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Full Discussion: Adding lines to files based on file extension
Top Forums Shell Programming and Scripting Adding lines to files based on file extension Post 302433449 by Xterra on Tuesday 29th of June 2010 08:27:21 PM
Old 06-29-2010
Adding lines to files based on file extension
I have posted this before but did not get many replies, so here it goes again.
I have several files name like this
Quote:
Pat1.1a
Patient32.1a
Pat16.3
Sample76.4
Pat243.5
Pat101.1a
Individual33.6
Pat93.2
Pat5.1b
If the file extension is 1a, I woould like to add at the beggining of the file the following sequence
Quote:
>Reference1a
AGCATGACGATCAGTGTGCGGGTGA
If the file extension is 1b, thn the entry that should be added is the next one
Quote:
>Reference1b
AGCATGTGTGCGGGTGA
So on and so forth.
I came out with the following code, which is working, but I was hoping there was a way to do the same thing using awk
Code:
#!/bin/sh
for f in *.1a
do
printf ">Reference1a\nTTGATGTGCCAACTGCGCAAATAGCAGCAGCACTACCAGGACCTTCGCCCA\n" | cat - ${f} > Converted${f}
done
for i in *.1b
do
printf ">Reference1b\nTTGATGTGCCTACCAGGACCTTCGCCCA\n" | cat - ${i} > Converted${i}
done
for e in *.3
do
printf ">Reference3\nTTGATTCGCCCA\n" | cat - ${e} > Converted${e}
done

Any ideas?
Thansk!

---------- Post updated at 08:27 PM ---------- Previous update was at 05:25 PM ----------

Anyone?
Last edited by Xterra; 06-29-2010 at 06:49 PM..
 

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LEARN ABOUT DEBIAN

nyshell

NYSHELL(1)						      General Commands Manual							NYSHELL(1)

NAME

       nyshell - tool to generate shell scripts to build nypatchy output

SYNOPSIS

       nyshell logfile options cradle [ print ] [ .go ]

DESCRIPTION

       nyshell is a tool in the Nypatchy suite of programs for working with Patchy Master Files (PAM files); see nypatchy(1).  Specifically, given
       the log file of a nypatchy run, it can create a shell script to compile all the source code files output by nypatchy.  This program is sim-
       ilar to fcasplit except that it takes the log file as input instead of a source file, and it remembers which source code files have already
       been compiled in previous runs.

USAGE

       logfile is the name of the log file coming from nypatchy, with a default extension of ".log".  A cradle file cradle may	be  given  to  add
       additional  setup  options  such as desired compilers or compiler flags to use.	(See the reference manual for more details.)  print is the
       file to which informational output should be written (the default is standard output if omitted), and options is a sequence of single-char-
       acter  flags.  This program generates a shell script file named name.shfca (with name being the part of logfile sans extension) that can be
       run to build all object files.  The file name.xqtlog "remembers" the current state.

       The command should be ended with ".go" unless one wants to enter the Nypatchy interactive shell.

OPTIONS

       Note that options should be given as a single string of characters with no space separation and no use of the - character (except  that	it
       can be used in place of the options field if no options are desired).  Alphabetic options are not case-sensitive.

       A      Force recompilation of all routines.

       B      Bypass tests based on the .xqtlog file.

       E      Bypass tests based on the .xqtlog file if it is empty.

       H      Print help information only.

       Q      "quick" - Do not print the setup.

       S      Print the setup only (only together with H).

       U      "up to date" - Check that all .o files are ready to go into a library.

       V      "verbose" - Print the complete setup.

SEE ALSO

       fcasplit(1), nycheck(1), nydiff(1), nyindex(1), nylist(1), nypatchy(1), nymerge(1), nysynopt(1), nytidy(1), yexpand(1)

       The reference manual for the Nypatchy suite of programs is available in compressed PostScript format at the following URL:
       http://wwwasdoc.web.cern.ch/wwwasdoc/psdir/p5refman.ps.gz

       Running the command "nyshell help .no" also gives some brief help on usage.  Running the command "nyshell - hs .no" prints the default set-
       up (compiler names and options) to be used in the generated shell scripts.

AUTHOR

       This manual page was written by Kevin McCarty <kmccarty@debian.org> for the Debian GNU/Linux system (but may be used  by  others).   It	is
       licensed under the GNU General Public License, version 2 or later (at your choice).

COPYRIGHT

       Copyright (C) Kevin B. McCarty, 2008.

								   Mar 12, 2008 							NYSHELL(1)
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