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Full Discussion: Print specific pattern line in c++
Top Forums Programming Print specific pattern line in c++ Post 302536253 by cpp_beginner on Tuesday 5th of July 2011 12:17:49 AM
Old 07-05-2011
Print specific pattern line in c++
Input file:
Code:
@HWI-BRUNOP1_header_1
GACCAATAAGTGATGATTGAATCGCGAGTGCTCGGCAGATTGCGATAAAC
+HWI-BRUNOP1_header_1
TNTTJTTTETceJSP__VRJea`_NfcefbWe[eagggggfgdggBBBBB
@HWI-BRUNOP1_header_2
CAGCAGACGCTTTGATTGCTCGATCTCTTGGTAAATACGGCATCATCTGC
+HWI-BRUNOP1_header_2
TJTTTJFFFFa`TWNMPJGTbZSTPZJHHGT^I^H^SKZeeeeeeb``RT

Desired output file:
Code:
>HWI-BRUNOP1_header_1
GACCAATAAGTGATGATTGAATCGCGAGTGCTCGGCAGATTGCGATAAAC
>HWI-BRUNOP1_header_2
CAGCAGACGCTTTGATTGCTCGATCTCTTGGTAAATACGGCATCATCTGC

Rules to follow when writing c++ program:
1. Print out the line start with "@HWI" and the content below "@HWI";
2. Change the "@HWI" into "#HWI" and save the output result into another file;
Command that I try to deal with 14Gb input file data:
Code:
[home@cpp]time grep -A1 '@HWI' input_file.txt | sed -e 's/--//g' -e 's/@HWI/#HWI/g' | sed '/^$/d' > output_file.txt
real    7m13.413s
user    5m25.382s
sys     1m37.668s
[1]+  Done       time grep -A1 '@HWI' input_file.txt | sed -e 's/--//g' -e 's/@HWI/#HWI/g' | sed '/^$/d' > output_file.txt           
[home@cpp]cat output_file.txt
>HWI-BRUNOP1_header_1
GACCAATAAGTGATGATTGAATCGCGAGTGCTCGGCAGATTGCGATAAAC
>HWI-BRUNOP1_header_2
CAGCAGACGCTTTGATTGCTCGATCTCTTGGTAAATACGGCATCATCTGC

Desired format to run the c++ program:
Code:
cplusplus_program_name input_file_name output_file_name

Thanks for any advice.
 

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LEARN ABOUT SUSE

ebook-convert

EBOOK-CONVERT(1)						      calibre							  EBOOK-CONVERT(1)

NAME

       ebook-convert - part of calibre

SYNOPSIS

       ebook-convert  input_file output_file [options]

DESCRIPTION

       Convert an ebook from one format to another.

       input_file is the input and output_file is the output. Both must be specified as the first two arguments to the command.

       The  output ebook format is guessed from the file extension of output_file. output_file can also be of the special format .EXT where EXT is
       the output file extension. In this case, the name of the output file is derived the name of the input file. Note that  the  filenames  must
       not  start  with a hyphen. Finally, if output_file has no extension, then it is treated as a directory and an "open ebook" (OEB) consisting
       of HTML files is written to that directory. These files are the files that would normally have been passed to the output plugin.

       After specifying the input and output file you can customize the conversion by specifying various options. The available options depend	on
       the input and output file types. To get help on them specify the input and output file and then use the -h option.

       For full documentation of the conversion system see http://calibre-ebook.com/user_manual/conversion.html

       Whenever you pass arguments to ebook-convert that have spaces in them, enclose the arguments in quotation marks.

OPTIONS

       --version
	      show program's version number and exit

       -h, --help
	      show this help message and exit

SEE ALSO

       The User Manual is available at http://calibre-ebook.com/user_manual

       Created by Kovid Goyal <kovid@kovidgoyal.net>

ebook-convert (calibre 0.6.53)					     July 2010							  EBOOK-CONVERT(1)
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