package traits

import "seekia/internal/helpers"

import "maps"

import _ "embed"

import "encoding/gob"
import "bytes"


//go:embed rsIDs/GiantHeightStudyLoci.gob
var GiantHeightStudyLociFile []byte


func getHeightTraitObject()(Trait, error){

	// Map Structure: rsID -> References Map
	locusReferencesMap := make(map[int64]map[string]string)

	referencesMap_List1 := make(map[string]string)
	referencesMap_List1["GIANT consortium - Meta-analyses of Genome-Wide Association Studies - 2022 - Height"] = "https://portals.broadinstitute.org/collaboration/giant/index.php/GIANT_consortium_data_files"

	// These SNPs are taken from the meta-analyses of Genome-Wide Association Studies (GWAS) created by the GIANT consortium
	//https://portals.broadinstitute.org/collaboration/giant/index.php/GIANT_consortium_data_files

	// Download link:
	// https://portals.broadinstitute.org/collaboration/giant/images/4/4e/GIANT_HEIGHT_YENGO_2022_GWAS_SUMMARY_STATS_ALL.gz

	//SHA-256 Checksum:
	// db18859724675f2f9ba86eff28cb4dacac0629c0b25c9806a6cf2eed6bb8b71e

	// See /utilities/extractGiantLoci/extractGiantLoci.go to see how they were extracted from the file

	buffer := bytes.NewBuffer(GiantHeightStudyLociFile)
	decoder := gob.NewDecoder(buffer)

	var lociList_1 []int64

	err := decoder.Decode(&lociList_1)
	if (err != nil){ return Trait{}, err }

	for _, rsID := range lociList_1{
		locusReferencesMap[rsID] = maps.Clone(referencesMap_List1)
	}

	heightLociList := helpers.GetListOfMapKeys(locusReferencesMap)

	referencesMap := make(map[string]string)
	referencesMap["GIANT consortium - Meta-analyses of Genome-Wide Association Studies - 2022 - Height"] = "https://portals.broadinstitute.org/collaboration/giant/index.php/GIANT_consortium_data_files"

	heightObject := Trait{
		TraitName: "Height",
		TraitDescription: "The distance between the top of a standing person head and the floor.",
		DiscreteOrNumeric: "Numeric",
		LocusReferencesMap: locusReferencesMap,
		LociList: heightLociList,
		LociList_Rules: []int64{},
		RulesList: []TraitRule{},
		OutcomesList: []string{},
		ReferencesMap: referencesMap,
	}

	return heightObject, nil
}