I have a line
EXTDIR=`echo $i | sed 's/\-tar.gz//'`
which looks for files ending in -tar.gz, i would like to increase the functionality so that it looks for .tar.gz files as well as -tar.gz. Do i put the - in square brackets with a dot ? like this
EXTDIR=`echo $i | sed 's/\tar.gz//'`
... (1 Reply)
hey,
Im just wondering is there away to get sed to read from a variable
eg
it doesn't seem to work, i really need to be able to recursively change the same data set... (2 Replies)
I am trying to delete everything in the parenthesis(including the parenthesis) in this text:
Wind: from the WNW (290 degrees) at 6 MPH (5 KT)
Pressure (altimeter): 29.82 in. Hg (1009 hPa)
Temperature: 80.1 F (26.7 C)
Dew Point: 72.0 F (22.2 C)
Relative Humidity: 76%
Trying to make it look... (3 Replies)
Hello everyone,
i wonder if someone could give me an advice regarding the following problem using sed.
Given ist a structure as shown below:
<aaa>text1<b>text2</b>text3<c>text4</c>text5</aaa>
Now I want to change the outer tag from "aaa" to "new" and replace all tags inside the outer tags... (4 Replies)
We had a SAS70 audit at our site a few months back and part of the end result was that I had to install tripwire to monitor our application binaries. We were able to compile tripwire for our AIX 5.3 server but after a few months I was asked to install it on other systems. I could have and did just... (1 Reply)
I've seen in other programmers code the use of '_&' as a line separator. I am trying to find in my C++ reference manual some pages dedicated to an explanation of the use of this '_&' but I don't know what it is called. I only know it is a "line separator" or "line break" of some sort which is... (0 Replies)
Just want to know why when I do the following in sed, the required is not extracted.
echo "ab01cde234" | sed 's/*$//'
result: ab01cde (Which is correct)
echo "ab01cde234" |sed 's/.*\(*\)$/\1/'
result: blank (was expecting 234)
or
echo "ab01cde234" |sed 's/.*\(\)*$/\1/'
result: blank... (6 Replies)
Hi Guru's.
I am trying to use to check if $5 is greater than 80 & if not 100, then to print $0 :
awk '{ if ($5>80) && if ($5 != 100) print $0}
But getting error:
>bdf1|sed 's/%//g'|awk '{ if ($5>80) && if ($5 != 100) print $0}'
syntax error The source line is 1.
The error... (6 Replies)
Discussion started by: rveri
6 Replies
LEARN ABOUT DEBIAN
bio::factory::sequencefactoryi
Bio::Factory::SequenceFactoryI(3pm) User Contributed Perl Documentation Bio::Factory::SequenceFactoryI(3pm)NAME
Bio::Factory::SequenceFactoryI - This interface allows for generic building of sequences in factories which create sequences (like SeqIO)
SYNOPSIS
# do not use this object directly it is an interface # get a Bio::Factory::SequenceFactoryI object like
use Bio::Seq::SeqFactory;
my $seqbuilder = Bio::Seq::SeqFactory->new('-type' => 'Bio::PrimarySeq');
my $seq = $seqbuilder->create(-seq => 'ACTGAT',
-display_id => 'exampleseq');
print "seq is a ", ref($seq), "
";
DESCRIPTION
A generic way to build Sequence objects via a pluggable factory. This reduces the amount of code that looks like
if( $type eq 'Bio::PrimarySeq' ) { ... }
elsif( $type eq 'Bio::Seq::RichSeq' ) { ... }
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 the
Bioperl mailing list. 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 of the bugs and their resolution. Bug reports can be submitted via the
web:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR - Jason Stajich
Email jason-at-bioperl.org
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
create
Title : create
Usage : my $seq = $seqbuilder->create(-seq => 'CAGT',
-id => 'name');
Function: Instantiates new Bio::PrimarySeqI (or one of its child classes)
This object allows us to genericize the instantiation of sequence
objects.
Returns : Bio::PrimarySeqI
Args : initialization parameters specific to the type of sequence
object we want. Typically
-seq => $str,
-display_id => $name
perl v5.14.2 2012-03-02 Bio::Factory::SequenceFactoryI(3pm)