GreetDB/test:latest
$ singularity pull shub://GreetDB/test:latest
Singularity Recipe
BootStrap: docker
From: rocker/r-base
%runscript
%files
%environment
%labels
%post
apt-get update
export DEBIAN_FRONTEND=noninteractive
apt-get -qq install -y --no-install-recommends \
libgsl-dev \
python3 \
python3-pip \
build-essential \
r-base \
gfortran \
libcurl4-openssl-dev \
libssl-dev \
libxml2-dev \
libxslt-dev \
python3-dev \
git \
python3-sklearn
pip install numpy
pip install pandas
pip install scipy
pip install joblib
R -e "install.packages('BiocManager', repos = 'http://cran.us.r-project.org')"
R -e "BiocManager::install(c('AnnotationDbi', \
'MODA', \
'STRINGdb', \
'limma', \
'devtools', \
'org.Hs.eg.db', \
'foreach', \
'doParallel', \
'Rcpp', \
'dynamicTreeCut', \
'flashClust', \
'reticulate', \
'plyr', \
'parallel', \
'igraph', \
'WGCNA', \
'RSQLite', \
'stackoverflow', \
'preprocessCore', \
'DESeq2', \
'edgeR', \
'openxlsx', \
'ggdendro', \
'ggrepel', \
'clusterProfiler', \
'GEOmetadb'))"
R -e "devtools::install_git(url = 'https://gitlab.com/Gustafsson-lab/MODifieR.git')"
R -e "devtools::install_github('jpvert/tigress')"
R -e "BiocManager::install('minet')"
R -e "install.packages('tidyverse')"
#R -e "devtools::install_git(url = 'https://github.com/ddeweerd/ComhubbeR.git')"
Collection
- Name: GreetDB/test
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/GreetDB-test-latest |
collection name | GreetDB/test |
branch | master |
tag | latest |
commit | 4b0c959dea29c8a2f7ba008ee4b0dee9ad9d08ee |
version (container hash) | 645838a5bb5eb1fd89b8b6b74a42a868 |
build date | 2021-03-16T18:29:45.722Z |
size (MB) | 2251.0 |
size (bytes) | 851345439 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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