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krwyaong.ju
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@krwyaongju-15652
Last seen 6.7 years ago
installation of "GenomicFeatures" failed; pls say how to figure it out?
> source("https://bioconductor.org/biocLite.R")
Bioconductor version 3.6 (BiocInstaller 1.28.0), ?biocLite for help
> biocLite("GenomicFeatures")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.4 (2018-03-15).
Installing package(s) ‘GenomicFeatures’
also installing the dependency ‘RMySQL’
trying URL 'https://cloud.r-project.org/src/contrib/RMySQL_0.10.14.tar.gz'
Content type 'application/x-gzip' length 52703 bytes (51 KB)
==================================================
downloaded 51 KB
trying URL 'https://bioconductor.org/packages/3.6/bioc/src/contrib/GenomicFeatures_1.30.3.tar.gz'
Content type 'application/x-gzip' length 893759 bytes (872 KB)
==================================================
downloaded 872 KB
* installing *source* package ‘RMySQL’ ...
** package ‘RMySQL’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=
Using PKG_LIBS=-lmysqlclient
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because no mysql client library was found. Try installing:
* deb: libmariadbclient-dev | libmariadb-client-lgpl-dev (Debian, Ubuntu)
* rpm: mariadb-connector-c-devel | mariadb-devel | mysql-devel (Fedora, CentOS, RHEL)
* csw: mysql56_dev (Solaris)
* brew: mariadb-connector-c (OSX)
If you already have a mysql client library installed, verify that either
mariadb_config or mysql_config is on your PATH. If these are unavailable
you can also set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘RMySQL’
* removing ‘/usr/local/lib/R/site-library/RMySQL’
ERROR: dependency ‘RMySQL’ is not available for package ‘GenomicFeatures’
* removing ‘/usr/local/lib/R/site-library/GenomicFeatures’
The downloaded source packages are in
‘/tmp/RtmpHwrOi7/downloaded_packages’
Warning messages:
1: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘RMySQL’ had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, ...) :
installation of package ‘GenomicFeatures’ had non-zero exit status
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