01-08-2013
If a line is in 5 files, it comes up prefixed with 5. You can add "grep -v '^ 1 ' |" before the final sort to toss those with only 1 file.
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Hi,
I have one situation. I have some 6-7 no. of files in one directory & I have to extract all the lines which exist in all these files. means I need to extract all common lines from all these files & put them in a separate file.
Please help. I know it could be done with the help of... (11 Replies)
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2. UNIX for Dummies Questions & Answers
Hi.
If we have this file
A B C
7 8 9
1 2 10
and this other file
A C D F
7 9 2 3
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The result i´m looking for is intersection with A B C D F
so the answer here will be (10 Replies)
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3. Shell Programming and Scripting
FileA
chr1 31237964 NP_001018494.1 PUM1 M340L
chr1 31237964 NP_055491.1 PUM1 M340L
chr1 33251518 NP_037543.1 AK2 H191D
chr1 33251518 NP_001616.1 AK2 H191D
chr1 57027345 NP_001004303.2 C1orf168 P270S
FileB
chr1 ... (9 Replies)
Discussion started by: genehunter
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4. Shell Programming and Scripting
Hey guys. I know pratically 0 about Linux, so could anyone please give me instructions on how to accomplish this ?
The distro is RedHat 4.1.2 and i need to find and replace a multiple lines string in several php files across subdirectories.
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5. Shell Programming and Scripting
I've been a Unix admin for nearly 30 years and never learned AWK. I've seen several similar posts here, but haven't been able to adapt the answers to my situation. AWK is so damn cryptic! ;)
I have a single file with ~900 lines (CSV list). Each line starts with an ID, but with different stuff... (6 Replies)
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6. Shell Programming and Scripting
Hi,
I need help to find patterns that are common or matched in a specified column in multiple files.
File1.txt
ID1 555
ID23 8857
ID4 4454
ID05 555
File2.txt
ID74 4454
ID96 555
ID322 4454 (4 Replies)
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7. Shell Programming and Scripting
Hi
I have a file like
1 2
1 2 3
1 5 6
11 12
10 2
7 5
17 12
I would like to have an output as
1 2 3 5 6 10 7
11 12 17
any help would be highly appreciated
Thanks (4 Replies)
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8. Shell Programming and Scripting
I want to find common line in two files and replace the next line of first file with the next line of second file. (sed,awk,perl,bash any solution is welcomed ) Case Ignored. Multiple Occurrence of same line.
File 1:
hgacdavd
sndm,ACNMSDC
msgid "Rome"
msgstr ""
kgcksdcgfkdsb... (4 Replies)
Discussion started by: madira
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9. Shell Programming and Scripting
Hi! I would like to comm -12 with one file and with all of the files in another folder that has a 100 files or more (that file is not in that folder) to find common text lines. I would like to have each case that they have common lines to be written to a different output file and the names of the... (6 Replies)
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10. Shell Programming and Scripting
Could it be possible to find common lines between all of the files in one folder? Just like comm -12 . So all of the files two at a time. I would like all of the outcomes to be written to a different files, and the file names could be simply numbers - 1 , 2 , 3 etc. All of the file names contain... (19 Replies)
Discussion started by: Eve
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LEARN ABOUT DEBIAN
bio::updateableseqi
Bio::UpdateableSeqI(3pm) User Contributed Perl Documentation Bio::UpdateableSeqI(3pm)
NAME
Bio::UpdateableSeqI - Descendant of Bio::SeqI that allows updates
SYNOPSIS
See Bio::SeqI for most of the documentation. See the documentation of the methods for further details.
DESCRIPTION
Bio::UpdateableSeqI is an interface for Sequence objects which are expected to allow users to perform basic editing functions
(update/delete) on their component SeqFeatures.
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 - David Block
Email dblock@gene.pbi.nrc.ca
CONTRIBUTORS
Ewan Birney forced me to this...
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
delete_feature
Title : delete_feature
Usage : my $orphanlist=$self->delete_feature($feature,$transcript,$gene);
Function: deletes the specified $feature from the given transcript, if $transcript is sent and exists and $feature is a feature of $transcript,
or from $gene if the $feature is a feature of $gene, or from $self if $transcript and $gene are not sent. Keeps track of the features
of the $gene object that may be left as orphans and returns them as a listref.
Example : I want to delete transcript 'abc' of gene 'def', with three exons, leaving only transcript 'ghi' with two exons.
This will leave exons 1 and 3 part of 'ghi', but exon 2 will become an orphan.
my $orphanlist=$seq->delete_feature($transcript{'abc'},undef,$gene{'def'});
$orphanlist is a reference to a list containing $exon{'2'};
Returns : a listref of orphaned features after the deletion of $feature (optional)
Args : $feature - the feature to be deleted
$transcript - the transcript containing the $feature, so that a $feature can be removed from only one transcript when there are multiple
transcripts in a gene.
$gene - the gene containing the $transcript and/or the $feature
perl v5.14.2 2012-03-02 Bio::UpdateableSeqI(3pm)