Hi all,

I am trying to alter this script:

 perl -lne '/>/ && do {print $c if defined $c; $c = 0; print} || $c++; END {print $c}' input_file > output_file

In order to make the output counts for only unique lines that are between lines starting with '>'

Currently this script works well in generating overall counts of the lines that are between lines that begin with '>'

Example input_file: 
>05143_African_trypanosomiasis
TRINITY_DN26760_c1_g1
18169
42987
42987
>05145_Toxoplasmosis
43736
38319
38320
38320
TRINITY_DN24151_c3_g1
TRINITY_DN25493_c0_g1

[download]
Example of output_file: 
>05143_African_trypanosomiasis
4
>05145_Toxoplasmosis
6

[download]
Example of desired output: 
>05143_African_trypanosomiasis
3
>05145_Toxoplasmosis
5

[download]

I'm also very new to perl so an explanation of the tweaked code would be much appreciated.

-James

In reply to Getting unique line counts between lines starting with '>' by james.v

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.