that is when I had the problems. I reinstalled 1.0075a without reinstalling horae and it worked again. Carlo On Fri, 24 Jan 2003, Bruce Ravel wrote:

...

On Fri, 24 Jan 2003, "Carlo U. Segre" said:

CUS> Matt:

CUS> I have had a problem install in the perl wrappers in ifeffit CUS> 1.0076. It seems to have a problem in the "perl Makefile.pl" CUS> command.

CUS> This breaks athena. Right now I am not at a computer that has CUS> an installation but I can send more info later if you like.

Carlo,

What happens if you reinstall Athena after upgrading ifeffit? That is, unpack an horae tarball, and do the standard perl Makefile.PL; make; make install incantation.

B

-- Carlo U. Segre -- Professor of Physics Associate Dean for Research, Armour College Illinois Institute of Technology Voice: 312.567.3498 Fax: 312.567.3494 Carlo.Segre@iit.edu http://www.iit.edu/~segre

CS> By the way, I really like the horae_install script. I am not an CS> expert in shell scripting but if I can help keeping it working, I CS> would be happy to. Glad it worked out for you. It currently works by my making sure to symlink "horae-latest.tar.gz" to whatever the latest version of the tarball is and by making sure to extract the HORAE file from the tar ball and place it, too, on the server. I am a little worried about my actually remembering to do the things each time! Attached is an improvement (even though I said I wasn't going to work on it -- I get obsessed and can't really help myself ;-) It uses wget to fetch a listing of the directory where the tarballs live and determines the most recent version to download. That seems easier for me. The script is highly dependent on wget. That could be a problem on non-linux unix machines. One obvious improvement would be to allow using some other program to grab the file. Another possibility would be to write a similar script in perl or python so you could build a web client right into the script. Let me know if this works for you and I'll post it on the web site. B #!/bin/sh # # This file will attempt to download the Horae tarball # and then build it for a linux system. This was cribbed # from Matt Newville's PGPLOT_install script # # syntax: HORAE_install # # This may need customization for some systems # # verified on: linux # dir=`pwd` logfile=$dir/HORAE_install.log wget=/usr/bin/wget ncftp=/usr/bin/ncftp ftp=/usr/bin/ftp do_log=0 # set horae file locales # horae_site='feff.phys.washington.edu' horae_url="http://$horae_site/~ravel/" horae_dir='software/exafs/packages/' horae_file='horae-latest.tar.gz' horae_version='HORAE' horae_index="$horae_site/%7Eravel/$horae_dir/index.html" if [ ! -f $wget ] ; then echo "This script requires wget for downloading the horae package" echo "you can grab the source code tarball for wget from" echo " ftp://ftp.gnu.org/pub/gnu/wget/" exit 1 fi # # get command line options # for opt # do # option='' # case "$opt" in # -*=*) # optarg=`echo "$opt" | sed 's/[-_a-zA-Z0-9]*=//'` # option=`echo "$opt" | sed 's/=.*//' | sed 's/-*//'` # ;; # *) # option=`echo "$opt" | sed 's/^-*//'` # optarg= # ;; # esac # case "$option" in # prefix) prefix=$optarg ;; # system) system=$optarg ;; # no-clean) do_clean=0 ;; # no-log) do_log=0 ;; # with-png) with_png=1 ;; # with-gif) with_gif=1 ;; # no-png) with_png=0 ;; # no-gif) with_gif=0 ;; # -help | --help | help) cat< $logfile echo " " >> $logfile fi # #----------------------------------------- ## ## determine most recent version of the horae tarball ## this will download a directory listing of the packages directory on ## the web site wget -r -l1 $horae_url$horae_dir -A.dummy ## this will extract a list of all the files that have the word ## "horae" in the filename. The arguments to cut extract the tarball ## from a line of html horae_list=`grep horae $horae_index | cut -d '"' -f 6 | sort` ## clean up a bit... rm -rf $horae_site ## the list should be sorted in a way that the most recent version of ## the horae tarball comes last (except for -latest, which may still ## be hanging around the server for f in $horae_list; do if [ "$f" != 'horae-latest.tar.gz' ]; then current=$f fi done ## strip the .tar.gz from the tarball filename. this gives the name ## of the directory that te kit is unpacked to kit_dir=`echo $current | cut -d '.' -f 1` if [ $do_log -eq 1 ] ; then echo "wget -r -l1 $horae_url$horae_dir -A.dummy" >> $logfile echo "grep horae $horae_index | cut -d '\"' -f 6 | sort" >> $logfile echo "rm -rf $horae_site" >> $logfile echo "kit_dir=`echo $current | cut -d '.' -f 1`" >> $logfile echo " = fetching $kit_dir from $current" >> $logfile fi echo " " echo " = fetching $kit_dir from $current" echo " " # #----------------------------------------- ## ## fetch the current tarball using wget echo " = Looking for HORAE file: $horae_file" if [ -f $current ] ; then x=1 else echo " = HORAE file not found " echo " = I'll try to download it for you using wget..." tmp="$horae_url/$horae_dir/$current" wget --tries=10 $tmp fi ## here it would perhaps be nice to have some fallbacks... although, ## wget was essential earlier, so one would need fallbacks earlier as ## well... ## ## if we still don't have the file, croak if [ -f $current_file ]; then echo " = I see the current HORAE archive file. Good." if [ $do_log -eq 1 ] ; then echo " = I see the current HORAE archive file. Good." >> $logfile fi else echo " = Sorry, I couldn't download the HORAE tar file." echo " = You'll have to download it yourself" echo " = from $horae_url$horae_dir" echo " = then run this script again" if [ $do_log -eq 1 ] ; then echo " = Sorry, I couldn't download the HORAE tar file." >> $logfile echo " = You'll have to download it yourself" >> $logfile echo " = from $horae_url$horae_dir" >> $logfile echo " = then run this script again" >> $logfile fi exit 1 fi ## unpack kit echo " = Unpacking HORAE: " gzip -dc $current | tar xvf - echo " = Running HORAE's Makefile.PL script " cd "$kit_dir" perl Makefile.PL if [ $do_log -eq 1 ] ; then echo "gzip -dc $current_file | tar xvf -" >> $logfile echo "cd $kit_dir/ " >> $logfile echo "perl Makefile.PL " >> $logfile fi echo " = Running make " make if [ $do_log -eq 1 ] ; then echo "make " >> $logfile fi who=`whoami` if [ "$who" = "root" ] ; then make install if [ $do_log -eq 1 ] ; then echo "make install" >> $logfile fi else echo " " echo " = = = = = = = = = = = = = = = = = = = = = = = = = = " echo " = You need to become root to install Athena and Artemis." echo " = When you become root, issue this command:" echo " = make install" echo " = in this directory." if [ $do_log -eq 1 ] ; then echo " " >> $logfile echo " = = = = = = = = = = = = = = = = = = = = = = = = = = " >> $logfile echo " = You need to become root to install Athena and Artemis." >> $logfile echo " = When you become root, issue this command:" >> $logfile echo " = make install" >> $logfile echo " = in this directory." >> $logfile echo " = = = = = = = = = = = = = = = = = = = = = = = = = = " echo " " fi fi echo " = = = = = = = = = = = = = = = = = = = = = = = = = = " echo " " # done -- Bruce Ravel ----------------------------------- ravel@phys.washington.edu Code 6134, Building 3, Room 222 Naval Research Laboratory phone: (1) 202 767 5947 Washington DC 20375, USA fax: (1) 202 767 1697 NRL Synchrotron Radiation Consortium (NRL-SRC) Beamlines X11a, X11b, X23b, X24c, U4b National Synchrotron Light Source Brookhaven National Laboratory, Upton, NY 11973 My homepage: http://feff.phys.washington.edu/~ravel EXAFS software: http://feff.phys.washington.edu/~ravel/software/exafs/

Hi Carlo, Like Bruce suggests, I think the recommended install procedure for athena, and the perl modules is now 1. install the ifeffit library -- but not the perl module -- from ifeffit-1.0076.tar.gz configure ; make ; make install 2. download horae-latest.tar.gz and install using perl Makefile.PL ; make ; make install It is OK if I just remove the perl module from the source kit so there's no potential conflict with horae? If not, I should probably keep the perl module in the distribution up to date with the horae!! --Matt

Hi Dr. Newville,

MN> It is OK if I just remove the perl module from the source kit so MN> there's no potential conflict with horae? If not, I should MN> probably keep the perl module in the distribution up to date with MN> the horae!!

ifeffit but does not want to use athena. However, you definately should make sure that ifeffit keeps up to date with horae. And you should make it so that the perl wrapper is not built by default.

Will it be easier to create a HORAE_install script like PGPLOT_install than keeping it up-to-date? Just an idea... Tsu-Chien <Chien>001000</Chien>

Hi,

TW> Will it be easier to create a HORAE_install script like TW> PGPLOT_install than keeping it up-to-date? Just an idea...

This is a fine idea. Sure, horae may get updated more frequently than the ifeffit library, but a script to grab the latest horae and install it would mean that I wouldn't have to keep the perl module up-to-date and could allow the latest athena, artemis to be easily installed and upgraded at any time. Of course, Athena/Artemis could also notify when updates are available or use the perl package manager. Such a script doesn't seem very hard to me. --Matt

I see now. I guess that I wasn't paying attention to the new instructions. I will try this againi and see what happens. Carlo On Fri, 24 Jan 2003, Matt Newville wrote:

Hi Carlo,

Like Bruce suggests, I think the recommended install procedure for athena, and the perl modules is now

1. install the ifeffit library -- but not the perl module -- from ifeffit-1.0076.tar.gz configure ; make ; make install 2. download horae-latest.tar.gz and install using perl Makefile.PL ; make ; make install

It is OK if I just remove the perl module from the source kit so there's no potential conflict with horae? If not, I should probably keep the perl module in the distribution up to date with the horae!!

--Matt

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-- Carlo U. Segre -- Professor of Physics Associate Dean for Research, Armour College Illinois Institute of Technology Voice: 312.567.3498 Fax: 312.567.3494 Carlo.Segre@iit.edu http://www.iit.edu/~segre