02-05-2010
10 More Discussions You Might Find Interesting
1. UNIX for Advanced & Expert Users
I am trying to using pipe (|) with ! (not) operator to list all the other files except the latest two and I am using the following command.
$ ls -ltr *.lst|!(tail -2)
ksh: 20050211180252.lst: cannot execute
but it is trying to execute the file returned by tail -2. I am able to do that in 4... (8 Replies)
Discussion started by: sdlayeeq
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2. Shell Programming and Scripting
Hi ,
I have found a interesting thing about tail command:
when I tried to use 'tail -1 *' to look at every file with the current derectory, I only got one line of result of one file.
But if I use 'head -1 *', I would get multiple lines.
Is there a way to do get multiple lines with 'tail -1 *'... (3 Replies)
Discussion started by: whatisthis
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3. Shell Programming and Scripting
I was wondering how can I do this
I have file myfile.txt
wc -l is: 5 000 000
I have to remove first 1 000 000 lines from header..
I tryed with tail -4000000 myfile.txt>newfile.txt
but it does not work...
any help?? (2 Replies)
Discussion started by: amon
2 Replies
4. Solaris
HI i have to copy the last 5000 lines form a log file and copy the same in the same file .overwriting the same log file.
ex: tail -5000 testfile1 > testfile2
cat testfile2
mv tesftfile2 testfile1
will produce the correct result.but i want to have this done in one line???? (4 Replies)
Discussion started by: saurabh84g
4 Replies
5. UNIX for Dummies Questions & Answers
Please help with the following command
tail -f /appdata/logs/alert_audit517.txt | grep "Sep 02"
The problem I have is with the file name "alert_audit517.txt". The 3 digit number at the end of the file name changes, so I need the file name to use a wildcard. Ive tried alert_audit***.txt, but... (5 Replies)
Discussion started by: robertson1995
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6. Shell Programming and Scripting
Hi,
In my home directory, there are so many files. i tried to get the lastly created file by following command.
file=`ls -lrt MXOfiles* | tail -1`
As there are so many files, it displays
"$ : 0403-027 The parameter list is too long."
Can someone tell me how can i get the recent file... (1 Reply)
Discussion started by: JSKOBS
1 Replies
7. Shell Programming and Scripting
Hi does anyone know how to create a file using the tail command? My book has this file I need to create and it says to use the tail command and that it is possible but I have no idea. Thanks. (4 Replies)
Discussion started by: drew211
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8. Homework & Coursework Questions
Use and complete the template provided. The entire template must be completed. If you don't, your post may be deleted!
1. The problem statement, all variables and given/known data:
Devise a chain of filters using some or all of the following programs pr, cut, cat, tail to
display a numbered... (8 Replies)
Discussion started by: hbell221
8 Replies
9. How to Post in the The UNIX and Linux Forums
Hi,
I want to do file format using awk script, for that i wan to use 'tail'. Here is the scenario. I will be having set of files in a directory. Those files i need to write to another directory with same file name, but while writing the file to out directory, i need to write the last line as... (3 Replies)
Discussion started by: Venkata Madhu
3 Replies
10. UNIX for Beginners Questions & Answers
Hi Team,
Can anyone help me here:
I have to access server logs via putty and these logs file is a trailing file (continously updating) with ERROR and WARNINGS... I need to know if I can pull this trailing file to a local drive so that I can do some higlighting on some keywords through Notepad... (13 Replies)
Discussion started by: jitensetia
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LEARN ABOUT DEBIAN
bio::tools::run::genemark
Bio::Tools::Run::Genemark(3pm) User Contributed Perl Documentation Bio::Tools::Run::Genemark(3pm)
NAME
Bio::Tools::Run::Genemark - Wrapper for local execution of the GeneMark family of programs.
SYNOPSIS
# GeneMark.hmm (prokaryotic)
my $factory =
Bio::Tools::Run::Genemark->new('-program' => 'gmhmmp',
'-m' => 'model.icm');
# Pass the factory Bio::Seq objects
# returns a Bio::Tools::Genemark object
my $genemark = $factory->run($seq);
DESCRIPTION
Wrapper module for the GeneMark family of programs. Should work with all flavors of GeneMark.hmm at least, although only the prokaryotic
version has been tested.
General information about GeneMark is available at <http://exon.gatech.edu/GeneMark/>.
Contact information for licensing inquiries is available at: <http://opal.biology.gatech.edu/GeneMark/contact.html>
Note that GeneMark.hmm (prokaryotic at least) will only process the first sequence in a fasta file (if you run() more than one sequence at
a time, only the first will be processed).
FEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one
of the Bioperl mailing lists. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address
it. Please include a thorough description of the problem with code and data examples if at all possible.
Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the
web:
http://redmine.open-bio.org/projects/bioperl/
AUTHOR - Mark Johnson
Email: mjohnson-at-watson-dot-wustl-dot-edu
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
program_name
Title : program_name
Usage : $factory>program_name()
Function: gets/sets the program name
Returns: string
Args : string
program_dir
Title : program_dir
Usage : $factory->program_dir()
Function: gets/sets the program dir
Returns: string
Args : string
new
Title : new
Usage : $genemark->new(@params)
Function: creates a new Genemark factory
Returns: Bio::Tools::Run::Genemark
Args :
run
Title : run
Usage : $obj->run($seq_file)
Function: Runs Genemark
Returns : A Bio::Tools::Genemark object
Args : An array of Bio::PrimarySeqI objects
_run
Title : _run
Usage : $obj->_run()
Function: Internal(not to be used directly)
Returns : An instance of Bio::Tools::Genemark
Args : file name, sequence identifier (optional)
_write_seq_file
Title : _write_seq_file
Usage : obj->_write_seq_file($seq) or obj->_write_seq_file(@seq)
Function: Internal(not to be used directly)
Returns : Name of a temp file containing program output
Args : One or more Bio::PrimarySeqI objects
perl v5.12.3 2011-06-18 Bio::Tools::Run::Genemark(3pm)