This is the hardware in our low-end server configuration:

Cybertory Classroom Server Support Software,
The Short List:

1. Apache web server - * cgi, servlet engine (Tomcat?)
2. Java - * SDK (from the apache web site), * Batik SVG toolkit,
   * Xerces XML parser, * Xalan XSLT processor
3. Perl - * CGI.pm, * CPAN module (so we can install other modules as needed)
4. Postgresql - * PERL DBI, Java JDBC
5. Developers tools - *GCC - C/C++ compiler, *GNU make, vi, and others

ADODB

http://php.weblogs.com/ADODB/
http://phplens.com/lens/dl/adodb250.tgz
 

2.50

Apache Ant

http://jakarta.apache.org/ant
http://jakarta.apache.org/builds/jakarta-ant/release/v1.5.1/src/jakarta-ant-1.5.1-src.tar.gz
 

1.5.1

Apache Axis

http://xml.apache.org/axis/index.html
http://xml.apache.org/axis/dist/1_0/xml-axis-10-src.tar.gz
 

1.0

Apache Tomcat

http://jakarta.apache.org/tomcat/
http://jakarta.apache.org/builds/jakarta-tomcat-4.0/release/v4.1.12/src/jakarta-tomcat-4.1.12-src.tar.gz
 

4.1.12

Apache Web Server

http://httpd.apache.org
http://www.apache.org/dist/httpd/httpd-2.0.43.tar.gz
Is easily installed with RedHat 8.0 OS

2.0.43

Apache XML

http://xml.apache.org/
see Axis, Batik, Cocoon, Forrest, SOAP, Xalan, Xerces
 

NA

ArgoUML

http://argouml.tigris.org
http://argouml.tigris.org/files/documents/4/1085/ArgoUML-0.12-src.tar.gz
http://argouml.tigris.org/files/documents/4/1083/ArgoUML-0.12-libs.tar.gz
 

0.12

Bioperl

http://www.bioperl.org/
http://www.bioperl.org/DIST/bioperl-1.0.2.tar.gz
 

1.0.2

Bonnie++

http://www.coker.com.au/bonnie++/
http://www.coker.com.au/bonnie++/bonnie++-1.02c.tgz
 

1.01c

Clustal

http://www-igbmc.u-strasbg.fr/BioInfo/ClustalX/Top.html
ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX/clustalx1.82.linux.tar.gz
 

1.82

cURL and libcurl

http://curl.haxx.se/
http://curl.haxx.se/download/curl-7.10.2.tar.gz
 

7.10.2

DbDesigner

http://dbdesigner.sourceforge.net/
http://prdownloads.sourceforge.net/dbdesigner/dbdesigner-p2.tar.gz
 

Public Preview 2

Dia

http://www.lysator.liu.se/~alla/dia/
ftp://ftp.gnome.org/pub/gnome/sources/dia/0.90/dia-0.90.tar.gz
 

0.90

DoubleChocoLatte

http://dcl.sourceforge.net/
http://unc.dl.sourceforge.net/sourceforge/dcl/dcl-20020706.tar.gz
is now part of GNUe
 

20020706

Emboss

http://www.emboss.org/
ftp://ftp.uk.embnet.org/pub/EMBOSS/EMBOSS-2.5.1.tar.gz
 

2.5.1

GCC Compiler

http://www.gnu.org/software/gcc/gcc.html
ftp://ftp.gnu.org/gnu/gcc/gcc-3.2.1.tar.gz
 

3.2.1

GeneX

http://genex.sf.net/
http://telia.dl.sourceforge.net/sourceforge/genex/genex-server-2.0.0a-2002-10-20.tar.gz
 

1.5.7 is not available
2.0.0 is beta

GNUe

http://www.gnuenterprise.org/index.php
http://www.gnuenterprise.org/downloads/current/GNUe-AppServer-0.0.2.tar.gz
http://www.gnuenterprise.org/downloads/current/GNUe-Common-0.4.1.tar.gz
http://www.gnuenterprise.org/downloads/current/GNUe-Designer-0.4.1.tar.gz
http://www.gnuenterprise.org/downloads/current/GNUe-Forms-0.4.1.tar.gz
http://www.gnuenterprise.org/downloads/current/GNUe-Navigator-0.0.2.tar.gz
http://www.gnuenterprise.org/downloads/current/GNUe-Reports-0.1.0.tar.gz
http://www.gnuenterprise.org/downloads/current/Samples-0.4.0.tar.gz
http://www.gnuenterprise.org/downloads/current/dcl-20020706.tar.gz
Double Choco Latte
 

0.4.1

GSoap

http://www.cs.fsu.edu/~engelen/soapmain.html
http://telia.dl.sourceforge.net/sourceforge/gsoap2/gsoap-linux-2.1.10.tar.gz
 

2.1.10

Hmmer

http://hmmer.wustl.edu/
ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.2g/hmmer-2.2g.tar.gz

2.2g

KDE

http://www.kde.org/
ftp://ibiblio.org/pub/packages/desktops/kde/stable/3.0.5/src/
Is easily installed with RedHat 8.0 OS

3.0.5

KDevelop-Project

http://www.kdevelop.org/
ftp://ibiblio.org/pub/packages/desktops/kde/stable/3.0.5/src/kdevelop-2.1.4_for_KDE_3.0.tar.bz2
 

3.0

Koffice

http://www.koffice.org/
http://ftp.du.se/pub/mirrors/kde/stable/koffice-1.2/src/koffice-1.2.tar.bz2
http://ftp.du.se/pub/mirrors/kde/stable/koffice-1.2/src/koffice-i18n-1.2.tar.bz2
Is easily installed with RedHat 8.0 OS

1.2

libpqxx

http://members.ams.chello.nl/j.vermeulen31/proj-libpqxx.html old site
http://gborg.postgresql.org/project/libpqxx/projdisplay.php new site
ftp://gborg.postgresql.org/pub/libpqxx/stable/libpqxx-1.1.4.tar.gz

1.1.4

Mono

http://www.go-mono.com/
http://www.go-mono.com/archive/mcs-0.16.tar.gz
http://www.go-mono.com/archive/mono-0.16.tar.gz
http://www.go-mono.com/archive/gc6.1.tar.gz
 

0.16

MySQL

http://www.mysql.com
http://www.mysql.com/Downloads/MySQL-3.23/mysql-3.23.53a-pc-linux-gnu-i686.tar.gz
Is easily installed with RedHat 8.0 OS

3.23.53a

ncbi-toolkit

ftp://ftp.ncbi.nlm.nih.gov/toolbox/ncbi_tools/README.htm
ftp://ftp.ncbi.nlm.nih.gov/toolbox/ncbi_tools/old/20011220/ncbi.tar.gz old
ftp://ftp.ncbi.nlm.nih.gov/toolbox/ncbi_tools/ncbi.tar.gz current
 

6.1

NIH Image ImageJ

http://rsb.info.nih.gov/ij/
http://rsb.info.nih.gov/ij/download/linux/ij128-x86.tar.gz
 

1.28

OpenMosix

http://openmosix.sourceforge.net/
http://telia.dl.sourceforge.net/sourceforge/openmosix/openMosix-2.4.18-4.gz
 

2.4.18-4

OpenOffice

http://www.openoffice.org/
http://ny1.mirror.openoffice.org/stable/1.0.1/OOo_1.0.1_source.tar.gz
 

1.0.1

OpenVRML

http://openvrml.org/
http://umn.dl.sourceforge.net/sourceforge/openvrml/openvrml-0.12.5.tar.gz
 

0.12.5

PgAccess

http://www.pgaccess.org/
http://www.pgaccess.org/download/pgaccess-0.98.8b2.tar.gz
 

0.98.8b2

PHP

http://www.php.net/
http://www.php.net/get_download.php?df=php-4.2.3.tar.gz
can be installed with OS

4.2.3

php_lib_login

http://freshmeat.net/projects/php_lib_login/
http://unc.dl.sourceforge.net/sourceforge/php-lib-login/php_lib_login_0-9b.tar.gz
 

0-9b

PhpGroupWare

http://www.phpgroupware.org/ site problems
http://www.gnu.org/directory/phpgroupware.html
http://download.sourceforge.net/phpgroupware/phpGroupWare-0.9.14.tar.gz
 

0.9.14

phpPgAdmin

http://phppgadmin.sourceforge.net
http://umn.dl.sourceforge.net/sourceforge/phppgadmin/phpPgAdmin_2-4-2.tar.gz
 

2.42

PhpWebSite

http://phpwebsite.appstate.edu/
http://phpwebsite.appstate.edu/downloads/0.9.0rc/phpWebSite-0.9.0-rc1.tar.gz
 

0.9.0-rc1

Phylip

http://evolution.genetics.washington.edu/phylip.html
ftp://evolution.genetics.washington.edu/pub/phylip/phylip.tar.Z
 

3.5

PostgreSQL

http://www.postgresql.org/
http://www.postgresql.org/ftpsite/v7.2.3/postgresql-7.2.3.tar.gz
Is easily installed with RedHat 8.0 OS

7.2.3

PyPgSQL

http://pypgsql.sourceforge.net/
http://telia.dl.sourceforge.net/sourceforge/pypgsql/pypgsql-2.2.tar.gz
 

2.2

Python

http://www.python.org/
http://www.python.org/ftp/python/2.2.2/Python-2.2.2.tgz
Is easily installed with RedHat 8.0 OS

2.2.2

Quixote

http://www.mems-exchange.org/software/quixote/
http://www.mems-exchange.org/software/files/quixote/Quixote-0.5.1.tar.gz
 

0.5.1

RPM-update

http://www.kleemann.org/rpm-update/
http://www.kleemann.org/rpm-update/releases/rpm-update-1-20021019.noarch.rpm
 

1-20021019

Samba

http://www.samba.org/
http://us1.samba.org/samba/ftp/samba-2.2.7.tar.gz
Is easily installed with RedHat 8.0 OS

2.2.7

Sendmail

http://www.sendmail.org/
ftp://ftp.sendmail.org/pub/sendmail/sendmail.8.12.6.tar.gz
needs security patch, see web site
Is easily installed with RedHat 8.0 OS

8.12.6

Subversion

http://subversion.tigris.org/
http://subversion.tigris.org/files/documents/15/1698/subversion-r3687.tar.gz
 

0.15

TOra

http://www.globecom.net/tora/
http://unc.dl.sourceforge.net/sourceforge/tora/tora-1.2.4.tar.gz

1.2.4

Vector Linux

http://www.ibiblio.org/vectorlinux/index.htm
http://www.ibiblio.org/pub/linux/distributions/vectorlinux/veclinux-3.0/iso/VL3.0dl.iso

3.0

WebMail

http://jwebmail.sourceforge.net/
http://umn.dl.sourceforge.net/sourceforge/jwebmail/webmail-0.7.10-source.tar.gz

0.7.10

Wget

1.8.2

XML-DBMS

Java Version 1.01
PERL Version 1.03

YUM

0.9.3