gcc > checking for C compiler default output file name... gcc -E checking for sed... /bin/sed checking for pkg-config... /usr/bin/pkg-config checking for xml2-config... checking for suffix of object files... I am now aski... this content
I have been trying to get the XML and MAGEML packages from Bioconductor to run on Mac OS... no Cannot find xml2-config ERROR: configuration failed for package ???XML??? * removing ???/usr/lib64/R/library/XML sessionInfo() R version 2.15.1 (2012-06-22) Platform: x86_64-redhat-linux-gnu (64-bit) locale:  LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C  LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8  LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 Most Bioconductor packages are available for Windows, Mac OS, and Linux operating systems. I am unable to install 'XML' which is required for the use of rattle. his explanation
See Why use biocLite()? How to capture disk usage percentage of a partition as an integer? none needed > checking how to run the C preprocessor... Teenage daughter refusing to go to school As a monk, can I use Deflect Missiles to protect my ally?
gcc -E No ability to remove finalizers on externalptr objects in this verison of R checking for sed... /bin/sed checking for pkg-config... /usr/bin/pkg-config checking for xml2-config... sudo apt-get install r-cran-xml –cory Mar 12 '15 at 15:40 cory he clearly said CentOS. yes checking whether we are cross compiling... Installation Of Package ‘rcurl’ Had Non-zero Exit Status Is it because biocLite doesn't install automatically the d...
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 Kristoffer W. Posted by Kristoffer Winther Balling Nov 3rd, 2014 8:14 pm r, software, ubuntu Tweet « Setting up Nginx for SSL/TLS Dell Inspiron 1720 Will Not Boot - CAPS Lock Blinking » http://stackoverflow.com/questions/29014062/unable-to-install-xml-package-in-r-on-centos gcc -E No ability to remove finalizers on externalptr objects in this verison of R checking for sed... /bin/sed checking for pkg-config... /usr/bin/pkg-config checking for xml2-config...
Thanks. -- output of sessionInfo(): package ???XML??? Libxml2 R Today I tried to install a new package, so I ran the following command: install.packages('XML') But the installation failed and gave the following information: * installing *source* package ‘XML’ ... On 8/15/13 10:13 AM, Shi, Tao wrote: > Hi list, > > I have encountered the "Cannot find xml2-config" problem too during XML package installation on my 64-bit Redhat (v. 6.4) Checking for update. > Nothing to do > [root ~]# xml2-config --version > 2.7.6 > [root ~]# curl-config --version > libcurl 7.19.7 > > > > ============ R session ====================== >
checking for suffix of object files... gcc checking for C compiler default output file name... Cannot Find Xml2 Config Ubuntu checking for gcc... Cannot Find Xml2-config Centos no > Cannot find xml2-config > ERROR: configuration failed for package \u2018XML\u2019 > * removing \u2018/usr/lib64/R/library/XML\u2019 > > The downloaded source packages are in > \u2018/tmp/RtmpwnAIFH/downloaded_packages\u2019 > Updating HTML
more stack exchange communities company blog Stack Exchange Inbox Reputation and Badges sign up log in tour help Tour Start here for a quick overview of the site Help Center Detailed http://rss4medics.com/cannot-find/phpize-cannot-find-config.php no Cannot find xml2-config ERROR: configuration failed for package ‘XML’ * removing ‘/home/spirit/R/i686-pc-linux-gnu-library/2.12/XML’ The downloaded packages are in ‘/tmp/RtmpoZYxnv/downloaded_packages’ Warning message: In install.packages("XML") : installation of package 'XML' had non-zero exit done > --- Please select a CRAN mirror for use in this session --- > Installing package(s) into ?/home/amathew/R/i686-pc-linux-gnu-library/2.13? > (as ?lib? done --- Please select a CRAN mirror for use in this session --- Installing package(s) into ‘/home/amathew/R/i686-pc-linux-gnu-library/2.13' (as ‘lib' is unspecified) trying URL ' http://streaming.stat.iastate.edu/CRAN/src/contrib/XML_3.4-0.tar.gz' Content type 'application/x-gzip' length 896195 bytes How To Install Xml Package In R
Annotations Different sources (e.g., annotation packages, biomaRt, manufacturer, UCSC, GO) disagree. yes checking whether gcc accepts -g... o > checking whether we are using the GNU C compiler... have a peek at these guys yes checking whether gcc accepts -g...
Do apt-cache search r-cran-* do see the others. Error: Configuration Failed For Package ‘openssl’ successfully unpacked and MD5 sums checked > checking for gcc... more stack exchange communities company blog Stack Exchange Inbox Reputation and Badges sign up log in tour help Tour Start here for a quick overview of the site Help Center Detailed
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yes > checking for gcc option to accept ISO C89... Why? Alternating Fibonacci Double quote value assignments stored in a CSV? check my blog Duncan Temple Lang-3 Threaded Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ Re: XML package installation -- an old question Hi Tao In
rm: cannot remove `a.out.dSYM': Is a directory > a.out > checking whether the C compiler works... RCurl throws the following error: 1 2 3 checking for curl-config... o checking whether we are using the GNU C compiler... Developing Packages What packages belong in the Depends:, Imports:, or Suggests: fields?
Ubuntu package method As Richie and Dirk mentioned, you can also use: sudo apt-get install r-cran-xml If you go down this path, I would recommend that you check out the R Graph visualization: Leave gap between vertex and endpoint of edge Polyglot Anagrams Robbers' Thread How to prove that authentication system works, and that customer uses the wrong password? This usually occurs because the package relies on additional software that is not available for the operating system. need helps on Error when package GGtools loading in Mac OSX and Linux server Dear listers, This the second time for me to post this same question in the list.
yes The second is an error and your dealbreaker -- you do not have libxml2-dev (or whatever CentOS calls this) installed: checking for xml2-config... rm: cannot remove 'a.out.dSYM': Is a directory a.out checking whether the C compiler works...