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#!/bin/sh
# ===========================================================================
#
# PUBLIC DOMAIN NOTICE
# National Center for Biotechnology Information (NCBI)
#
# This software/database is a "United States Government Work" under the
# terms of the United States Copyright Act. It was written as part of
# the author's official duties as a United States Government employee and
# thus cannot be copyrighted. This software/database is freely available
# to the public for use. The National Library of Medicine and the U.S.
# Government do not place any restriction on its use or reproduction.
# We would, however, appreciate having the NCBI and the author cited in
# any work or product based on this material.
#
# Although all reasonable efforts have been taken to ensure the accuracy
# and reliability of the software and data, the NLM and the U.S.
# Government do not and cannot warrant the performance or results that
# may be obtained by using this software or data. The NLM and the U.S.
# Government disclaim all warranties, express or implied, including
# warranties of performance, merchantability or fitness for any particular
# purpose.
#
# ===========================================================================
#
# File Name: xtract
#
# Author: Jonathan Kans, Aaron Ucko
#
# Version Creation Date: 11/01/2016
#
# ==========================================================================
pth=$( dirname "$0" )
case "$pth" in
/* )
;; # already absolute
* )
pth=$(cd "$pth" && pwd)
;;
esac
case ":$PATH:" in
*:"$pth":* )
;;
* )
PATH="$PATH:$pth"
export PATH
;;
esac
# read command-line arguments to intercept certain commands
for arg in "$@"
do
case "$arg" in
-format | -filter | -normalize | -outline | -contour | -synopsis | -tokens )
# front-ends to functions implemented in transmute
transmute "$@"
exit
;;
-j2x | -a2x | -t2x | -c2x | -g2x )
# front-ends to functions implemented in transmute
transmute "$@"
exit
;;
* )
continue
;;
esac
done
# pass remaining commands to precompiled xtract executable
PATH=/bin:/usr/bin
export PATH
osname=`uname -s`
cputype=`uname -m`
case "$osname-$cputype" in
Linux-x86_64 ) platform=Linux ;;
Darwin-x86_64 ) platform=Darwin ;;
Darwin-*arm* ) platform=Silicon ;;
CYGWIN_NT-* | MINGW*-* ) platform=CYGWIN_NT ;;
Linux-*arm* ) platform=ARM ;;
* ) platform=UNSUPPORTED ;;
esac
compiled=$0."$platform"
if [ -x "$compiled" ]
then
exec "$compiled" "$@"
else
echo ""
echo "Unable to locate xtract executable. Please execute the following:"
echo ""
echo " nquire -dwn ftp.ncbi.nlm.nih.gov entrez/entrezdirect xtract.$platform.gz"
echo " gunzip -f xtract.$platform.gz"
echo " chmod +x xtract.$platform"
echo ""
fi
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