DunnHowisonZapata2013 /

#SBATCH -t 24:00:00
#SBATCH -c 16
#SBATCH --mem=55g
#SBATCH -C e5-2600


export BIOLITE_RESOURCES="database=$PWD/biolite.sqlite,agalma_database=$PWD/agalma.sqlite,outdir=$PWD/analyses,threads=16,memory=55g"

set -e

mkdir -p scratch
cd scratch

agalma sanitize --id $ID
agalma insert_size --id $ID --previous $ID
agalma remove_rrna --id $ID --previous $ID
agalma assemble --id $ID --previous $ID --skip oases_merge
agalma postassemble --id $ID --previous $ID
agalma load --id $ID --previous $ID
Tip: Filter by directory path e.g. /media app.js to search for public/media/app.js.
Tip: Use camelCasing e.g. ProjME to search for
Tip: Filter by extension type e.g. /repo .js to search for all .js files in the /repo directory.
Tip: Separate your search with spaces e.g. /ssh pom.xml to search for src/ssh/pom.xml.
Tip: Use ↑ and ↓ arrow keys to navigate and return to view the file.
Tip: You can also navigate files with Ctrl+j (next) and Ctrl+k (previous) and view the file with Ctrl+o.
Tip: You can also navigate files with Alt+j (next) and Alt+k (previous) and view the file with Alt+o.