Question: installation failed when trying msa
0
gravatar for akp
3.0 years ago by
akp0
akp0 wrote:
I am trying to install "MSA" as,

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

 - but I fece the following erorrs,
g++: error: ./libgc.a: No such file or directory
g++: error: ./libClustalW.a: No such file or directory
g++: error: ./libClustalOmega.a: No such file or directory
g++: error: ./libMuscle.a: No such file or directory
make[2]: *** [libMuscle.so] Error 1
make[2]: Leaving directory `/tmp/Rtmp1PL5FI/R.INSTALLdc0965fbf450/msa/src/Muscle'
make[1]: Leaving directory `/tmp/Rtmp1PL5FI/R.INSTALLdc0965fbf450/msa/src/Muscle'
make[1]: *** [muscle] Error 1
make: *** [build_muscle] Error 2
ERROR: compilation failed for package ‘msa’
* removing ‘/home/djf482/R/x86_64-pc-linux-gnu-library/3.3/msa’

 

the following is my RsessionInfo

> sessionInfo()

R version 3.3.1 (2016-06-21)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: openSUSE 13.1 (Bottle) (x86_64)

msa • 618 views
ADD COMMENTlink modified 3.0 years ago by UBodenhofer250 • written 3.0 years ago by akp0
Answer: installation failed when trying msa
0
gravatar for UBodenhofer
3.0 years ago by
UBodenhofer250
Johannes Kepler University, Linz, Austria
UBodenhofer250 wrote:

Sorry that you are encountering troubles! I am happy to help where I can. However, the information you provided is not sufficient to spot the source of the problem. Maybe you are missing some libraries, let's see. Please try the installation again, dump the entire output to a plain text file, and send it to us by e-mail (msa@bioinf.jku.at).

Cheers, Ulrich  (package maintainer)

ADD COMMENTlink written 3.0 years ago by UBodenhofer250
Answer: installation failed when trying msa
0
gravatar for UBodenhofer
3.0 years ago by
UBodenhofer250
Johannes Kepler University, Linz, Austria
UBodenhofer250 wrote:

Thanks for sending the output of your installation procedure! I now found out what the problem is: it seems that, unlike on Ubuntu, the PKG_LIBS variable seems to carry over to make child processes on your openSUSE system. I do not have an immediate solution. I will discuss the subject on the bioc-devel mailing list and keep you posted about possible solutions and updates. Sorry for any inconveniences

ADD COMMENTlink written 3.0 years ago by UBodenhofer250

Thanks, no worries; I look forward to hearing from you :-)

ADD REPLYlink written 3.0 years ago by akp0
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