Re^5: split a file into records and process it

Okay. You want the snoRNA text used as the primary key. Output like this?

C:\test>junk55
{
  "snoRNA 10" => [
        {
          Nm_id     => "NM_001040105",
          exon      => 3,
          gene_id   => 91982771,
          gene_name => "Homo sapiens mucin 17, cell surface associated
+ (MUC17), mRNA.",
          seqs      => [
                         { query => [4, "TGGAGTCAAT", 13], sbjct => [4
+854, "TGGAGTCAAT", 4845] },
                       ],
          web_link  => "http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=R
+etrieve&db=nucleotide&dopt=GenBank&RID=UDU305DZ01N&log%24=nuclalign&b
+last_rank=97&list_uids=91982771",
        },
      ],
  "snoRNA 25, 26 and 27" => [
        {
          Nm_id     => "NM_001100162",
          exon      => 3,
          gene_id   => 154448895,
          gene_name => "Homo sapiens exportin 7 (XPO7), transcript var
+iant 3, mRNA.",
          seqs      => [
                         {
                           query => [2, "CCTGGAGTCGAGTG", 15],
                           sbjct => [146, "CCTGGAGTCGAGTG", 133],
                         },
                       ],
          web_link  => "http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=R
+etrieve&db=nucleotide&dopt=GenBank&RID=UDW41RSS01S&log%24=nuclalign&b
+last_rank=2&list_uids=154448895",
        },
        {
          Nm_id     => "NM_002458",
          exon      => 31,
          gene_id   => 153945877,
          gene_name => "Homo sapiens mucin 5B, oligomeric mucus/gel-fo
+rming (MUC5B), mRNA.",
          seqs      => [
                         {
                           query => [3, "CTGGAGTCGAGTG", 15],
                           sbjct => [6818, "CTGGAGTCGAGTG", 6806],
                         },
                         {
                           query => [3, "CTGGAGTCGAGTG", 15],
                           sbjct => [8489, "CTGGAGTCGAGTG", 8477],
                         },
                         {
                           query => [3, "CTGGAGTCGAGTG", 15],
                           sbjct => [10589, "CTGGAGTCGAGTG", 10577],
                         },
                         {
                           query => [3, "CTGGAGTCGAGTG", 15],
                           sbjct => [12260, "CTGGAGTCGAGTG", 12248],
                         },
                       ],
          web_link  => "http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=R
+etrieve&db=nucleotide&dopt=GenBank&RID=UDW41RSS01S&log%24=nuclalign&b
+last_rank=9&list_uids=153945877",
        },
        {
          Nm_id     => "NM_206862",
          exon      => 4,
          gene_id   => 150418008,
          gene_name => "Homo sapiens transforming, acidic coiled-coil 
+containing protein 2 (TACC2), transcript variant 1, mRNA.",
          seqs      => [
                         {
                           query => [1, "ACCTGGAGTCGAG", 13],
                           sbjct => [4775, "ACCTGGAGTCGAG", 4763],
                         },
                       ],
          web_link  => "http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=R
+etrieve&db=nucleotide&dopt=GenBank&RID=UDW41RSS01S&log%24=nuclalign&b
+last_rank=10&list_uids=150418008",
        },
      ],
}
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If so, then the changes required from Re: split a file into records and process it are minimal:

#! perl -slw
use strict;
use Data::Dump qw[ pp ];

my %records;
until( eof( DATA ) ) {
    my %record;
    ## put the exon number inside the record
    ( $record{ exon } ) = ( <DATA> =~ m[(\d+)] ); 

    my $seqs = 1;
    my $line = <DATA>;
    if( $line =~ m[(\d+) different hits] ) {
        $seqs = $1;
        $line = <DATA>;
    }

    ( $record{ gene_id } ) = ( $line =~ m[GI:(\d+)] );

    ( $record{ Nm_id } ) = ( <DATA> =~ m[(NM_\d[\d]+)] );

    ## save the snoRNA text...
    chomp( my $snoRNA_key = <DATA> );

    for( 1 .. $seqs ) {
        my $query = [ split ' ', <DATA> ]; shift @$query;
        scalar (<DATA>);
        my $sbjct = [ split ' ', <DATA> ]; shift @$sbjct;
        push @{ $record{ seqs } }, { query => $query, sbjct => $sbjct 
+};
    }

    chomp( $record{ gene_name } = <DATA> );

    chomp( $record{ web_link  } = <DATA> );

    ## And use it as the primary key in the main hash
    push @{ $records{ $snoRNA_key } }, \%record;
}

pp \%records;

__DATA__
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