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package RequestForm::DB;

use LIMS::Local::QueryLibrary;
use DateTime::Format::MySQL;
use LIMS::Local::Utils;
use Path::Tiny;
use FindBin;

use lib '/home/raj/perl-lib';
use Local::DB;

use RequestForm::Class; # provides Moo, Local::MooX::Types & LIMS::Local::Debug::p
has dbname  => ( is => 'ro', isa => String, required => 1 ); # uclh, hilis4, etc
has sql_lib => ( is => 'lazy' ); # returns SQL::Library obj
has dbix    => ( is => 'lazy' ); # returns DBIx::Simple object

sub _build_dbix {
    my $db = $_[0]->dbname; # dbname = uclh, leeds, etc
    $db =~ s/leeds/hilis4/; # leeds -> hilis4 symlink doesn't work on innodb tables
    Local::DB->dbix($db);
}

sub _build_sql_lib {
	my $lib = path($FindBin::Bin, '..', 'sql.lib')->realpath;
	LIMS::Local::QueryLibrary->new({ lib => $lib });
}

sub save_params {
    my $self = shift;
    my $vars = shift; # p $vars;
    
    # get field names from request_form table:
    my $cols = $self->get_cols('request_form'); # p $cols;    
    my %h = map +($_ => $vars->{$_}), @$cols; # p %h;

    my $db = $self->dbix();
    $db->insert('request_form', \%h);
}

sub search_patient {
    my ($self, $nhs_number) = @_; # p $nhs_number;
    
    my $db = $self->dbix();
    my $data = $db->select('patients', '*', { nhs_number => $nhs_number })->hash;
    return $data;
}

sub get_referral_sources {
    my ($self, $str) = @_; # part of referral_location (string)
    
    my $db  = $self->dbix();
	my $lib = $self->sql_lib;
	my $sql = $lib->retr('referral_sources');

    my $data = $db->query( $sql, $str )->hashes; # p $vars;
    return $data;
}

sub get_previous_cml_monitoring {
    my ($self, $nhs_number) = @_;
	
    my $db  = $self->dbix();
	my $lib = $self->sql_lib;
	my $sql = $lib->retr('previous_cml_monitoring');
    
    my $query = $db->query( $sql, $nhs_number );
    
    my (@data, $last_result);
    # get bcr-abl results in reverse chronological order:
    while ( my $ref = $query->hash ) { # p $ref;
        # registration date to DT object:
        my $reg_date = DateTime::Format::MySQL->parse_date($ref->{registered});
        # extract bcr-abl:abl ratio if exists:
        my ($ratio)  = $ref->{result} =~ /(BCR-ABL : ABL ratio = .*%)/;
        
        # date of last result is reg date of most recent bcr-abl ratio:
        $last_result = $reg_date if ( $ratio and ! $last_result );

        # set result to bcr-abl:abl ratio, otherwise keep original:
        push @data, {
            registered => $reg_date,
            result     => $ratio || $ref->{result},
        };
    }
    my %h = (
        date_last => $last_result,
        results   => \@data,
    ); # p %h;
    return \%h;
}

sub get_userid {
    my ($self, $username) = @_;
    
    my $db = $self->dbix();
    $db->select('users', 'id', { username => $username })->into(my $user_id);
    return $user_id;
}

sub get_cols {
	my ($self, $table) = @_;
	
	my $meta = $self->get_meta($table); # p $meta;	
	return [ keys %$meta ];
}

sub get_meta {
	my ($self, $table) = @_;
	
	my $dbh = $self->dbix;
	
	my $t = $dbh->query("show columns from $table")->hashes; # p $t;
	
	my %meta = map { $_->{field} => $_ } @$t; # p %meta;	
	return \%meta;
}

1;