Public Repository

Last pushed: 2 years ago
Short Description
Docker for the cami challenge
Full Description

To run this docker use this code:

docker run \
-v "$PWD/input:/dckr/mnt/input:ro" \
-v "$PWD/output:/dckr/mnt/output:rw" \
-e "DCKR_THREADS=16" \
-e "CONT_FASTQ_FILE_LISTING=/dckr/mnt/input/fastq.list" \
-e "CONT_PAIRED_FASTQ_FILE_LISTING=/dckr/mnt/input/paired_fastq.list" \
-e "CONT_CONTIGS_FILE_LISTING=/dckr/mnt/input/contigs.list" \
-e "CONT_PROFILING_FILE=/dckr/mnt/output/results.out" \
-e "CONT_DATABASES_DIR=/dckr/mnt/cami-databases" \
--rm \
linsalrob/cfk7b \
default
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linsalrob