Question: Issues installing packages miniconda environment
0
gravatar for cpat
16 months ago by
cpat0
cpat0 wrote:

Hi,

I installed R and Rstudio in miniconda3 on Unbuntu 17.10. I have issues downloading packages (eg DESeq2) using Bioconductor/bioclite on both R and R studio.

Here is a piece of the ERROR:

 

------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libcurl was not found. Try installing:
 * deb: libcurl4-openssl-dev (Debian, Ubuntu, etc)
 * rpm: libcurl-devel (Fedora, CentOS, RHEL)
 * csw: libcurl_dev (Solaris)
If libcurl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libcurl.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=...'
-------------------------------------------------------------------

ERROR: configuration failed for package ‘curl’

 

Of note, libcurl is already installed. I really don't know how to proceed!

Thanks a lot in advance!

Celine

ADD COMMENTlink modified 16 months ago • written 16 months ago by cpat0
Answer: Issues installing packages miniconda environment
0
gravatar for Michael Love
16 months ago by
Michael Love24k
United States
Michael Love24k wrote:

Sorry, can't help much here. Looks like you could ask the conda team about how to install the necessary libraries. BTW the libraries are not sufficient in some cases but you require the _dev or -devel version as well. See this frequently asked question in the DESeq2 vignette:

https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#i-have-trouble-installing-deseq2-on-ubuntulinux

ADD COMMENTlink written 16 months ago by Michael Love24k
Answer: Issues installing packages miniconda environment
0
gravatar for cpat
16 months ago by
cpat0
cpat0 wrote:

Thanks Michael :)

I've got the all the dev tools installed but doesn't help. Will check with the conda team!

Celine

ADD COMMENTlink written 16 months ago by cpat0
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