48 lines
934 B
Perl
Executable File
48 lines
934 B
Perl
Executable File
#!/usr/bin/perl
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##############################################################
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# @author : Wagied Davids
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# @progname : fasta2snap.pl
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# @proglang : Perl script
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# @purpose : Fasta to SNAP format converter
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# @input : Fasta format files
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# @output : SNAP format files
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# @date : 05.08.2001
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# @version : 0.001
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##############################################################
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use strict;
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my ($fileIN,$fileOUT);
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my ($de,@seq);
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my $seq;
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$fileIN= "infile";
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#$fileOUT=" ";
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open( FHIN, "$fileIN") || die "Error:$!";
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#open( FHOUT, ">$fileOUT" ) || die "Error:$!";
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$/=">"; #input record seperator
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while(<FHIN>){
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($de,@seq)=split;
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$seq=join("",@seq);
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$seq= uc($seq);
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$seq= substr($seq,0,-1); #> remaining at the end
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print "$de\t$seq\n";
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#print FHOUT "<E><ID>$counter</ID<DE>$de</DE><SEQ>$seq</SEQ></E>\n";
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#print FHOUT "<E><DE>$de</DE><SEQ>$seq</SEQ></E>\n";
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}
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close(FHIN);
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#close(FHOUT);
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