02-12-2020
10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
Hi all,
I am working on a shell script to extract information from a file that has output from Oracle sqlplus. The problem is that the output of a single line is spread across multiple lines and i do not know as how to extract the particular filed at ones,which spans multiple lines.... (2 Replies)
Discussion started by: harris2107
2 Replies
2. Shell Programming and Scripting
Hi,
Following is sample portion of the file;
<JDBCConnectionPool DriverName="oracle.jdbc.OracleDriver"
MaxCapacity="10" Name="MyApp_DevPool"
PasswordEncrypted="{3DES}7tXFH69Xg1c="
Properties="user=MYAPP_ADMIN" ShrinkingEnabled="false"
... (12 Replies)
Discussion started by: sujoy101
12 Replies
3. UNIX for Dummies Questions & Answers
Hi
I need to put together a script that will search certain tables in a db and send that data to a csv file.
Basically I am importing data to a db and I want to write a script to check that all information was imported correctly.
Thank you (1 Reply)
Discussion started by: ladyAnne
1 Replies
4. Shell Programming and Scripting
Hi to all,
I got this content/pattern from file http.log.20110808.gz
mail1 httpd: Account Notice: close igchung@abc.com 2011/8/7 7:37:36 0:00:03 0 0 1
mail1 httpd: Account Information: login sastria9@abc.com proxy sid=gFp4DLm5HnU
mail1 httpd: Account Notice: close sastria9@abc.com... (16 Replies)
Discussion started by: Mr_47
16 Replies
5. Shell Programming and Scripting
Hi, i have a file like this:
<Iteration>
<Iteration_iter-num>3</Iteration_iter-num>
<Iteration_query-ID>lcl|3_0</Iteration_query-ID>
<Iteration_query-def>G383C4U01EQA0A length=197</Iteration_query-def>
<Iteration_query-len>197</Iteration_query-len>
... (9 Replies)
Discussion started by: the_simpsons
9 Replies
6. Shell Programming and Scripting
Hi,
I have a file which I need to programmatically split into two files.
All the information in the file before pattern "STOP HERE" is to be stripped and output into one file while everything after "STOP HERE" is to be output into a separate file.
I would appreciate help on how to do... (8 Replies)
Discussion started by: PTL
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7. Shell Programming and Scripting
The below awk parser works for most data inputs, but I am having trouble with the last one. The problem is in the below rules steps 1 and 2 come from $2 (NC_000013.10:g.20763686_20763687delinsA) and steps 3 and 4 come from $1 (NM_004004.5:c.34_35delGGinsT).
Parse Rules:
The header is... (0 Replies)
Discussion started by: cmccabe
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8. Shell Programming and Scripting
Gents,
If is possible please help.
I have a big file (example attached) which contends exactly same value in column, but from column 2 to 6 these values are diff. I will like to compile for all records all columns like the example attached in .csv format (output.rar ).. The last column in the... (11 Replies)
Discussion started by: jiam912
11 Replies
9. Shell Programming and Scripting
In a particular directory, there can be 1000 files like below.
filename is job901.ksh
#!/bin/ksh
cront -x << EOJ
submit file=$PRODPATH/scripts/genReport.sh maxdelay=30
&node=xnode01
tname=job901
&pfile1=/prod/mldata/data/test1.dat
... (17 Replies)
Discussion started by: vedanta
17 Replies
10. Shell Programming and Scripting
Hi all, I have a query that runs that outputs data in the following format -
01/09/12 11:43:40,ADMIN,4,77,Application Group Load: Name(TESTED) LoadId(5137-1-0-1XX-15343-15343) File(/dir/dir/File.T03.CI2.RYR.2012009.11433350806.ARD) InputSize(5344) OutputSize(1359) Rows(2) Time(1.9960)... (8 Replies)
Discussion started by: jeffs42885
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LEARN ABOUT DEBIAN
bio::graphics::featuredir
Bio::Graphics::FeatureDir(3pm) User Contributed Perl Documentation Bio::Graphics::FeatureDir(3pm)
NAME
Bio::Graphics::FeatureDir -- A directory of feature files and conf files
SYNOPSIS
my $fd = Bio::Graphics::FeatureDir->new('/path/to/dir');
$fd->add_file('tracks.conf');
$fd->add_file('foo.gff3');
$fd->add_file('foo.wig');
$fd->add_fh(*STDIN);
my $option = $fd->setting('EST' => 'bgcolor');
my @features = $fd->get_features_by_name('M101');
DESCRIPTION
This class implements most of the methods of Bio::Graphics::FeatureFile, but stores the data files and features in a directory indexed by
the Bio::DB::SeqFeature::Store::berkeleydb adaptor. Therefore it is fast.
Methods
$fd = Bio::Graphics::FeatureDir->new('/path/to/dir');
$fd = Bio::Graphics::FeatureDir->new(-dir => '/path/to/dir');
Create a new FeatureDir, based in the indicated directory. In addition to the -dir directory argument, it takes any of the options that
can be passed to Bio::Graphics::FeatureFile except for the -file and -text arguments;
$db->_init_featuredb
Internal method. Initializes the underlying feature database.
$db->_init_conf
Internal method -- initialize the configuration file(s)
$created = $db->_maybe_create_dir($dir)
Create $dir and its parents if it doesn't exist. Return true if the directory was created. Throws an exception on filesystem errors.
$dir = $db->dir
Returns the base directory.
$conf = $db->conf
Returns the underlying Bio::Graphics::FeatureFile object
$db = $db->db
Returns the underlying Bio::DB::SeqFeature::Store object
$db->add_file($file)
Add the file to the directory. Can add files of type .fa, .gff, .gff3, .conf and .ff.
$db->add_fh(*FILEHANDLE [,'name'])
Add the contents of the indicated filehandle to repository. Name is optional; if provided it will be used as the base for all files
created.
SEE ALSO
Bio::Graphics::Feature, Bio::Graphics::FeatureFile
AUTHOR
Lincoln Stein <lincoln.stein@gmail.com>.
Copyright (c) 2009 Ontario Institute for Cancer Research
This package and its accompanying libraries is free software; you can redistribute it and/or modify it under the terms of the GPL (either
version 1, or at your option, any later version) or the Artistic License 2.0. Refer to LICENSE for the full license text. In addition,
please see DISCLAIMER.txt for disclaimers of warranty.
POD ERRORS
Hey! The above document had some coding errors, which are explained below:
Around line 160:
'=item' outside of any '=over'
Around line 272:
=cut found outside a pod block. Skipping to next block.
Around line 274:
You forgot a '=back' before '=head1'
perl v5.14.2 2012-02-20 Bio::Graphics::FeatureDir(3pm)