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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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MV(1)							    BSD General Commands Manual 						     MV(1)

NAME
mv -- move files SYNOPSIS
mv [-fiv] source target mv [-fiv] source ... directory DESCRIPTION
In its first form, the mv utility renames the file named by the source operand to the destination path named by the target operand. This form is assumed when the last operand does not name an already existing directory. In its second form, mv moves each file named by a source operand to a destination file in the existing directory named by the directory oper- and. The destination path for each operand is the pathname produced by the concatenation of the last operand, a slash, and the final path- name component of the named file. The following options are available: -f Do not prompt for confirmation before overwriting the destination path. -i Causes mv to write a prompt to standard error before moving a file that would overwrite an existing file. If the response from the standard input begins with the character ``y'', the move is attempted. -v Cause mv to be verbose, showing files as they are processed. The last of any -f or -i options is the one which affects mv's behavior. It is an error for any of the source operands to specify a nonexistent file or directory. It is an error for the source operand to specify a directory if the target exists and is not a directory. If the destination path does not have a mode which permits writing, mv prompts the user for confirmation as specified for the -i option. Should the rename(2) call fail because source and target are on different file systems, mv will remove the destination file, copy the source file to the destination, and then remove the source. The effect is roughly equivalent to: rm -f destination_path && cp -PRp source_file destination_path && rm -rf source_file EXIT STATUS
The mv utility exits 0 on success, and >0 if an error occurs. SEE ALSO
cp(1), rename(2), symlink(7) STANDARDS
The mv utility is expected to be IEEE Std 1003.2 (``POSIX.2'') compatible. The -v option is an extension to IEEE Std 1003.2 (``POSIX.2''). BSD
December 26, 2002 BSD
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