[SOLVED] BUG REPORT: Ubuntu 14.04 xps Installation libcrypto.so.10
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@alexvpickering
Last seen 3 months ago
Canada

Spent a long time trying to install xps on Ubuntu 14.04. After successful installation of ROOT (root_v5.34.24.Linux-slc6_amd64-gcc4.8.tar.gz - specific to my system as gcc4.8 and 64bit). I got this error message from running either 

R CMD INSTALL xps_1.30.0.tar.gz

or 

source("http://bioconductor.org/biocLite.R")
biocLite("xps", type="source")

I would get the following error:

** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
  unable to load shared object '/home/alex/R/library/xps/libs/xps.so':
  libcrypto.so.10: cannot open shared object file: No such file or directory
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/home/alex/R/library/xps’

Attempted re-install R as I have had some permission issues installing certain packages (requiring sudo R). After setting up a personal package directory (/home/alex/R/library) I still got the issue above.

This askubuntu solved the issue for me. I've included the post below in case link is ever lost:

Lets make sure that you have your SSL installed and updated:

sudo apt-get update
sudo apt-get install libssl1.0.0 libssl-dev

Now lets fix the naming of the file by creating a link:

cd /lib/x86_64-linux-gnu
sudo ln -s libssl.so.1.0.0 libssl.so.10
sudo ln -s libcrypto.so.1.0.0 libcrypto.so.10

And finally, lets inform the developer about this flaw so he can fix it :)

 

xps ubuntu • 7.7k views
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cstrato ★ 3.9k
@cstrato-908
Last seen 3.0 years ago
Austria

Thank you for reporting this issue, it may be helpful for other users of Ubuntu. However, it has nothing to do with 'xps' but with a missing Ubuntu library. Maybe the root binary you have installed did not yet support Ubuntu. Later versions of root have special binaries for Ubuntu, e.g. you can download the binary for the latest version from:

ftp://root.cern.ch/root/root_v5.34.34.Linux-ubuntu14-x86_64-gcc4.8.tar.gz

Regards,

Christian

 

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Dear Christian,

I am new to XPS and following your paper on using XPS for my Gene St array (HuGene-2_0-st design). I need the degradation plot. 

I used the listed code to create scheme object:

> scmdir <- "D:/GeneST_Analyse/CELFiles/schemes"
> libdir <- "D:/GeneST_Analyse/CELFiles/libraryfiles"
> anndir <- "D:/GeneST_Analyse/CELFiles/Annotation"
> scheme.hugene20stv1.na35 <- import.exon.scheme("Scheme_HuGene20stv1_na35",filedir=scmdir,layoutfile=paste(libdir,"HuGene-2_0-st.clf",sep="/"),schemefile=paste(libdir,"HuGene-2_0-st.pgf",sep="/"),probeset=paste(anndir,"HuGene-2_0-st-v1.na35.hg19.probeset.csv",sep="/"),transcript=paste(anndir,"HuGene-2_0-st-v1.na35.hg19.transcript.csv",sep="/"))

I got the following error. Could you please give me any suggestion? 

Error Message:

Error in import.exon.scheme("Scheme_HuGene20stv1_na35", filedir = scmdir,  : 
  error in function ‘ImportExonSchemes’

Thanks in Advance

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