updated index

tad-import.pl

@@ -666,7 +666,7 @@
 								my $execute = "$ibis -d $vfastbit -y \"sampleid = '$delete'\" -z";
 								`$execute 2>> $efile`; printerr ".";
 								`rm -rf $vfastbit/*sp $vfastbit/*old $vfastbit/*idx $vfastbit/*dic $vfastbit/*int `; #removing old indexes
-								`ibis -d $vfastbit -query "select genename, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index based on genename
+								`ibis -d $vfastbit -query "select genename, geneid, genetype, transcript, feature, codonchange, aachange, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index based on genename
 								printerr " Done\n";
 							}
 						} else {
@@ -679,7 +679,7 @@
 							my $execute = "$ibis -d $vfastbit -y \"sampleid = '$delete'\" -z";
 							`$execute 2>> $efile`; printerr ".";
 							`rm -rf $vfastbit/*sp $vfastbit/*old $vfastbit/*idx $vfastbit/*dic $vfastbit/*int `; #removing old indexes
-							`ibis -d $vfastbit -query "select genename, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index based on genename
+							`ibis -d $vfastbit -query "select genename, geneid, genetype, transcript, feature, codonchange, aachange, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index
 							printerr " Done\n";
 						}
 					}
@@ -1496,7 +1496,7 @@ sub NOSQL {
 	my $execute = "$ardea -d $vfastbit -m 'variantclass:char,zygosity:char,dbsnpvariant:text,source:text,consequence:text,geneid:text,genename:text,transcript:text,feature:text,genetype:text,refallele:char,altallele:char,tissue:text,chrom:text,aachange:text,codonchange:text,organism:text,sampleid:text,quality:double,position:int,proteinposition:int' -t $vnosql";
 	`$execute 2>> $efile` or die "\nERROR\t: Complication importing to FastBit, contact $AUTHOR\n";
 	`rm -rf $vfastbit/*sp`; #removing old indexes
-	`ibis -d $vfastbit -query "select genename, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index based on genename
+	`ibis -d $vfastbit -query "select genename, geneid, genetype, transcript, feature, codonchange, aachange, sampleid, chrom, tissue, organism, consequence, dbsnpvariant" 2>> $efile`; #create a new index
 	`chmod 777 $vfastbit && rm -rf $vnosql`;
 	$sth = $dbh->prepare("update VarSummary set nosql = 'done' where sampleid = '$_[0]'"); $sth ->execute(); #update database nosql : DONE