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Full Discussion: awk reformat file
Top Forums Shell Programming and Scripting awk reformat file Post 302878326 by yifangt on Thursday 5th of December 2013 02:08:08 PM
Old 12-05-2013
The new version is less brain-twisting but with a bug, which is a number is always prefixed to the sequence lines:
Code:
>YAL069W-1.334 Putative promoter
1CCACACCACACCCACACACCCCACACCACACCCACACACC 0ACACCACACCCACACACACA1ACAGCCCTAATCTAACCCACAGCCCTAATCTAACCC 
>YAL068C-7235.2170 Putative ABC sequence
1TACGAGAATAATTTTACGAGAATAATTT 0ACGTAAATGAAGTT1TATATATAAATATATATAAA 
>gi|31044174|gb|AY143560.1| Tintinnopsis
0GAAACTGCGAATGGCTCATTAAAA0TAATTCTAGAGCTAATACATGCTG0AGCATCTGCTATTGTGGTGACTCATAGT
>gi|31044185|gb|AY143571.1|  
1ATTACCCAATCCTATTACCCAATCCT 0GGGCACCACCAG

Never used printf() combined with condition unary. I re-wrote it as:
Code:
awk '{ printf (/^>/ ? (NR == 1 ? $0 RS : RS $0 RS) : gsub(/[[:space:]]/,$0) $0) }' infile.fasta

The printf () and the x variable confused me very much.
 

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COLORS(3)						   libbash colors Library Manual						 COLORS(3)

NAME
colors -- libbash library for setting tty colors. SYNOPSIS
colorSet <color> colorReset colorPrint [<indent>] <color> <text> colorPrintN [<indent>] <color> <text> DESCRIPTION
General colors is a collection of functions that make it very easy to put colored text on tty. The function list: colorSet Sets the color of the prints to the tty to COLOR colorReset Resets current tty color back to normal colorPrint Prints TEXT in the color COLOR indented by INDENT (without adding a newline) colorPrintN The same as colorPrint, but trailing newline is added Detailed interface description follows. Available colors: Green Red Yellow White The color parameter is non-case-sensitive (i.e. RED, red, ReD, and all the other forms are valid and are the same as Red). FUNCTIONS DESCRIPTIONS
colorSet <color> Sets the current printing color to color. colorReset Resets current tty color back to normal. colorPrint [<indent>] <color> Prints text using the color color indented by indent (without adding a newline). Parameters: <indent> The column to move to before start printing. This parameter is optional. If ommitted - start output from current cursor position. <color> The color to use. <color> The text to print. colorPrintN [<indent>] <color> The same as colorPrint, except a trailing newline is added. EXAMPLES
Printing a green 'Hello World' with a newline: Using colorSet: $ colorSet green $ echo 'Hello World' $ colorReset Using colorPrint: $ colorPrint 'Hello World'; echo Using colorPrintN: $ colorPrintN 'Hello World' AUTHORS
Hai Zaar <haizaar@haizaar.com> Gil Ran <gil@ran4.net> SEE ALSO
ldbash(1), libbash(1) Linux Epoch Linux
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