This is syntax error 
if # you forgot some parens here, like someone said
        {    $line1=~ /^$pattern/;
                        $line2=~ /^$pattern/;
                         $line1==$line2;
                        {  print $line1;    }
}

[download]
Also 
my $pattern='/^LOC_Os0[1-7]g[0-9]*.[0-9]\s';
...
$line1=~ /^$pattern/;
# $line1 (and 2) will expand to smth like /^^LOC_0s.../, which is prob
+ably not what you want. Try
my $pat = qr/^LOC_0s.../
$line1 =~ $pat;

[download]

In reply to Re: match pattern from two different file by Anonymous Monk
in thread match pattern from two different file by Anonymous Monk

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.