Hi, fajohnson...
Your command line is worked. But still left all the header of the nucleotide sequence. Do you have better idea that I just remain the first header of those same nucleotide sequence?
My input:
>HWI-EAS382_30FC7AAXX:4:1:631:449
>HWI-EAS382_30FC7AAXX:4:1:93:1407
>HWI-EAS382_30FC7AAXX:4:1:154:1123
>HWI-EAS382_30FC7AAXX:4:1:912:1008
>HWI-EAS382_30FC7AAXX:4:1:57:316
>HWI-EAS382_30FC7AAXX:4:1:1287:1193
>HWI-EAS382_30FC7AAXX:4:1:1451:1559
>HWI-EAS382_30FC7AAXX:4:1:1431:1913
TTTCCGCGAACTGCAAAAGACGTTTCGTATGCCGTT
My output just want left this:
>HWI-EAS382_30FC7AAXX:4:1:631:449
TTTCCGCGAACTGCAAAAGACGTTTCGTATGCCGTT
Hi,
I have a scenario here where I have created a flatfile with the below mentioned information. File as you can see is dispalyed in three columns
1st column is FileNameString
2nd column is Report_Name (this has spaces)
3rd column is Flag
Result file needed is, removal of duplicate... (1 Reply)
Can anyone help me how can i print only the unique entry in a line?
MI_AP MI_AP MI_CM MI_MF
RC_NAP MBS_AP SF_RAN MBS_AP NT_CAR
so that it will on output the one unique entry per line.
MI_AP MI_CM MI_MF
RC_NAP MBS_AP SF_RAN NT_CAR
I can't find the same situation on the knowledge... (5 Replies)
For example, if I have the file whose content are:
>HWI-EAS382_30FC7AAXX:7:1:927:1368
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>HWI-EAS382_30FC7AAXX:7:1:924:1373
ACGAACTTTAAAGCACCTCTTGGCTCGTATGCCGTC
I want my output calculate the total of nucleotide. So my output should look like this:... (2 Replies)
Hi,
Please help!
I have a file having duplicate words in some line and I want to remove the duplicate words.
The order of the words in the output file doesn't matter.
INPUT_FILE
pink_kite red_pen ball pink_kite ball
yellow_flower white no white no
cloud nine_pen pink cloud pink nine_pen... (6 Replies)
I have a file a.txt having content like
deepak
ram
sham
deepram
sita
kumar
I Want to delete the first line containing "deep" ...
I tried using...
grep -i 'deep' a.txt
It gives me 2 rows...I want to delete the first one..
+ need to know the command to delete the line from... (5 Replies)
Hi
Ive been scratching over this for some time with no solution.
I have a file like this
1 bla bla 1
2 bla bla 2
4 bla bla 3
5 bla bla 1
6 bla bla 1
I want to remove consecutive occurrences of lines like bla bla 1, but the first column may be different.
Any ideasss?? (23 Replies)
So I have a bunch of files that look like this
>gi|33332323
MMKCRGVIMVVEKVMKRDGRIVPFDESRIRWAVQ---
>gi|45235353
MMKCR----VEKMRDVFFDESIRWAVQ
They go on...sequences are much longer but all in two line (fasta) format.
I want to remove duplicate pairs of ID(GI) number and sequence. I tried... (12 Replies)
Hello,
I have a file which have several duplicate entries on the same line:
File
ID source
1 GM GF GM
2 GM GF GM GF GM GF GM GF GM GF
3 GM GF GM SF GM GF GM SF
4 FF FF FF FF
5 FF GM FF ... (2 Replies)
HI,
I have the below input file
/* ----------------- cmdsDlyStartFWJ -----------------*/
UNIX_JOB CMDS065J
RUN ANY
CMDNAME sleep 5
AGENT CMDSHP
USER proddata
RUN MON,TUE,WED,THU,FRI
DELAYSUB 02:00
/* "Triggers daily file watcher jobs" */
ENVAR... (5 Replies)
Discussion started by: varun22486
5 Replies
LEARN ABOUT CENTOS
cgi::pretty
CGI::Pretty(3) User Contributed Perl Documentation CGI::Pretty(3)NAME
CGI::Pretty - module to produce nicely formatted HTML code
SYNOPSIS
use CGI::Pretty qw( :html3 );
# Print a table with a single data element
print table( TR( td( "foo" ) ) );
DESCRIPTION
CGI::Pretty is a module that derives from CGI. It's sole function is to allow users of CGI to output nicely formatted HTML code.
When using the CGI module, the following code:
print table( TR( td( "foo" ) ) );
produces the following output:
<TABLE><TR><TD>foo</TD></TR></TABLE>
If a user were to create a table consisting of many rows and many columns, the resultant HTML code would be quite difficult to read since
it has no carriage returns or indentation.
CGI::Pretty fixes this problem. What it does is add a carriage return and indentation to the HTML code so that one can easily read it.
print table( TR( td( "foo" ) ) );
now produces the following output:
<TABLE>
<TR>
<TD>foo</TD>
</TR>
</TABLE>
Recommendation for when to use CGI::Pretty
CGI::Pretty is far slower than using CGI.pm directly. A benchmark showed that it could be about 10 times slower. Adding newlines and spaces
may alter the rendered appearance of HTML. Also, the extra newlines and spaces also make the file size larger, making the files take longer
to download.
With all those considerations, it is recommended that CGI::Pretty be used primarily for debugging.
Tags that won't be formatted
The following tags are not formatted: <a>, <pre>, <code>, <script>, <textarea>, and <td>. If these tags were formatted, the user would see
the extra indentation on the web browser causing the page to look different than what would be expected. If you wish to add more tags to
the list of tags that are not to be touched, push them onto the @AS_IS array:
push @CGI::Pretty::AS_IS,qw(XMP);
Customizing the Indenting
If you wish to have your own personal style of indenting, you can change the $INDENT variable:
$CGI::Pretty::INDENT = " ";
would cause the indents to be two tabs.
Similarly, if you wish to have more space between lines, you may change the $LINEBREAK variable:
$CGI::Pretty::LINEBREAK = "
";
would create two carriage returns between lines.
If you decide you want to use the regular CGI indenting, you can easily do the following:
$CGI::Pretty::INDENT = $CGI::Pretty::LINEBREAK = "";
AUTHOR
Brian Paulsen <Brian@ThePaulsens.com>, with minor modifications by Lincoln Stein <lstein@cshl.org> for incorporation into the CGI.pm
distribution.
Copyright 1999, Brian Paulsen. All rights reserved.
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.
Bug reports and comments to Brian@ThePaulsens.com. You can also write to lstein@cshl.org, but this code looks pretty hairy to me and I'm
not sure I understand it!
SEE ALSO
CGI
perl v5.16.3 2011-01-24 CGI::Pretty(3)