DESeq2 installation error

Question

[Forough]

Hello, I am trying to install DESeq2 package but repeatedly I face different errors. In my last try I entered bellow command:

BiocManager::install("DESeq2")

it was the output:

ERROR: configuration failed for package ‘openssl’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/openssl’
ERROR: dependency ‘openssl’ is not available for package ‘httr’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/httr’
ERROR: dependency ‘httr’ is not available for package ‘KEGGREST’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/KEGGREST’
ERROR: dependency ‘KEGGREST’ is not available for package ‘AnnotationDbi’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/AnnotationDbi’
ERROR: dependencies ‘AnnotationDbi’, ‘httr’ are not available for package ‘annotate’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/annotate’
ERROR: dependencies ‘AnnotationDbi’, ‘annotate’ are not available for package ‘genefilter’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/genefilter’
ERROR: dependencies ‘annotate’, ‘AnnotationDbi’ are not available for package ‘geneplotter’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/geneplotter’
ERROR: dependencies ‘genefilter’, ‘geneplotter’ are not available for package ‘DESeq2’
* removing ‘/home/genetics/R/x86_64-pc-linux-gnu-library/4.2/DESeq2’

The downloaded source packages are in
‘/tmp/RtmpPetVxO/downloaded_packages’
Installation paths not writeable, unable to update packages
path: /usr/lib/R/library
packages:
MASS, spatial, survival
Warning messages:
1: In install.packages(...) :

installation of package ‘openssl’ had non-zero exit status
 2: In install.packages(...) :
installation of package ‘httr’ had non-zero exit status
3: In install.packages(...) :
installation of package ‘KEGGREST’ had non-zero exit status
4: In install.packages(...) :
installation of package ‘AnnotationDbi’ had non-zero exit status
5: In install.packages(...) :
installation of package ‘annotate’ had non-zero exit status
6: In install.packages(...) :
installation of package ‘genefilter’ had non-zero exit status
7: In install.packages(...) :
installation of package ‘geneplotter’ had non-zero exit status
8: In install.packages(...) :
installation of package ‘DESeq2’ had non-zero exit status

I would be appreciated if you help me?

[Antonio R. Franco]

Installation paths not writeable..

start Rstudio with a sudo rstudio

That way you will get the right to write the packages

Answer 1

[rpolicastro]

You might need to install the OpenSSL library.

sudo apt-get update
sudo apt-get install libssl-dev

Or the equivalent command on your flavor of linux.

[Forough]

Thank you very much. your guidance worked and I installed DESeq2 successfully.