wltrimbl / mym5nr

local version of M5NR

myM5NR

local version of M5NR

Installation with Docker

To build this image:

git clone --recursive https://github.com/MG-RAST/myM5NR.git

To build the image either download the Docker file into an empty directory of provide the url to Dockerfile as in this example:

docker build -t mgrast/m5nr-build .

Example for manual invocation:

docker run -ti --name m5nr -v/var/tmp/m5nr:/m5nr_data mgrast/m5nr-build

From now steps execute inside the container

Set up some environment bits

mkdir -p /m5nr_data/Sources
mkdir -p /m5nr_data/Parsed

source /myM5NR/sources.cfg

To initiate the download

/myM5NR/bin/download_m5nr_sources.sh /m5nr_data/Sources 2>&1 | tee /m5nr_data/Sources/logfile.txt

To initiate the build

/myM5NR/bin/source2ach.sh 4 /m5nr_data/Sources /m5nr_data/Parsed 2>&1 | tee /m5nr_data/Parsed/logfile.txt