Thanks graff for your valuable input

My main problem is running fasta34 for the second and the consecutive time

i extract the input of sequence each time thru the following code.The query.aa store just one sequence at a time. 

open(QUERY,">$query") or die "cannot open querry file\n";
    while ($inparr[$temp] ne "\n")
    {
        print QUERY "$inparr[$temp]";
        $temp++;
    }
    close(QUERY);

[download]

if this is not the right way, then how should i get each sequence at a time in the file and give input to fasta34

you also mentioned about hash, can u brief me out how we can store such file in hash and then compare similar files 

>GTM1_RAT GLUTATHIONE S-TRANSFERASE YB1 (EC 2.5.1.18) (  (217 aa) 
 WFAGDKVTYVDFLAYDILDQYHIFEPKCLDAFPNLKDFLARFEGLKKISAYMKSSRYLST 
 PIFSKLAQWSNK                                                 

>GTMU_CRILO GLUTATHIONE S-TRANSFERASE Y1 (EC 2.5.1.18)   (217 aa) 
 FAGDKVTLCGFLAYDVLDQYQMFEPKCLDPFPNLKDFLARFEGLKKISAYMKTSRFLRRP 
 IFSKMAQWSNK                                                  

>GTM1_HUMAN GLUTATHIONE S-TRANSFERASE MU 1 (EC 2.5.1.18  (217 aa) 
 LPEKLKLYSEFLGKRPWFAGNKITFVDFLVYDVLDLHRIFEPKCLDAFPNLKDFISRFEG 
 LEKISAYMKSSRFLPRPVFSKMAVWGNK                                 

>GLNA_ANASP GLUTAMINE SYNTHETASE (EC 6.3.1.2) (GLUTAMAT  (473 aa) 
 SLELALEALENDHAFLTDTGVFTEDFIQNWIDYKLANEVKQMQLRPH-PYEFSIYYDV   

>GTM4_HUMAN GLUTATHIONE S-TRANSFERASE MU 4 (EC 2.5.1.18  (218 aa) 
 LPTMMQHFSQFLGKRPWFVGDKITFVDFLAYDVLDLHRIFEPNCLDAFPNLKDFISRFEG 
 LEKISAYMKSSRFLPKPLYTRVAVWGNK

[download]

can you give a small code for it

thanks

Farid

In reply to Re^2: Could not open by FarTech
in thread Could not open by FarTech

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