You did not post your last modified code.
split will consume that part that matches as you found out, except if you use a lookahead or lookbehind. I use that technique on this code.
I need to know the way. I have got parsing down some nodes. But I was unable to get the child node perfectly. If you have code please send it. It will be very useful for me. (0 Replies)
Hi,
I need to split xml-files with sizes greater than 2 gb into smaler chunks. As I dont want to end up with billions of files, I want those splitted files to have configurable sizes like 250 MB. Each file should be well formed having an exact copy of the header (and footer as the closing of the... (0 Replies)
hi all
i have a some huge html files (500MB to 1GB). Each file has multiple
<html></html> tags
<html>
.................
....................
....................
</html>
<html>
.................
....................
....................
</html>
<html>
.................... (5 Replies)
To split the files
Hi,
I'm having a xml file with multiple xml header. so i want to split the file into multiple files.
Test.xml
---------
<?xml version="UTF_8">
<emp: ....>
<name>a</name>
<age>10</age>
</emp>
<?xml version="UTF_8">
<emp: ....>
<name>b</name>
<age>10</age>... (11 Replies)
HI All,
I have to split a xml file into multiple xml files and append it in another .xml file. for example below is a sample xml and using shell script i have to split it into three xml files and append all the three xmls in a .xml file. Can some one help plz.
eg:
<?xml version="1.0"?>... (4 Replies)
Hi ,
I have a XML file like below
file name : sample.xml
<?xml version="1.0"?>
<catalog>
<author>Rajini</author>
<title>XML Guide</title>
<Text> </Text>
<genre>Computer</genre>
<price>44.95</price>
</catalog>
<?xml version="1.0"?>
<catalog>
... (5 Replies)
Hi,
I'm having a xml file with multiple xml header. so i want to split the file into multiple files.
Sample.xml consists multiple headers so how can we split these multiple headers into multiple files in unix.
eg :
<?xml version="1.0" encoding="UTF-8"?>
<ml:individual... (3 Replies)
I have a text file that looks like this:
FIELD1, FIELD2, THIS IS FIELD3, FIELD4
FIELD1, FIELD2, THIS IS FIELD3, FIELD4
FIELD1, FIELD2, THIS IS FIELD3, FIELD4
I need it to turn it into an XML file to run against a custom application. My ultimate goal is for it to look like... (15 Replies)
Hello Shell Guru's
I have a requirement to split the source xml file into three different text file.
And i need your valuable suggestion to finish this.
Here is my source xml snippet, here i am using only one entry of <jms-system-resource>. There may be multiple entries in the source file.
... (5 Replies)
Hello Gurus,
I have a requirement to split the xml file into different xml files.
Can you please help me with that?
Here is my Source XML file
<jms-system-resource>
<name>PS6SOAJMSModule</name>
<target>soa_server1</target>
<sub-deployment>
... (3 Replies)
Discussion started by: Siv51427882
3 Replies
LEARN ABOUT DEBIAN
bio::index::swissprot
Bio::Index::Swissprot(3pm) User Contributed Perl Documentation Bio::Index::Swissprot(3pm)NAME
Bio::Index::Swissprot - Interface for indexing one or more Swissprot files.
SYNOPSIS
# Make an index for one or more Swissprot files:
use Bio::Index::Swissprot;
use strict;
my $index_file_name = shift;
my $inx = Bio::Index::Swissprot->new(
-filename => $index_file_name,
-write_flag => 1);
$inx->make_index(@ARGV);
# Print out several sequences present in the index in Genbank
# format:
use Bio::Index::Swissprot;
use Bio::SeqIO;
use strict;
my $out = Bio::SeqIO->new( -format => 'genbank',
-fh => *STDOUT );
my $index_file_name = shift;
my $inx = Bio::Index::Swissprot->new(-filename => $index_file_name);
foreach my $id (@ARGV) {
my $seq = $inx->fetch($id); # Returns a Bio::Seq object
$out->write_seq($seq);
}
# alternatively
my ($id, $acc);
my $seq1 = $inx->get_Seq_by_id($id);
my $seq2 = $inx->get_Seq_by_acc($acc);
DESCRIPTION
By default the index that is created uses the AC and ID identifiers as keys. This module inherits functions for managing dbm files from
Bio::Index::Abstract.pm, and provides the basic functionality for indexing Swissprot files and retrieving Sequence objects from them. For
best results 'use strict'.
You can also set or customize the unique key used to retrieve by writing your own function and calling the id_parser() method. For
example:
$inx->id_parser(&get_id);
# make the index
$inx->make_index($index_file_name);
# here is where the retrieval key is specified
sub get_id {
my $line = shift;
$line =~ /^KWs+([A-Z]+)/i;
$1;
}
FEED_BACK
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:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR - Ewan Birney
Also lorenz@ist.org, bosborne at alum.mit.edu
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
_index_file
Title : _index_file
Usage : $index->_index_file( $file_name, $i )
Function: Specialist function to index Swissprot format files.
Is provided with a filename and an integer
by make_index in its SUPER class.
Example :
Returns :
Args :
id_parser
Title : id_parser
Usage : $index->id_parser( CODE )
Function: Stores or returns the code used by record_id to
parse the ID for record from a string.
Returns &default_id_parser (see below) if not
set. An entry will be added to
the index for each string in the list returned.
Example : $index->id_parser( &my_id_parser )
Returns : ref to CODE if called without arguments
Args : CODE
default_id_parser
Title : default_id_parser
Usage : $id = default_id_parser( $line )
Function: The default parser for Swissprot.pm
Returns $1 from applying the regexp /^IDs*(S+)/
or /^ACs+([A-Z0-9]+)/ to the current line.
Returns : ID string
Args : a line string
_file_format
Title : _file_format
Usage : Internal function for indexing system
Function: Provides file format for this database
Example :
Returns :
Args :
perl v5.14.2 2012-03-02 Bio::Index::Swissprot(3pm)