[R] ‘ips’ had non-zero exit status

[Jeff Newmiller]

Your error says the XML package was not installed because you are missing "xml2-config"... if you search the web for that term you will find that your operating system needs to have libxml2 installed, including the development tools. There is a SystemRequirements entry on the CRAN web page for the XML package mentions libxml2.
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Sent from my phone. Please excuse my brevity.

On July 15, 2015 3:09:43 AM PDT, giovanni_gmail <giovanni.franzo1 at gmail.com> wrote:
>dear all,
>sorry for the naive question,
>I'm trying to install (in R version 3.2.1 (2015-06-18))  the "ips" 
>package for phylogenetic analysis.
>However I get the following message:
>
>
> > install.packages("ips",dependencies = T)
>Installing package into
>‘/home/giovanni/R/x86_64-pc-linux-gnu-library/3.2’
>(as ‘lib’ is unspecified)
>also installing the dependency ‘XML’
>
>provo con l'URL
>'https://cran.rstudio.com/src/contrib/XML_3.98-1.3.tar.gz'
>Content type 'application/x-gzip' length 1607725 bytes (1.5 MB)
>==================================================
>downloaded 1.5 MB
>
>provo con l'URL 'https://cran.rstudio.com/src/contrib/ips_0.0-7.tar.gz'
>Content type 'application/x-gzip' length 62904 bytes (61 KB)
>==================================================
>downloaded 61 KB
>
>* installing *source* package ‘XML’ ...
>** package ‘XML’ successfully unpacked and MD5 sums checked
>checking for gcc... gcc
>checking for C compiler default output file name... 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/giovanni/R/x86_64-pc-linux-gnu-library/3.2/XML’
>Warning in install.packages :
>   installation of package ‘XML’ had non-zero exit status
>ERROR: dependency ‘XML’ is not available for package ‘ips’
>* removing ‘/home/giovanni/R/x86_64-pc-linux-gnu-library/3.2/ips’
>Warning in install.packages :
>   installation of package ‘ips’ had non-zero exit status
>
>The downloaded source packages are in
>     ‘/tmp/RtmpbTmMtc/downloaded_packages’
>
>can anybody help me?
>best regards
>Giovanni
>
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