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/usr/share/xcrysden/scripts/xc_cleanscratch is in xcrysden-data 1.5.53-1.

This file is owned by root:root, with mode 0o755.

The actual contents of the file can be viewed below.

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#!/bin/sh
#############################################################################
# Author:                                                                   #
# ------                                                                    #
#  Anton Kokalj                                  Email: Tone.Kokalj@ijs.si  #
#  Department of Physical and Organic Chemistry  Phone: x 386 1 477 3523    #
#  Jozef Stefan Institute                          Fax: x 386 1 477 3811    #
#  Jamova 39, SI-1000 Ljubljana                                             #
#  SLOVENIA                                                                 #
#                                                                           #
# Source: $XCRYSDEN_TOPDIR/scripts/xc_cleanscratch
# ------                                                                    #
# Copyright (c) 1996-2003 by Anton Kokalj                                   #
#############################################################################

if test x$XCRYSDEN_SCRATCH = x; then
    echo "Exiting; XCRYSDEN_SCRATCH does not exists !!!"
    exit 0
fi

DELETE_FILES=$XCRYSDEN_SCRATCH/xc_*

Question () {
    echo "
    XCRYSDEN_SCRATCH directory: $XCRYSDEN_SCRATCH/ will be cleaned 
    (i.e. rm -rf $DELETE_FILES). 

    The following files/directories will be deleted:
"
    files=`ls $XCRYSDEN_SCRATCH/* 2> /dev/null`
    if [ "$files" = "" ]; then
	echo "    XCRYSDEN_SCRATCH directory is empty !!!
"
	exit
    fi

    echo "$files" | grep xc_

    $ECHO_n "
    Really delete? ([y]es/[n]o) "
    read ans

    if [ \( "$ans" != "y" \) -a \( "$ans" != "n" \) ]; then
	echo "
-- Please answer y or n !!!"
	Question
    fi
}

#
# assuming user shell is csh or tcsh or sh
#
if [ "`echo -n a`" = "-n a" ]; then
    ECHO_n=echo
else
    ECHO_n="echo -n"
fi

Question

if [ "$ans" = y ]; then
    $ECHO_n "
Deleting $DELETE_FILES ... "
    cd $XCRYSDEN_SCRATCH/
    rm -rf xc_*
    echo "OK
"
fi