checksum.template

#!/bin/bash

export PATH=$PATH:"$HOME/.aspera/connect/bin"

# get UUID and SRA number
UUID=${UUID}
SRA_NUM=${SRA}
AGAVE_FILE=${AGAVE_URL}
EXTERNAL_URL=${URL}
SRA_PATH="./SRA/"

FILE_PATH=""

echo ${AGAVE_FILE}

# internal agave file provided
if [ ${AGAVE_FILE} != "" ]; then
	FILE_PATH=${AGAVE_FILE}
else
	# SRA number provided
	if [ ${SRA_NUM} != "" ];then
		# Downloading file
		chmod 755 ./bin/aspera.sh
		./bin/aspera.sh ${SRA_NUM} ${SRA_PATH}

		# Running checksum and update metadata
		if [ $? -eq 0 ]; then
			FILE_PATH="./SRA/${SRA_NUM}.sra"
		else
			exit 1
		fi
	else
		# external file URL provided
		if [ ${EXTERNAL_URL} != "" ]; then
			# Download external file
			wget ${EXTERNAL_URL}
			
			if [ $? -eq 0 ]; then
				FILE_PATH="${EXTERNAL_URL##*/}"
			else
				exit 1
			fi
		else
			echo 'No input of file match!'
			exit 1 
		fi
	fi
fi

echo ${FILE_PATH}
	
if [ ! -f "${FILE_PATH}" ]; then
        echo 'File not found! Please confirm the input.'
        exit 1
fi

md5=($(md5sum ${FILE_PATH}))
lastChecksumUpdated=$(date '+%Y-%m-%d %X')
echo ${md5}

# post the checksum to webhook
curl -k --data "UUID=${UUID}&checksum=${md5}&lastChecksumUpdated=${lastChecksumUpdated}" http://requestb.in/v0cdvwv0
curl -k --data '{"UUID":${UUID},"checksum":${md5}}' https://identifierservices.org/webhook/update_checksum

rm ${FILE_PATH}
rm -rf SRA
exit 0