dominik-handler/AP_singu:tailfindr
$ singularity pull shub://dominik-handler/AP_singu:tailfindr
Singularity Recipe
Bootstrap: docker
From: ubuntu:18.04
%labels
maintainer Dominik Handler <Dominik Handler@imba.oeaw.ac.at
TailfindR to identify PolyA tails in Nanopore DRS
%post
apt-get update
apt-get -y install locales
locale-gen en_US.UTF-8
export LANG=en_US.UTF-8
export LANGUAGE=en_US:en
export LC_ALL=en_US.UTF-8
mkdir /install
#install all required tools
export DEBIAN_FRONTEND=noninteractive
apt-get update
apt-get -y install parallel wget build-essential bzip2 unzip git-core tar libbz2-dev tzdata unzip gnupg2 software-properties-common
#install R
apt-get update
apt-get --assume-yes install pandoc curl libgit2-dev libssl-dev libcurl4-gnutls-dev libxml2-dev xorg-dev libopenblas-dev libcairo2-dev libxt-dev libtiff5-dev openjdk-8-jdk libreadline6-dev libpng-dev libhdf5-dev
mkdir -p /install/R
cd /install/R
version="3.6.3"
gpg --keyserver hkp://keyserver.ubuntu.com:80 --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9
gpg -a --export E298A3A825C0D65DFD57CBB651716619E084DAB9 | apt-key add -
add-apt-repository 'deb https://cloud.r-project.org/bin/linux/ubuntu bionic-cran35/'
apt-get update
apt-get --assume-yes install r-base-dev
#install R-packages
R --slave -e 'install.packages(c( "devtools"), repos = "http://cran.wu.ac.at/") '
R --slave -e 'install.packages(c( "tidyverse"), repos = "http://cran.wu.ac.at/") '
R --slave -e 'options(unzip = "internal"); devtools::install_github("adnaniazi/tailfindr", ref="gregor_polya_base_end") '
#clean up and make container smaller
rm -rf /install
%environment
#!/bin/bash
export LANG=en_US.UTF-8
export LANGUAGE=en_US:en
export LC_ALL=en_US.UTF-8
%runscript
$@
Collection
- Name: dominik-handler/AP_singu
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/dominik-handler-AP_singu-tailfindr |
collection name | dominik-handler/AP_singu |
branch | master |
tag | tailfindr |
commit | 2b68de003f7815639b336cfa84b2975454e7d262 |
version (container hash) | 4e9484e005b6d90e31129ed6a1ec7b7892d1402d0e964ca457948c3ca4a44e93 |
build date | 2021-02-01T07:31:59.018Z |
size (MB) | 578.42578125 |
size (bytes) | 606523392 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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