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Full Discussion: Search and filter between two files
Top Forums UNIX for Dummies Questions & Answers Search and filter between two files Post 302484823 by FelipeAd on Monday 3rd of January 2011 10:52:00 AM
Old 01-03-2011
Search and filter between two files
Hello,

I have two files in this form that consist of three columns, a name (L*contig*), the length (length=**) and the sequence

LT_file.txt
HTML Code:
LTcontig1   length=13 acccatgctttta
LTcontig5   length=8 ggattacc
LTcontig8   length=20 ccattgaccgtacctgatcg
LTcontig23   length=5 accta
and LU_file.txt

HTML Code:
LUcontig1   length=15 acccatgcttttacc
LUcontig18   length=13 acccatgctttta
LUcontig16   length=25 ccattgaccgtacctgatcgaaaat
I want to compare every sequence in the first file with every sequence in the second file in order to find matches and I want to write both sequences in another file.

For example, in this example, LTcontig8 is included in LUcontig16 since

LTcontig8 length=20 ccattgaccgtacctgatcg
LUcontig16 length=25 ccattgaccgtacctgatcgaaaat

so I want both of these lines in a separate file.

Thank you in advance,
Felipe
 

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LEARN ABOUT NETBSD

set_color

set_color(1)							       fish							      set_color(1)

NAME

       set_color - set_color - set the terminal color

set_color - set the terminal color
   Synopsis
       set_color [-v --version] [-h --help] [-b --background COLOR] [COLOR]

   Description
       Change the foreground and/or background color of the terminal. COLOR is one of black, red, green, brown, yellow, blue, magenta, purple,
       cyan, white and normal.

       o -b, --background Set the background color

       o -c, --print-colors Prints a list of all valid color names

       o -h, --help Display help message and exit

       o -o, --bold Set bold or extra bright mode

       o -u, --underline Set underlined mode

       o -v, --version Display version and exit

       Calling set_color normal will set the terminal color to whatever is the default color of the terminal.

       Some terminals use the --bold escape sequence to switch to a brighter color set. On such terminals, set_color white will result in a grey
       font color, while set_color --bold white will result in a white font color.

       Not all terminal emulators support all these features. This is not a bug in set_color but a missing feature in the terminal emulator.

       set_color uses the terminfo database to look up how to change terminal colors on whatever terminal is in use. Some systems have old and
       incomplete terminfo databases, and may lack color information for terminals that support it. Download and install the latest version of
       ncurses and recompile fish against it in order to fix this issue.

Version 1.23.1							  Sun Jan 8 2012						      set_color(1)
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