
In install.packages("RNetCDF") :
  installation of package ‘RNetCDF’ had non-zero exit status

我再一次做了install.pacakges("ncdf")。但这也不是安装。

我接下来该怎么办？

请帮帮我

Answer 1

请退出R并通过键入libnetcdf-dev安装终端：

$ sudo apt-get install libnetcdf-dev 

(如果使用Ubuntu)