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Top Forums Shell Programming and Scripting Copying specific file types to specific folders Post 303014106 by Mr_Keystrokes on Monday 5th of March 2018 10:43:33 AM
Old 03-05-2018
Copying specific file types to specific folders

I am trying to write a script that cycles through a folder containing many folders and when inside each one it's supposed to copy all the .fna.gz files to a folder elsewhere if the file and the respective folder have the same name.


Code:
for fldr in /home/playground/genomes/* ; do

    find . -name *fna.gz | while read f ; do

        f_name=$( echo $fldr | cut -d '/' -f 7 | cut -d '_' -f 1) ;

        #echo $f_name ;

        if [ "$f_name" == /home/playground/port/"$f_name" ]; then

        cp -r "$f" /home/playground/port/"$f_name"/ ;

        else

        continue    

        fi

    done

done

This script so far doesn't actually copy anything over at all.
 

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RMF(1)                                                               [nmh-1.5]                                                              RMF(1)

NAME
rmf - remove an nmh folder SYNOPSIS
rmf [+folder] [-interactive | -nointeractive] [-version] [-help] DESCRIPTION
Rmf removes all of the messages (files) within the specified (or default) folder, and then removes the folder (directory) itself. If there are any files within the folder which are not a part of nmh, they will not be removed, and an error will be produced. If the folder is given explicitly or the -nointeractive option is given, then the folder will be removed without confirmation. Otherwise, the user will be asked for confirmation. If rmf can't find the current folder, for some reason, the folder to be removed defaults to `+inbox' (unless overridden by user's profile entry "Inbox") with confirmation. If the folder being removed is a subfolder, the parent folder will become the new current folder, and rmf will produce a message telling the user this has happened. This provides an easy mechanism for selecting a set of messages, operating on the list, then removing the list and returning to the current folder from which the list was extracted. If rmf s used on a read-only folder, it will delete all the (private) sequences (i.e., "atr-seq-folder" entries) for this folder from your context without affecting the folder itself. Rmf irreversibly deletes messages that don't have other links, so use it with caution. FILES
$HOME/.mh_profile The user profile PROFILE COMPONENTS
Path: To determine the user's nmh directory Current-Folder: To find the default current folder Inbox: To find the default inbox SEE ALSO
rmm(1) DEFAULTS
`+folder' defaults to the current folder, usually with confirmation `-interactive' if +folder' not given, `-nointeractive' otherwise CONTEXT
Rmf will set the current folder to the parent folder if a subfolder is removed; or if the current folder is removed, it will make "inbox" current. Otherwise, it doesn't change the current folder or message. BUGS
Although intuitively one would suspect that rmf works recursively, it does not. Hence if you have a sub-folder within a folder, in order to rmf the parent, you must first rmf each of the children. MH.6.8 11 June 2012 RMF(1)
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