X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bp_bin%2Fupload_to_ucsc;h=dec35bfb95766397955044f3a9ee57fd77f02198;hb=48bea5c28b89dc5586d0bddb338ccd6ba23aa1f9;hp=aac49282267a919c50d2fb82380fc6bfa1241352;hpb=9bf550c4335d8860c5f6f9c4db0f385f1b36c1dd;p=biopieces.git diff --git a/bp_bin/upload_to_ucsc b/bp_bin/upload_to_ucsc index aac4928..dec35bf 100755 --- a/bp_bin/upload_to_ucsc +++ b/bp_bin/upload_to_ucsc @@ -158,9 +158,9 @@ while ( $record = Maasha::Biopieces::get_record( $in ) ) close $fh_out; if ( $format eq "BED" ) { - Maasha::UCSC::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); + Maasha::UCSC::BED::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); } elsif ( $format eq "PSL" ) { - Maasha::UCSC::psl_upload_to_ucsc( $file, $options, $append ); + Maasha::UCSC::BED::psl_upload_to_ucsc( $file, $options, $append ); } unlink $file; @@ -181,19 +181,19 @@ if ( $format eq "BED" ) { $type = "bed $columns"; - Maasha::UCSC::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); + Maasha::UCSC::BED::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); } elsif ( $format eq "BED_SS" ) { $type = "type bed 6 +"; - Maasha::UCSC::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); + Maasha::UCSC::BED::bed_upload_to_ucsc( $tmp_dir, $file, $options, $append ); } elsif ( $format eq "PSL" ) { $type = "psl"; - Maasha::UCSC::psl_upload_to_ucsc( $file, $options, $append ); + Maasha::UCSC::PSL::psl_upload_to_ucsc( $file, $options, $append ); } elsif ( $format eq "WIGGLE" ) { @@ -220,7 +220,7 @@ elsif ( $format eq "WIGGLE" ) $type = "wig 0"; - Maasha::UCSC::wiggle_upload_to_ucsc( $tmp_dir, $wib_dir, $file, $options ); + Maasha::UCSC::Wiggle::wiggle_upload_to_ucsc( $tmp_dir, $wib_dir, $file, $options ); } unlink $file;