How to extract some parts of a file to create some outfile


 
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# 22  
Old 05-11-2009
Dear All,
I was trying like below to get rid off the space in front of the line(see the previous post).
It will be very nice if anybody can correct this code below.
Code:
#!/usr/bin/perl -w

$#ARGV==0 or die "Usage: 2ndprocess-megan-script 1st-output-file-as-inputfile\n";

$i=1;
while (<>){
chomp;
   
 if (/Taxonomy:/ ) { 
     $x = $1; $x =~ s/^\s+|\s+$//g; ##for this line there is the error
     open(OUT,">>","output_".$i++) or die "Cannot open for writing:$!\n";
     $f=1; next;
 }
 
 if (/\+*End of summary for file/ ){
    $f=0;close(OUT);next;
 }
 if ($f) { print OUT $_."\n";}
}

But its not working.

Can anybody please help me to have the out put in the form:
Gammaproteobacteria: 2767
Alphaproteobacteria: 4123
Deltaproteobacteria: 1343
Epsilonproteobacteria: 26
Betaproteobacteria: 397
unclassified Proteobacteria: 48
Elusimicrobium: 2
candidate division WWE1: 9
Flavobacteria: 2358
Sphingobacteria: 136
Bacteroidia: 162
environmental samples: 21
Chlorobia: 77
Planctomycetacia: 40
Spirochaetes (class): 15
Nitrospira (class): 1
Bacilli: 25
Not assigned: 1445
No hits: 220253

Thanks a lot.
Best,
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shcomp(1)							   User Commands							 shcomp(1)

NAME
shcomp - compile a ksh93 shell script SYNOPSIS
shcomp [-nv] [infile [outfile]] shcomp -D [infile [outfile]] DESCRIPTION
If the -D option is not specified, shcomp takes a shell script, infile, and creates a binary format file, outfile, that ksh93 reads and executes with the same effect as the original script. Aliases are processed as the script is read. Alias definitions whose value requires variable expansion will not work correctly. OPTIONS
The following options are supported: -D Generate a list of strings that need to be placed in a message catalog for internationalization. --dictionary With this option, all double quoted strings that are preceded by $ are printed, one literal per line. A literal $"foo" prints "foo" in the output. These are the messages that need to be translated to locale specific versions for internation- alization. -n Display warning messages for obsolete or non-conforming constructs. --noexec -v Display input from infile onto standard error as it reads it. --verbose OPERANDS
The following operands are supported: infile Specifies the name of the file that contains the shell script to be used as input. If infile is omitted, the shell script is read from standard input. outfile Specifies the name of the output file. If outfile is omitted, both modes write their results to standard output. EXIT STATUS
The following exit values are returned: 0 Successful completion. >0 An error occurred. ATTRIBUTES
See attributes(5) for descriptions of the following attributes: +-----------------------------+-----------------------------+ | ATTRIBUTE TYPE | ATTRIBUTE VALUE | +-----------------------------+-----------------------------+ |Availability |SUNWcsu | +-----------------------------+-----------------------------+ |CSI |Enabled | +-----------------------------+-----------------------------+ |Interface Stability |See below. | +-----------------------------+-----------------------------+ The command-line interface and the system variables are Committed. The compiled shell code format is Private. The output of the -D option is Volatile. SEE ALSO
ksh93(1), attributes(5) SunOS 5.11 27 Jan 2009 shcomp(1)