I would like to remove characters from column 7 so that from an input file looking like this:
>HWI-EAS422_12:4:1:69:89 GGTTTAAATATTGCACAAAAGGTATAGAGCGT U0 1 0 0 ref_chr8.fa 6527777 F DD
I get something like that in an output file:
... (13 Replies)
I have a large text-file with tab-delimited genetic data that looks like:
KSC112 KSC234 0 0 1 1 A G C T
I simply wan to delete the first column, but since the file has 600 000 columns, it is not possible with awk (seems to be limited at 32k columns).
Does anyone have an idea how to do this? (2 Replies)
I want to add a new column to a tab delimited text file. It will be the first column and it will just be 1's. How do I go about doing that? Thanks! (1 Reply)
Hi all,
I'm new to Unix and work primarily in bioinformatics. I am in need of a script which will allow me to replace "1" with "chr1" in only the first column of a file which looks like such:
1 10327 rs112750067 T C . PASS ASP;RSPOS=10327;... (4 Replies)
I have a file having the following entries:
test1 test2 test3
11 22 33
22 44 66
99 99 44
---
I want to add a column so that the above file becomes:
test1 test2 test3 notest
11 22 33 *
22 44 66 *
99 99 44 *
---
Thanks (6 Replies)
Hi,
Can anyone please tell me about how we can delete an entire column from a tab delimited file?
Mu input_file.txt looks like this:
And I want the output as:
I used the below code
nawk -v d="1" 'BEGIN{FS=OFS="\t"}{$d=""}{print}' input_file.txtBut in the output, the first column is... (5 Replies)
I have tried the following to no avail.
xargs -n8 < test.txt
awk '{if(NR%6!=0){p=""}else{p="\n"};printf $0" "p}' Mod_Alm_log.txt > test.txt
I have tried different variations of the above, the problem is mixes lines together.
And it includes the tags "%a and %A" I need them to be all tab... (16 Replies)
Hello Everyone..
I want to replace the retail col from FileI with cstp1 col from FileP if the strpno matches in both files
FileP.txt
... (2 Replies)
Discussion started by: YogeshG
2 Replies
LEARN ABOUT DEBIAN
prophet::test
Prophet::Test(3pm) User Contributed Perl Documentation Prophet::Test(3pm)
set_editor($code)
Sets the subroutine that Prophet should use instead of "Prophet::CLI::Command::edit_text" (as this routine invokes an interactive editor)
to $code.
set_editor_script SCRIPT
Sets the editor that Proc::InvokeEditor uses.
This should be a non-interactive script found in t/scripts.
import_extra($class, $args)
in_gladiator($code)
Run the given code using Devel::Gladiator.
repo_path_for($username)
Returns a path on disk for where $username's replica is stored.
repo_uri_for($username)
Returns a file:// URI for $USERNAME'S replica (with the correct replica type prefix).
replica_uuid
Returns the UUID of the test replica.
database_uuid
Returns the UUID of the test database.
replica_last_rev
Returns the sequence number of the last change in the test replica.
as_user($username, $coderef)
Run this code block as $username. This routine sets up the %ENV hash so that when we go looking for a repository, we get the user's repo.
replica_uuid_for($username)
Returns the UUID of the given user's test replica.
database_uuid_for($username)
Returns the UUID of the given user's test database.
ok_added_revisions( { CODE }, $numbers_of_new_revisions, $msg)
Checks that the given code block adds the given number of changes to the test replica. $msg is optional and will be printed with the test
if given.
serialize_conflict($conflict_obj)
Returns a simple, serialized version of a Prophet::Conflict object suitable for comparison in tests.
The serialized version is a hash reference containing the following keys:
meta => { original_source_uuid => 'source_replica_uuid' }
records => { 'record_uuid' =>
{ change_type => 'type',
props => { propchange_name => { source_old => 'old_val',
source_new => 'new_val',
target_old => 'target_val',
}
}
},
'another_record_uuid' =>
{ change_type => 'type',
props => { propchange_name => { source_old => 'old_val',
source_new => 'new_val',
target_old => 'target_val',
}
}
},
}
serialize_changeset($changeset_obj)
Returns a simple, serialized version of a Prophet::ChangeSet object suitable for comparison in tests (a hash).
run_command($command, @args)
Run the given command with (optionally) the given args using a new Prophet::CLI object. Returns the standard output of that command in
scalar form or, in array context, the STDOUT in scalar form *and* the STDERR in scalar form.
Examples:
run_command('create', '--type=Foo');
load_record($type, $uuid)
Loads and returns a record object for the record with the given type and uuid.
as_alice CODE, as_bob CODE, as_charlie CODE, as_david CODE
Runs CODE as alice, bob, charlie or david.
perl v5.10.1 2009-09-02 Prophet::Test(3pm)