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Full Discussion: Bash to trim folder and files within a path that share a common file extension
Top Forums Shell Programming and Scripting Bash to trim folder and files within a path that share a common file extension Post 303032427 by Don Cragun on Sunday 17th of March 2019 01:59:58 PM
Old 03-17-2019
Hi Peasant,
Here is a slightly modified version of your script that just uses options and variable expansions defined by the POSIX standards. But, of course, it still depends on us knowing the pathname of a shell that provides those standard variable expansions. (Note that find isn't needed for this; we can get what we need just using shell pathname expansions.)
Code:
#!/bin/bash
set -xv
# we are running this from ROOTDIR, or abort.
ROOTDIR=/home/cmccabe/rename
cd $ROOTDIR || exit 1
# matching name "R_2019*" to operate on desired directory names, expand this to be precise.

for RDIR in R_2019*/
do
	TRIMSTR=${RDIR%%-v5.6*}
	for FLN in $RDIR*.bam	# Note that RDIR contains a trailing /.
	do
		FLNSUB=${FLN%_R_2019_*}
		mv "${FLN}" "$FLNSUB.bam"
		# Use the fact that .bam and .bam.bai files are paired.
		mv "${FLN}.bai" "$FLNSUB.bam.bai"
	done
	# Now we shall rename the folder, after files inside have been renamed.
	mv "$RDIR" "${TRIMSTR}"
done

Hi cmccabe,
If Peasant's script (modified as suggested in post #5 worked for you, the script above should also work and should even run a little bit faster since it doesn't need to invoke find to get the job done.

I hope this helps,
Don
These 2 Users Gave Thanks to Don Cragun For This Post:
cmccabe Peasant
 

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LEARN ABOUT OSF1

secauthmigrate

secauthmigrate(8)					      System Manager's Manual						 secauthmigrate(8)

NAME

       secauthmigrate - Convert ULTRIX auth(5) authentication data to authcap(4) authentication data  (Enhanced Security)

SYNOPSIS

       /usr/sbin/secauthmigrate [options] files

       ... | /usr/sbin/secauthmigrate [options] -

DESCRIPTION

       The secauthmigrate utility reads records from the specified files or from standard input (-).  These records must be formatted according to
       the ULTRIX auth(Section 5) format.  These can be generated by getauth on ULTRIX, or (for the Hesiod/BIND  master  host)	can  be  found	in
       /var/dss/namedb/src/auth.   For	each  authentication  record found, secauthmigrate will attempt to find a matching username record for the
       given UID.  If that translation can be performed, an authcap(4) entry for the extended profile information for that user  is  created  from
       the  data  in  the input record.  If the extended profile entry already exists, then the converted entry is left in /tcb/files/auth/?/user-
       name:ULT rather than overwrite the entry in /tcb/files/auth/?/username.

       If ROOTDIR is defined, it is used instead of / as the root of the directory tree when creating the /tcb/files/auth/?/* files.

FLAGS

       -v     Indicate successful conversions on standard output.

       -U     Give a long usage message.

ERRORS

       Failed to find name for UID # xxxx -- skipped
       No BSD style (/etc/passwd or NIS data) account exists. If you need this account, create a BSD style account and run secauthmigrate again.

       Existing file for username -- conversion saved in /tcb/files/auth/?/username:ULT
       Extended profile already exists. Compare the files to determine the differences.  If the differences are not related to the  password,  use
       the  dxaccounts	program  to  update  the  existing  file.   If	the  differences  are related to the password, disable logins and edit the
       /tcb/files/auth/?/username file.

       secauthmigrate -- unrecognized option '${opt}'
       The option you provided was not recognized.  The options are -v and -U.

       Usage: secauthmigrate [options] files
	   (Try secauthmigrate -U for help.)
       The -U option provides extensive help.

FILES

       ${ROOTDIR}/tcb/files/auth/?/*

RELATED INFORMATION

       authcap(4), prpasswd(4)

       auth(Section 5) and getauth(Section 8) on ULTRIX.

       Security delim off

																 secauthmigrate(8)
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