Bash to move specific files from folders in find file
I have a directory /home/cmccabe/nfs/exportedReports that contains multiple folders in it. The find writes the name of each folder to out.txt. A new directory is then created in a new location /home/cmccabe/Desktop/NGS/API, named with the date. What I am trying to do, unsuccessfully at the moment, is copy each specific file type .bam from each folder in out.txt to the new date folder in /home/cmccabe/Desktop/NGS/API/$DATE.
For example, after the find command out.txt:
Code:
Folder1
Folder2
within each of those folders there are 3 .bam files to move to the new directory/home/cmccabe/Desktop/NGS/API/$DATE. Thank you .
Code:
#!/bin/bash
cd /home/cmccabe/nfs/exportedReports
find . -maxdepth 1 -type d | cut -c 3- | awk -F _ 'NF > 1' > out.txt
DATE=`date +%-m-%-d-%Y`
mkdir -p /home/cmccabe/Desktop/s5/$DATE
MY_DIR="/home/cmccabe/nfs/exportedReports/out.txt"
DEST="/home/cmccabe/Desktop/NGS/API/$DATE"
FILEEXT=".bam"
NEWEST=`ls -tr1d "${MY_DIR}/"*.${FILEEXT} 2>/dev/null | tail -1`
if [ -z "${NEWEST}" ] ; then
echo "No file to copy"
exit 1
elif [ -d "${NEWEST}" ] ; then
echo "The most recent entry is a directory"
exit 1
else
echo "Copying ${NEWEST}"
cp -p "${NEWEST}" "${DEST}"
fi
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Discussion started by: cmccabe
4 Replies
LEARN ABOUT DEBIAN
fbautostart
FBAUTOSTART(1) fbautostart Manual FBAUTOSTART(1)NAME
fbautostart - Autostart all XDG applications
SYNOPSIS
fbautostart [options]
DESCRIPTION fbautostart(1) is an XDG complaint startup tool. This will go through the directories set up by the spec, and start all applications that
match it's current identifier. You may change that identifier with the FBXDG_DE env var.
This tool has almost no library dependencies and was written to be smart about that sort of stuff. There is a greater then average chance
that you will find a bug, since it is a from-scratch implementation of the .desktop spec. Pleas report bugs. Please.
FILES
~/.config/autostart
This folder contains the default user XDG dot-desktop files that will be run ( unless it's overridden by an ENV variable )
/etc/xdg
This folder contains the default system XDG dot-desktop files that will be run ( unless it's overridden by an ENV variable )
OPTIONS
Sadly, there are no flags in this particular release.
ENVIRONMENT VARIABLES
XDG_CONFIG_HOME
The XDG root directory for the user's startup files, which may override the global startup files.
XDG_CONFIG_DIRS
The root XDG directory, where global XDG files are maintained.
FBXDG_DE
Development environment that we should act upon. This defaults to "FLUXBOX", since this is a fluxbox project, after all. Please note
this is case sensitive.
FBXDG_EXEC
This dictates if we should execute the application that we've been told to or not. This is particularly useful for debugging the app.
HOME
The location of one's home directory, such that ~/ will be expanded to /home/user/
EXAMPLE
fbautostart
AUTHORS
Paul Tagliamonte <paultag@ubuntu.com[1]> for fbautostart 2.718281
SEE ALSO fluxbox(1)AUTHOR
Paul Tagliamonte <paultag@ubuntu.com>
Author.
NOTES
1. paultag@ubuntu.com
mailto:paultag@ubuntu.com
fbautostart.txt 7th September 2011 FBAUTOSTART(1)
09-16-2016
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