Hi all,

I had ChIPpeakanno installed and working on the last versions of R and Rstudio. I recently updated to the latest version or R and Rstudio. Just now I tried to run ChIPpeakAnno and it was not installed.

I tried installing with 

source("https://bioconductor.org/biocLite.R")
biocLite("ChIPpeakAnno")

------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libmysqlclient was not found. Try installing:
 * deb: libmariadb-client-lgpl-dev (Debian, Ubuntu 16.04)
        libmariadbclient-dev (Ubuntu 14.04)
 * rpm: mariadb-devel | mysql-devel (Fedora, CentOS, RHEL)
 * csw: mysql56_dev (Solaris)
 * brew: mariadb-connector-c (OSX)
If libmysqlclient is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libmysqlclient.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
----------------------------------------------------------------

I then tried to install libmysqlclient with :

source("https://bioconductor.org/biocLite.R")
biocLite("libmariadb-client-lgpl-dev")

BioC_mirror: https://bioconductor.org
Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.3 (2017-11-30).
Installing package(s) ‘libmariadb-client-lgpl-dev’
installation path not writeable, unable to update packages: codetools, lattice, Matrix, spatial
Warning message:
package ‘libmariadb-client-lgpl-dev’ is not available (for R version 3.4.3) 

So now Im thinking I have to uninstall R version 3.4.3 and install an older version.

Has anyone got a better soluction?

Thanks in advance

Kenneth

The error message and suggested installation instructions related to a system library, rather than a missing R package. 

Exactly what you need to do depends upon your operating system, with suggestions given in the brackets in the message.  For example, if you're running Ubuntu 16.04 you want to run something like this in a terminal:

apt-get install libmariadb-client-lgpl-dev

Or if you're running Mac OSX then something like the following (possibly after reading https://brew.sh/ )

brew install mariadb-connector-c

We can't give more specific help without details of the system you're running, which you can provide by running the R command sessionInfo() and including it here.