DylanYang7225/Cellranger:latest
$ singularity pull shub://DylanYang7225/Cellranger:latest
Singularity Recipe
Bootstrap: docker
From: ubuntu
%labels
Maintainer Hang(Dylan) Yang
Image_Name CellRanger
Image_Version CellRanger_3.1.0
%environment
export PATH=$PATH:/cellranger/cellranger-3.1.0
%post
export DEBIAN_FRONTEND=noninteractive
apt-get update
apt-get install -y wget
#--------------------------------------------------------------------------------
# install cellranger and reference genome
mkdir -p /cellranger
cd /cellranger
wget -O cellranger-3.1.0.tar.gz "http://cf.10xgenomics.com/releases/cell-vdj/cellranger-3.1.0.tar.gz?Expires=1587461847&Policy=eyJTdGF0ZW1lbnQiOlt7IlJlc291cmNlIjoiaHR0cDovL2NmLjEweGdlbm9taWNzLmNvbS9yZWxlYXNlcy9jZWxsLXZkai9jZWxscmFuZ2VyLTMuMS4wLnRhci5neiIsIkNvbmRpdGlvbiI6eyJEYXRlTGVzc1RoYW4iOnsiQVdTOkVwb2NoVGltZSI6MTU4NzQ2MTg0N319fV19&Signature=SOKsLLbobRGQ3zoALtK6xZzb6Fa-~PqJ~1iQ5xGTo-8mCyBfCZcTIZ6uPEJ6fh4y9IBLavpsENR9eUjKyGARBJe6lD43y20GbSqtQCDozDPMZnFJ58QNJuzbkIaS4q38c3jOjQNBlRzosTX4zcmU4XKL-M33Uq9obToEIQEpUhmA1u5FeqZgzn4LcfF-1NNOmX2i7yuLdcpULFxo1ChVD7YCSo09gCqyT9qs4sJWiAY~gFCJuaumPPuVaa8Q466Za3mbj0fdYeH-vCbxNIjdRiztzllWW-xF-z7inBolGfcScdVcz0V1ZuhthsXm2w7draBWRlesqsaS69DBNWRD3w__&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA"
wget http://cf.10xgenomics.com/supp/cell-exp/refdata-cellranger-GRCh38-3.0.0.tar.gz
wget http://cf.10xgenomics.com/supp/cell-vdj/refdata-cellranger-vdj-GRCh38-alts-ensembl-3.1.0.tar.gz
tar -xvzf refdata-cellranger-GRCh38-3.0.0.tar.gz
tar -xvzf cellranger-3.1.0.tar.gz
tar -xvzf refdata-cellranger-vdj-GRCh38-alts-ensembl-3.1.0.tar.gz
rm refdata-cellranger-GRCh38-3.0.0.tar.gz
rm cellranger-3.1.0.tar.gz
rm refdata-cellranger-vdj-GRCh38-alts-ensembl-3.1.0.tar.gz
# Create directories to bind-mount data and reference genome and to store output
mkdir -p /output
mkdir -p /data
mkdir -p /work/scratch
Collection
- Name: DylanYang7225/Cellranger
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/DylanYang7225-Cellranger-latest |
collection name | DylanYang7225/Cellranger |
branch | master |
tag | latest |
commit | 21aba335314b9cf143140c2973b2c5e2a14cf8b0 |
version (container hash) | 28b38b1e2e5e72b258fcd6b8bb162d56 |
build date | 2021-01-27T15:36:53.297Z |
size (MB) | 19938.0 |
size (bytes) | 12548964383 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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