#!/bin/bash

#

# This assumes all of the OS-level configuration has been completed and git repo has already been cloned

#

# This script should be run from the repo's deployment directory

# cd deployment

# ./build-s3-dist.sh source-bucket-base-name solution-name version-code

#

# Paramenters:

#  - source-bucket-base-name: Name for the S3 bucket location where the template will source the Lambda

#    code from. The template will append '-[region_name]' to this bucket name.

#    For example: ./build-s3-dist.sh solutions my-solution v1.0.0

#    The template will then expect the source code to be located in the solutions-[region_name] bucket

#

#  - solution-name: name of the solution for consistency

#

#  - version-code: version of the package

# Check to see if input has been provided:

if [ -z "$1" ] || [ -z "$2" ] || [ -z "$3" ]; then

    echo "Please provide the base source bucket name, trademark approved solution name and version where the lambda code will eventually reside."

    echo "For example: ./build-s3-dist.sh solutions trademarked-solution-name v1.0.0"

    exit 1

fi

# Get reference for all important folders

template_dir="$PWD"

template_dist_dir="$template_dir/global-s3-assets"

build_dist_dir="$template_dir/regional-s3-assets"

source_dir="$template_dir/../source"

cp $source_dir/setup_cfn.yml $template_dir/guidance-for-multi-omics-and-multi-modal-data-integration-and-analysis-on-aws.template

cp $source_dir/setup_cfn.yml $template_dir/$SOLUTION_NAME.template

echo "------------------------------------------------------------------------------"

echo "[Init] Clean old dist"

echo "------------------------------------------------------------------------------"

echo "rm -rf $template_dist_dir"

rm -rf $template_dist_dir

echo "mkdir -p $template_dist_dir"

mkdir -p $template_dist_dir

#echo "rm -rf $build_dist_dir"

#rm -rf $build_dist_dir

echo "mkdir -p $build_dist_dir"

mkdir -p $build_dist_dir

echo "------------------------------------------------------------------------------"

echo "[Packing] Templates"

echo "------------------------------------------------------------------------------"

echo "cp $template_dir/*.template $template_dist_dir/"

cp $template_dir/*.template $template_dist_dir/

echo "copy yaml templates and rename"

#cp $template_dir/*.yml $template_dist_dir/

#cd $template_dist_dir

# Rename all *.yaml to *.template

#for f in *.yml; do

#    mv -- "$f" "${f%.yml}.template"

#done

#cd ..

echo "Updating code source bucket in template with $1"

replace="s/%%BUCKET_NAME%%/$1/g"

echo "sed -i '' -e $replace $template_dist_dir/*.template"

sed -i '' -e $replace $template_dist_dir/*.template

replace="s/%%SOLUTION_NAME%%/$2/g"

echo "sed -i '' -e $replace $template_dist_dir/*.template"

sed -i '' -e $replace $template_dist_dir/*.template

replace="s/%%VERSION%%/$3/g"

echo "sed -i '' -e $replace $template_dist_dir/*.template"

sed -i '' -e $replace $template_dist_dir/*.template

mkdir -p $build_dist_dir/references/hg38

mkdir -p $build_dist_dir/variants/1kg/

mkdir $build_dist_dir/variants/vcf/

mkdir -p $build_dist_dir/annotation/clinvar/

mkdir $build_dist_dir/tcga/

echo "------------------------------------------------------------------------------"

echo "[Rebuild] Solution"

echo "------------------------------------------------------------------------------"

cd $source_dir

bundle_dir="$source_dir/../bundle"

mkdir -p $bundle_dir

# create the lambda function deployment pacakage for the solution setup

cd $source_dir/GenomicsAnalysisCode/setup

pip install -t . crhelper

zip -r $bundle_dir/SolutionSetup.zip .

# package the solution

cd $source_dir

zip -r $bundle_dir/Solution.zip .

# package new lambdas here 

# upload zips here 

cd $bundle_dir

cp Solution.zip $template_dist_dir/

cp SolutionSetup.zip $template_dist_dir/

cp Solution.zip $build_dist_dir/

cp SolutionSetup.zip $build_dist_dir/