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  • "Non Zero Exit Status” R 3.0.1 'XML' and 'RCurl' " in bioconductor while installing packages

    > install.packages("RCurl")
    Installing package into ‘/home/steven/R/x86_64-pc-linux-gnu-library/3.0’
    (as ‘lib’ is unspecified)
    trying URL 'http://cran.rstudio.com/src/contrib/RCurl_1.95-4.1.tar.gz'
    Content type 'application/x-gzip' length 870915 bytes (850 Kb)
    opened URL
    ==================================================
    downloaded 850 Kb
    
    * 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 ‘/home/steven/R/x86_64-pc-linux-gnu-library/3.0/RCurl’
    Warning in install.packages :
      installation of package ‘RCurl’ had non-zero exit status
    
    The downloaded source packages are in/tmp/RtmpUwBkbS/downloaded_packages’
    > install.packages("XML")
    Installing package into ‘/home/steven/R/x86_64-pc-linux-gnu-library/3.0’
    (as ‘lib’ is unspecified)
    trying URL 'http://cran.rstudio.com/src/contrib/XML_3.98-1.1.tar.gz'
    Content type 'application/x-gzip' length 1582216 bytes (1.5 Mb)
    opened URL
    ==================================================
    downloaded 1.5 Mb
    
    * installing *source* package ‘XML’ ...
    ** package ‘XML’ successfully unpacked and MD5 sums checked
    checking for gcc... gcc
    checking for C compiler default output file name... 
    rm: cannot remove 'a.out.dSYM': Is a directory
    a.out
    checking whether the C compiler works... yes
    checking whether we are cross compiling... no
    checking for suffix of executables... 
    checking for suffix of object files... o
    checking whether we are using the GNU C compiler... yes
    checking whether gcc accepts -g... yes
    checking for gcc option to accept ISO C89... none needed
    checking how to run the C preprocessor... gcc -E
    checking for sed... /bin/sed
    checking for pkg-config... /usr/bin/pkg-config
    checking for xml2-config... no
    Cannot find xml2-config
    ERROR: configuration failed for package ‘XML’
    * removing ‘/home/steven/R/x86_64-pc-linux-gnu-library/3.0/XML’
    Warning in install.packages :
      installation of package ‘XML’ had non-zero exit status
    
    The downloaded source packages are in/tmp/RtmpUwBkbS/downloaded_packages’

    Solution:

    in CentOS 6+

    sudo yum -y install curl
    sudo yum -y install libcurl libcurl-devel
    sudo yum -y install libxml2 libxml2-devel
    

     in Ubuntu

    sudo apt-get install libcurl4-openssl-dev
    sudo apt-get install libxml2-dev
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  • 原文地址:https://www.cnblogs.com/lyhonk/p/4369910.html
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