darachm/singularity_dada2:latest
$ singularity pull shub://darachm/singularity_dada2:latest
Singularity Recipe
Bootstrap: docker
From: ubuntu:18.04
#Bootstrap: localimage
#From: ../ubuntu-1804-updated_container/ubuntu.simg
%labels
MAINTAINER darachm
%help
This container is for providing `dada2` for some bioinformatic pipelines.
%post
apt-get -y update
apt-get -y install gnupg2 software-properties-common
apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9
add-apt-repository 'deb https://cloud.r-project.org/bin/linux/ubuntu bionic-cran35/'
apt-get -y update
apt-get -y upgrade
apt-get -y install git wget g++ gcc-4.8 r-base r-base-dev curl libcurl4-openssl-dev
Rscript -e 'install.packages("BiocManager"); BiocManager::install()'
Rscript -e 'BiocManager::install(c("Rcpp","RCurl","Biostrings", "ggplot2", "data.table", "reshape2", "ShortRead", "RcppParallel", "IRanges", "XVector", "BiocGenerics"))'
wget https://github.com/benjjneb/dada2/archive/v1.10.zip -O dada2_v1.10.zip
unzip dada2_v1.10.zip
Rscript -e 'install.packages("dada2-1.10",repos=NULL,type="source",dependencies=c("Depends","Suggests","Imports"))'
%test
Rscript -e 'library(dada2);'
Collection
- Name: darachm/singularity_dada2
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/darachm-singularity_dada2-latest |
collection name | darachm/singularity_dada2 |
branch | master |
tag | latest |
commit | a388cdc4ac0a7fb0bd62bd6d7a13f4b40d7f38a2 |
version (container hash) | 1762d6502a35f86552eaad021ba2e764 |
build date | 2020-12-07T22:21:56.634Z |
size (MB) | 1095 |
size (bytes) | 403451935 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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