motroy/singularity-MGx-workflows:latest

$ singularity pull shub://motroy/singularity-MGx-workflows:latest

Singularity Recipe

Bootstrap: docker
From: flowcraft/kraken2:2.0.7-1

%help
A Singularity image for kraken2 with DB, metaSPAdes and seqkit/seqtk

%labels
Maintainer Yair Motro
Build 1.0
KRAKEN2_version 2.0.7-1
METASPADES_version 3.13.2
SEQKIT_version 0.11.0
SEQTK_version 1.3
MEGAHIT_version 1.2.9
CHECKM_version 1.0.13
MINIMAP2_version 2.17
BBMAP_version 38.73
QUAST_version 5.0.2

%environment
export PATH="/NGStools/miniconda/bin/:$PATH"
export LC_ALL="C"
export KRAKEN2_DB_PATH="/kraken_db/minikraken2_v1_8GB/"

%post
apt install -y pigz
echo "Installing metaSPAdes, megahit, checkM, seqtk and seqkit"
/NGStools/miniconda/bin/conda install -c bioconda spades=3.13.2 seqkit=0.11.0 seqtk=1.3 megahit=1.2.9 checkm-genome=1.0.13 minimap2=2.17 bbmap=38.73 quast=5.0.2

Collection


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key value
id /containers/motroy-singularity-MGx-workflows-latest
collection name motroy/singularity-MGx-workflows
branch master
tag latest
commit 298918d85264f2047683396e9f20c419caab5a4c
version (container hash) 76886125449ceacefbeba3f101700eca
build date 2019-12-17T08:17:09.506Z
size (MB) 11933.0
size (bytes) 7954362399
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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