Re^11: Can't run Clustalw through Bioperl

Now that part is bug in the module, its using string form of system, which is subject to shell interpolation, can be fixed like

##      my $commandstring = $self->executable."$instring"."$param_stri
+ng";
##        $commandstring .= ' 1>/dev/null' if $quiet;
##        $self->debug( "clustal command = $commandstring");
##        
##        my $status = system($commandstring);
          my @command = ( $self->executable, $instring, $param_string 
+);
        $self->debug( "clustal command = @command ");
        
        my $status = system(@command);
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Re^12: Can't run Clustalw through Bioperl by dimitris852 (Acolyte) on Mar 15, 2016 at 00:32 UTC
Can you plz be more specific? I m really new to pearl. thanks!	[reply]
Re^13: Can't run Clustalw through Bioperl by dimitris852 (Acolyte) on Mar 15, 2016 at 01:27 UTC
I Just made it work! Steps to make it work: 1)copy the `clustalw2.exe` 2)paste it on your e.g. Desktop 3)Rename it to `clustalw.exe` 4)Give the `$ENV{CLUSTALDIR}`the new path to `clustalw.exe` and it works! (at first tried to rename the basic clustalw2.exe of 'C:\Program Files (x86)\ClustalW2' but didn't work) Thanks everybody for your help and your time! Have a nice day!	[reply] [d/l] [select]