#!/bin/bash # # Download some published MHC I ligand data # # set -e set -x DOWNLOAD_NAME=data_published SCRATCH_DIR=${TMPDIR-/tmp}/mhcflurry-downloads-generation SCRIPT_ABSOLUTE_PATH="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)/$(basename "${BASH_SOURCE[0]}")" SCRIPT_DIR=$(dirname "$SCRIPT_ABSOLUTE_PATH") mkdir -p "$SCRATCH_DIR" rm -rf "$SCRATCH_DIR/$DOWNLOAD_NAME" mkdir "$SCRATCH_DIR/$DOWNLOAD_NAME" # Send stdout and stderr to a logfile included with the archive. exec > >(tee -ia "$SCRATCH_DIR/$DOWNLOAD_NAME/LOG.txt") exec 2> >(tee -ia "$SCRATCH_DIR/$DOWNLOAD_NAME/LOG.txt" >&2) # Log some environment info date pip freeze # git rev-parse HEAD git status cd $SCRATCH_DIR/$DOWNLOAD_NAME # Kim et al 2014 [PMID 25017736] wget -q https://github.com/openvax/mhcflurry/releases/download/pre-1.1/bdata.2009.mhci.public.1.txt wget -q https://github.com/openvax/mhcflurry/releases/download/pre-1.1/bdata.20130222.mhci.public.1.txt wget -q https://github.com/openvax/mhcflurry/releases/download/pre-1.1/bdata.2013.mhci.public.blind.1.txt cp $SCRIPT_ABSOLUTE_PATH . bzip2 LOG.txt tar -cjf "../${DOWNLOAD_NAME}.tar.bz2" * echo "Created archive: $SCRATCH_DIR/$DOWNLOAD_NAME.tar.bz2"