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Full Discussion: How to copy particular files from a multiple directories and paste in a new directory?
Top Forums UNIX for Beginners Questions & Answers How to copy particular files from a multiple directories and paste in a new directory? Post 303042506 by rbatte1 on Friday 27th of December 2019 08:07:27 AM
Old 12-27-2019
Hello dineshkumarsrk,

A few general comments first:-
  • Your for loop has an extra * which might be confusing when you read this later on.
  • It would be better to use longer variable names to make it clear and to reduce the risk of other things that might call this getting confused.
  • The use of backticks ` is deprecated and the way you do it is wasteful too. You add extra processes where the shell can do integer calculations for you.
  • It would be nice to indent your code for clarity
I have made a few tweaks based on these and your code looks like this:-
Code:
count=1
for source_file in */dnaG.fasta
do
   cp "${source_file}" "${count}"_"${source_file}" fastcancatg
   ((count=$count+1))
done

The cp command you have is saying "Copy the source file and the source file again, but with a prefix of the counter and an underscore writing both files to the target directory fastcancatg" which doesn't make sense. The source file with the prefix does not exist. Can I presume that you want to copy the source file to the target directory with a prefix? Perhaps try this instead:-
Code:
count=1
for source_file in */dnaG.fasta
do
   cp "${source_file}" "fastcancatg/${count}"_"${source_file}"
   ((count=$count+1))
done

Is that nearer to what you are after?


Kind regards,
Robin
 

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LEARN ABOUT MOJAVE

extutils::command

ExtUtils::Command(3pm)					 Perl Programmers Reference Guide				    ExtUtils::Command(3pm)

NAME

       ExtUtils::Command - utilities to replace common UNIX commands in Makefiles etc.

SYNOPSIS

	 perl -MExtUtils::Command -e cat files... > destination
	 perl -MExtUtils::Command -e mv source... destination
	 perl -MExtUtils::Command -e cp source... destination
	 perl -MExtUtils::Command -e touch files...
	 perl -MExtUtils::Command -e rm_f files...
	 perl -MExtUtils::Command -e rm_rf directories...
	 perl -MExtUtils::Command -e mkpath directories...
	 perl -MExtUtils::Command -e eqtime source destination
	 perl -MExtUtils::Command -e test_f file
	 perl -MExtUtils::Command -e test_d directory
	 perl -MExtUtils::Command -e chmod mode files...
	 ...

DESCRIPTION

       The module is used to replace common UNIX commands.  In all cases the functions work from @ARGV rather than taking arguments.  This makes
       them easier to deal with in Makefiles.  Call them like this:

	 perl -MExtUtils::Command -e some_command some files to work on

       and NOT like this:

	 perl -MExtUtils::Command -e 'some_command qw(some files to work on)'

       For that use Shell::Command.

       Filenames with * and ? will be glob expanded.

   FUNCTIONS
       cat
	       cat file ...

	   Concatenates all files mentioned on command line to STDOUT.

       eqtime
	       eqtime source destination

	   Sets modified time of destination to that of source.

       rm_rf
	       rm_rf files or directories ...

	   Removes files and directories - recursively (even if readonly)

       rm_f
	       rm_f file ...

	   Removes files (even if readonly)

       touch
	       touch file ...

	   Makes files exist, with current timestamp

       mv
	       mv source_file destination_file
	       mv source_file source_file destination_dir

	   Moves source to destination.  Multiple sources are allowed if destination is an existing directory.

	   Returns true if all moves succeeded, false otherwise.

       cp
	       cp source_file destination_file
	       cp source_file source_file destination_dir

	   Copies sources to the destination.  Multiple sources are allowed if destination is an existing directory.

	   Returns true if all copies succeeded, false otherwise.

       chmod
	       chmod mode files ...

	   Sets UNIX like permissions 'mode' on all the files.	e.g. 0666

       mkpath
	       mkpath directory ...

	   Creates directories, including any parent directories.

       test_f
	       test_f file

	   Tests if a file exists.  Exits with 0 if it does, 1 if it does not (ie.  shell's idea of true and false).

       test_d
	       test_d directory

	   Tests if a directory exists.  Exits with 0 if it does, 1 if it does not (ie. shell's idea of true and false).

       dos2unix
	       dos2unix files or dirs ...

	   Converts DOS and OS/2 linefeeds to Unix style recursively.

SEE ALSO

       Shell::Command which is these same functions but take arguments normally.

AUTHOR

       Nick Ing-Simmons "ni-s@cpan.org"

       Maintained by Michael G Schwern "schwern@pobox.com" within the ExtUtils-MakeMaker package and, as a separate CPAN package, by Randy Kobes
       "r.kobes@uwinnipeg.ca".

perl v5.18.2							    2014-01-06						    ExtUtils::Command(3pm)
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