Sponsored Content
Top Forums UNIX for Beginners Questions & Answers How to append two fasta files? Post 303036067 by yifangt on Thursday 13th of June 2019 11:26:32 AM
Old 06-13-2019
That's exactly what I meant!

Thanks RudiC!
 

10 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

append two files

Hi, I have two files where 1 contains data and the other contains strings eg file 1 -0.00000 0.00000 0.00000 0.00000 0.00000 0.80000 0.50000 0.50000 0.60000 0.50000 0.50000 0.20000 -0.00000 0.00000 0.40000 file 2 F F F F F F T T T T T T T T T How to I append file2 to file 1 to... (1 Reply)
Discussion started by: princessotes
1 Replies

2. UNIX for Dummies Questions & Answers

grep FASTA files

I would like to extract the sequences larger than 10 bases but shorter than 18 along with the identifier from a FASTA file that looks like this: > Seq I ACGACTAGACGATAGACGATAGA > Seq 2 ACGATGACGTAGCAGT > Seq 3 ACGATACGAT I know I can extract the IDs alone with the following code grep... (3 Replies)
Discussion started by: Xterra
3 Replies

3. UNIX for Dummies Questions & Answers

renaming (renumbering) fasta files

I have a fasta file that looks like this: >Noname ACCAAAATAATTCATGATATACTCAGATCCATCTGAGGGTTTCACCACTTGTAGAGCTAT CAGAAGAATGTCAATCAACTGTCCGAGAAAAAAGAATCCCAGG >Noname ACTATAAACCCTATTTCTCTTTCTAAAAATTGAAATATTAAAGAAACTAGCACTAGCCTG ACCTTTAGCCAGACTTCTCACTCTTAATGCTGCGGACAAACAGA ... I want to... (2 Replies)
Discussion started by: Oyster
2 Replies

4. Shell Programming and Scripting

append to two files

I tried to write a script ( not working) to append first value from mylist to a file called my myfirstResult and to another called mysecondResult awk ' {print $1} >> myfirsResult ' < mylist awk ' {print $1} >> mysecondResult ' < mylist $ cat mylist A 02/16/2012 B 02/19/2012 C... (3 Replies)
Discussion started by: Sara_84
3 Replies

5. UNIX for Dummies Questions & Answers

Breaking a fasta formatted file into multiple files containing each gene separately

Hey, I've been trying to break a massive fasta formatted file into files containing each gene separately. Could anyone help me? I've tried to use the following code but i've recieved errors every time: for i in *.rtf.out do awk '/^>/{f=++d".fasta"} {print > $i.out}' $i done (1 Reply)
Discussion started by: Ann Mc Cartney
1 Replies

6. UNIX for Dummies Questions & Answers

Append Files

Hi All, I have to append 2 lines at the end of a text file. If those 2 lines are already there then do not append else append the 2 lines to the text file. Eg: I have a text file, file.txt This text file might look like this, /home/kp/make.jsp /home/pk/model.jsp I have to append... (1 Reply)
Discussion started by: pavan_test
1 Replies

7. UNIX for Dummies Questions & Answers

Append file name to fasta file headers in Linux

How do we append the file name to fasta file headers in multiple fasta-files in Linux? (10 Replies)
Discussion started by: Mauve
10 Replies

8. Shell Programming and Scripting

Unzip all the files with subdirectories present and append a part of string from the main .zip files

Hi frnds, My requirement is I have a zip file with name say eg: test_ABC_UH_ccde2a_awdeaea_20150422.zip within that there are subdirectories on each directory we again have .zip files and in that we have files like mama20150422.gz and so on. Iam in need of a bash script so that it unzips... (0 Replies)
Discussion started by: Ravi Kishore
0 Replies

9. Shell Programming and Scripting

Append string to all the files inside a directory excluding subdirectories and .zip files

Hii, Could someone help me to append string to the starting of all the filenames inside a directory but it should exclude .zip files and subdirectories. Eg. file1: test1.log file2: test2.log file3 test.zip After running the script file1: string_test1.log file2: string_test2.log file3:... (4 Replies)
Discussion started by: Ravi Kishore
4 Replies

10. Shell Programming and Scripting

Help with reformat single-line multi-fasta into multi-line multi-fasta

Input File: >Seq1 ASDADAFASFASFADGSDGFSDFSDFSDFSDFSDFSDFSDFSDFSDFSDFSD >Seq2 SDASDAQEQWEQeqAdfaasd >Seq3 ASDSALGHIUDFJANCAGPATHLACJHPAUTYNJKG ...... Desired Output File >Seq1 ASDADAFASF ASFADGSDGF SDFSDFSDFS DFSDFSDFSD FSDFSDFSDF SD >Seq2 (4 Replies)
Discussion started by: patrick87
4 Replies
Agent::Tag(3pm) 					User Contributed Perl Documentation					   Agent::Tag(3pm)

NAME
Log::Agent::Tag - formats caller information SYNOPSIS
Intended to be inherited from DESCRIPTION
This class is meant to be inherited by all the classes implementing a log message tag. A message tag is a little string that is either appended or prepended to all log messages. For instance, and oversimplifying a bit, a tag meant to be prepended will be inserted in front of the current log message, separated by separator, which defaults to a single space: +------------+-----------+---------------------------------+ | tag string | separator | current log message | +------------+-----------+---------------------------------+ This operation is called tag insertion. The whole string then becomes the current log message, and can be the target of another tag insertion. The reality is a little bit more complex, to allow successive tags to be prepended or appended in the order they are specified, and not in reverse order as they would be if naively implemented. See Log::Agent::Message for the exact semantics of append() and prepend() operations. FEATURES
This section documents the interface provided to heirs, in case you wish to implement your own tag class. _init(name, postfix, separator) Initialization routine that should be called by all heirs during creation to initialize the common attributes. postfix When true, the tag is meant to be appended to the log message. Otherwise, it is prepended. name The name of this tag. It is meant to provide by-name access to tags, check whether a given tag is recorded, etc... The names "caller" and "priority" are architecturally defined to refer to "Log::Agent::Tag::Caller" and "Log::Agent::Tag::Priority" objects. NOTE: Currently unused by any client code. separator The sperating string inserted between the tag and the log message. It defaults to " " if not specified, i.e. left to "undef" when calling _init(). string() A deferred routine, to be implemented by heirs. Returns the tag string only, without the separator, since its exact placement depends on the value of the "postfix" attribute. insert(message) Insert this tag withing the "Log::Agent::Message" message, according to the tag specifications (placement, separator). Calls string() to produce the tag string. This routine is frozen and should not be redefined by heirs. STANDARD TAGGING CLASSES
Tagging classes define via their "string()" routine what is the string to be used as a tag. The insertion of the tag within the log message is done via a frozen routine from the "Log::Agent::Tag" ancestor. The following classes are provided by "Log::Agent": "Log::Agent::Tag::Callback" The "string()" routine invokes a user-supplied callback, given as a "Callback" object. You need the Callback module from CPAN if you wish to use this class. "Log::Agent::Tag::Caller" Used internally to compute the caller and format it according to user specifications. "Log::Agent::Tag::Priority" Used internally to format message priorities and add them to the log messages. "Log::Agent::Tag::String" Defines a constant tagging string that should be added in all the log messages, e.g. a web session ID. AUTHOR
Raphael Manfredi <Raphael_Manfredi@pobox.com> SEE ALSO
Log::Agent::Message(3). perl v5.10.0 2002-03-09 Agent::Tag(3pm)
All times are GMT -4. The time now is 06:05 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy