How to copy particular files from a multiple directories and paste in a new directory?
Dear all
I have a multiple directories, say for example org1, org2, org3 ..... org100 and each directory having a file namely dnaG.fasta. I need to copy all the dnaG.fasta file from each directory and paste in another directory fastconcatg. Therefore, my script has to copy dnaG.fasta file from each directory, add prefix to the file name like 1_dnaG.fasta, 2_dnaG.fasta ..... 100_dnaG.fasta and paste into the fastconcatg.
I have tried the following script but the script is not serving my purpose, It copy and paste only one file and rest is not copied and renamed finally end up with error. Kindly help me to do the same.
Thank you in advance.
Last edited by dineshkumarsrk; 12-27-2019 at 09:23 AM..
I have a report file that is generated every day by a scheduled process.
Each day the file is written to a directory named .../blah_blah/Y07/MM-DD-YY/reportmmddyy.tab
I want to copy all of this reports to a separate directory without having to do it one by one.
However, if I try
cp... (3 Replies)
So I am not sure if this should go in the shell forum or in the beginners. It is my first time posting on these forums.
I have a directory, main_dir lets say, with multiple sub directories (one_dir through onehundred_dir for example) and in each sub directory there is a test.txt. How would one... (2 Replies)
Hi,
I want to put the following values into Variables R2=0.999863 , V2=118.870318 , D2=-178.887511 and so on. There are six values for each variable R2-R8, V2-V8 and D2-D8, total of 18 values for all the variables. Can any one help me to copy and paste all the values in their respective... (2 Replies)
Hello,
I have a small question and i hope someone can help me, if i have 200 domains directories in my server under this directory
something like
now how i can copy one folder i have to this directories?
Thank You (5 Replies)
I have several directories and all those directories have .dat files in them. I want to copy all those .dat files to one directory say "collected_directory"
The problem is I don't want to overwrite files. So, if two file names match, I don't want the old file to be overwritten with a new one.
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I am using below scripts to copy all the files from multiple folders. By executing individually command i am able to copy all the files but using scripts only getting first file. System is ignoring the second CD and mget command.
HOST=server.com
USER=loginid
PASSWD="abc"
echo "open $HOST... (6 Replies)
my directory structure is like below:
basedir\
p.txt
q.htm
r.java
b\
abc.htm
xyz.java
c\
p.htm
q.java
rst.txt
my requirement is i want to copy all the files and directories... (0 Replies)
Hi,
Friends, i have a requirement where i need to rename my files residing in multiple sub directories and move them to one different directory along with some kind of directory indicator.
For eg:
test--is my parent directory and it has many files such as
a1.txt
a2.txt
a3.txt
... (5 Replies)
I have data of an excel files as given below,
file1
org1_1 1 1 2.5 100
org1_2 1 2 5.5 98
org1_3 1 3 7.2 88
file2
org2_1 1 1 2.5 100
org2_2 1 2 5.5 56
org2_3 1 3 7.2 70
I have multiple excel files as above shown.
I have to copy column 1, column 4 and paste into a new excel file as... (26 Replies)
Hey
im working on script that can compare 2 directory and check difference, then copy difference files in third diretory.
here is the story:
in folder one we have 12 subfolder and in each of them near 500 images hosted.
01 02 03 04 05 06 07 08 09 10 11 12
in folder 2 we have same subfolder... (2 Replies)
Discussion started by: nimafire
2 Replies
LEARN ABOUT DEBIAN
abacas
ABACAS(1) User Commands ABACAS(1)NAME
abacas - Algorithm Based Automatic Contiguation of Assembled Sequences
SYNOPSIS
abacas -r ref -q qs -p prog [OPTIONS]
OR
abacas -r ref -q psf -e
ref reference sequence in a single fasta file
qs contigs in multi-fasta format
rog MUMmer program to use: 'nucmer' or 'promer'
psf pseudomolecule/ordered sequence file in fasta format
OPTIONS
-h print usage
-d use default nucmer/promer parameters
-s int minimum length of exact matching word (nucmer default = 12, promer default = 4)
-m print ordered contigs to file in multifasta format
-b print contigs in bin to file
-N print a pseudomolecule without "N"s
-i int mimimum percent identity [default 40]
-v int mimimum contig coverage [default 40]
-V int minimum contig coverage difference [default 1]
-l int minimum contig length [default 1]
-t run tblastx on contigs that are not mapped
-g string (file name) print uncovered regions (gaps) on reference to file name
-a append contigs in bin to the pseudomolecule
-o prefix output files will have this prefix
-P pick primer sets to close gaps
-f int number of flanking bases on either side of a gap for primer design (default 350)
-R int Run mummer [default 1, use -R 0 to avoid running mummer]
-e Escape contig ordering i.e. go to primer design
-c Reference sequence is circular
DESCRIPTION
ABACAS is intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs
based on a reference sequence.
ABACAS uses MUMmer to find alignment positions and identify syntenies of assembled contigs against the reference. The output is then pro-
cessed to generate a pseudomolecule taking overlapping contigs and gaps in to account. ABACAS generates a comparision file that can be used
to visualize ordered and oriented contigs in ACT. Synteny is represented by red bars where colour intensity decreases with lower values of
percent identity between comparable blocks. Information on contigs such as the orientation, percent identity, coverage and overlap with
other contigs can also be visualized by loading the outputted feature file on ACT.
AUTHOR
ABACAS IS Copyright (C) 2008-10 The Wellcome Trust Sanger Institute, Cambridge, UK.
This manual page was written by Andreas Tille <tille@debian.org>, for the Debian project (and may be used by others).
1.3.1 2011-02-11 ABACAS(1)