[med-svn] r1569 - in trunk/packages: . cluster3 cluster3/trunk cluster3/trunk/debian
tille at alioth.debian.org
tille at alioth.debian.org
Thu Mar 13 08:44:42 UTC 2008
Author: tille
Date: 2008-03-13 08:44:41 +0000 (Thu, 13 Mar 2008)
New Revision: 1569
Added:
trunk/packages/cluster3/
trunk/packages/cluster3/trunk/
trunk/packages/cluster3/trunk/README
trunk/packages/cluster3/trunk/debian/
trunk/packages/cluster3/trunk/debian/README.Debian
trunk/packages/cluster3/trunk/debian/changelog
trunk/packages/cluster3/trunk/debian/cluster3-doc.docs
trunk/packages/cluster3/trunk/debian/cluster3.dirs
trunk/packages/cluster3/trunk/debian/cluster3.docs
trunk/packages/cluster3/trunk/debian/cluster3.manpages
trunk/packages/cluster3/trunk/debian/cluster3.sgml
trunk/packages/cluster3/trunk/debian/compat
trunk/packages/cluster3/trunk/debian/control
trunk/packages/cluster3/trunk/debian/copyright
trunk/packages/cluster3/trunk/debian/menu
trunk/packages/cluster3/trunk/debian/rules
trunk/packages/cluster3/trunk/debian/xcluster3.sgml
Log:
Moved Steffen M?\195?\182llers work which was stalled to svn to keep track of previous work.
Remark: All this effort is done to have some reasonable URL on our tasks pages to
link to work which was done previousely by our team.
Added: trunk/packages/cluster3/trunk/README
===================================================================
--- trunk/packages/cluster3/trunk/README (rev 0)
+++ trunk/packages/cluster3/trunk/README 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,3 @@
+Work on this project was started by Steffen Möller but has stalled.
+Feel free to take it over.
+
Added: trunk/packages/cluster3/trunk/debian/README.Debian
===================================================================
--- trunk/packages/cluster3/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/cluster3/trunk/debian/README.Debian 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,14 @@
+cluster3 for Debian
+------------------
+
+The upstream source refers to cluster 1.25 and 3.0 at the same time. Since
+the original version of Michael Eisen is 2.x, I assume that this should
+be read as version 1.25 of the 3.0 version of cluster.
+
+The executable cluster was renamed to cluster3 in order to avoid name
+clashes with other packages.
+
+The upstream sources compile cluster either as a command line tool or
+as a motif gui. I decided to name the x-version xcluster3.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de>, Tue, 6 Apr 2004 18:31:37 +0200
Added: trunk/packages/cluster3/trunk/debian/changelog
===================================================================
--- trunk/packages/cluster3/trunk/debian/changelog (rev 0)
+++ trunk/packages/cluster3/trunk/debian/changelog 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,19 @@
+cluster3 (1.27-0.1) unstable; urgency=low
+
+ * New upstream release.
+ * Improved on debian/rules.
+ * Finally submitted ITP (Closes: Bug#286167).
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de> Sat, 18 Dec 2004 01:39:00 +0200
+cluster3 (1.25-0.2) unstable; urgency=low
+
+ * Provides both the motif gui and command line interface.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de> Tue, 7 Apr 2004 18:31:37 +0200
+
+cluster3 (1.25-0.1) unstable; urgency=low
+
+ * Initial Release.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de> Tue, 6 Apr 2004 18:31:37 +0200
+
Added: trunk/packages/cluster3/trunk/debian/cluster3-doc.docs
===================================================================
--- trunk/packages/cluster3/trunk/debian/cluster3-doc.docs (rev 0)
+++ trunk/packages/cluster3/trunk/debian/cluster3-doc.docs 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,5 @@
+docs/cluster.pdf
+docs/cluster.texinfo
+docs/cluster3.pdf
+docs/cluster3.texinfo
+docs/structure.eps
Added: trunk/packages/cluster3/trunk/debian/cluster3.dirs
===================================================================
--- trunk/packages/cluster3/trunk/debian/cluster3.dirs (rev 0)
+++ trunk/packages/cluster3/trunk/debian/cluster3.dirs 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,3 @@
+usr/bin
+usr/share/doc/cluster3
+usr/share/cluster3
Added: trunk/packages/cluster3/trunk/debian/cluster3.docs
===================================================================
--- trunk/packages/cluster3/trunk/debian/cluster3.docs (rev 0)
+++ trunk/packages/cluster3/trunk/debian/cluster3.docs 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,2 @@
+NEWS
+README
Added: trunk/packages/cluster3/trunk/debian/cluster3.manpages
===================================================================
--- trunk/packages/cluster3/trunk/debian/cluster3.manpages (rev 0)
+++ trunk/packages/cluster3/trunk/debian/cluster3.manpages 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1 @@
+cluster3.1
Added: trunk/packages/cluster3/trunk/debian/cluster3.sgml
===================================================================
--- trunk/packages/cluster3/trunk/debian/cluster3.sgml (rev 0)
+++ trunk/packages/cluster3/trunk/debian/cluster3.sgml 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,171 @@
+<!doctype refentry PUBLIC "-//OASIS//DTD DocBook V4.1//EN" [
+
+<!-- Process this file with docbook-to-man to generate an nroff manual
+ page: `docbook-to-man manpage.sgml > manpage.1'. You may view
+ the manual page with: `docbook-to-man manpage.sgml | nroff -man |
+ less'. A typical entry in a Makefile or Makefile.am is:
+
+manpage.1: manpage.sgml
+ docbook-to-man $< > $@
+
+
+ The docbook-to-man binary is found in the docbook-to-man package.
+ Please remember that if you create the nroff version in one of the
+ debian/rules file targets (such as build), you will need to include
+ docbook-to-man in your Build-Depends control field.
+
+ -->
+
+ <!-- Fill in your name for FIRSTNAME and SURNAME. -->
+ <!ENTITY dhfirstname "<firstname>Steffen</firstname>">
+ <!ENTITY dhsurname "<surname>Moeller</surname>">
+ <!-- Please adjust the date whenever revising the manpage. -->
+ <!ENTITY dhdate "<date>April 6, 2004</date>">
+ <!-- SECTION should be 1-8, maybe w/ subsection other parameters are
+ allowed: see man(7), man(1). -->
+ <!ENTITY dhsection "<manvolnum>1</manvolnum>">
+ <!ENTITY dhemail "<email>moeller at pzr.uni-rostock.de</email>">
+ <!ENTITY dhusername "Steffen Moeller">
+ <!ENTITY dhucpackage "<refentrytitle>CLUSTER3</refentrytitle>">
+ <!ENTITY dhpackage "cluster3">
+
+ <!ENTITY debian "<productname>Debian</productname>">
+ <!ENTITY gnu "<acronym>GNU</acronym>">
+ <!ENTITY gpl "&gnu; <acronym>GPL</acronym>">
+]>
+
+<refentry>
+ <refentryinfo>
+ <address>
+ &dhemail;
+ </address>
+ <author>
+ &dhfirstname;
+ &dhsurname;
+ </author>
+ <copyright>
+ <year>2003</year>
+ <holder>&dhusername;</holder>
+ </copyright>
+ &dhdate;
+ </refentryinfo>
+ <refmeta>
+ &dhucpackage;
+
+ &dhsection;
+ </refmeta>
+ <refnamediv>
+ <refname>&dhpackage;</refname>
+
+ <refpurpose>Eisen-clustering of microarray data</refpurpose>
+ </refnamediv>
+ <refsynopsisdiv>
+ <cmdsynopsis>
+ <command>&dhpackage;</command>
+
+ <arg><option>-f <replaceable>filename</replaceable></option></arg>
+ <arg><option>-l <replaceable>0|1</replaceable></option></arg>
+ <arg><option>-u <replaceable>jobname</replaceable></option></arg>
+ <arg><option>-g <replaceable>[0..9]</replaceable></option></arg>
+ <arg><option>-e <replaceable>[0..9]</replaceable></option></arg>
+ <arg><option>-m <replaceable>[msca]</replaceable></option></arg>
+ <arg><option>-k <replaceable>number</replaceable></option></arg>
+ <arg><option>-s <replaceable>0|1</replaceable></option></arg>
+ <arg><option>-x <replaceable>number</replaceable></option></arg>
+ <arg><option>-y <replaceable>number</replaceable></option></arg>
+ </cmdsynopsis>
+ </refsynopsisdiv>
+ <refsect1>
+ <title>OPTIONS</title>
+
+ <variablelist>
+ <varlistentry><term><option>-h</option><option>--help</option></term><listitem><para>Show summary of options.</para></listitem></varlistentry>
+ <varlistentry><term><option>-f <replaceable>filename</replaceable></option></term><listitem><para>file loding</para></listitem></varlistentry>
+ <varlistentry><term><option>-u <replaceable>jobname</replaceable></option></term><listitem><para>Allows you to specify a different name for the output files (default is derived from the input file name)</para></listitem></varlistentry>
+ <varlistentry><term><option>-l <replaceable>0|1</replaceable></option></term><listitem><para>Specifies whether to log-transform the data (default is 0, no log-transform)</para></listitem></varlistentry>
+ <varlistentry><term><option>-k <replaceable>number</replaceable></option></term><listitem><para>Specifies whether to run k-means clustering instead of hierarchical clustering, and the number of clusters k to use (default: 0)</para></listitem></varlistentry>
+ <varlistentry><term><option>-x <replaceable>number</replaceable></option></term><listitem><para>Specifies the horizontal dimension of the SOM grid (default: 2)</para></listitem></varlistentry>
+ <varlistentry><term><option>-y <replaceable>number</replaceable></option></term><listitem><para>Specifies the vertical dimension of the SOM grid (default: 1)</para></listitem></varlistentry>
+ <varlistentry><term><option>-s <replaceable>0|1</replaceable></option></term><listitem><para>Specifies whether to calculate an SOM instead of hierarchical clustering (default: 0)</para></listitem></varlistentry>
+ <varlistentry>
+ <term><option>-v</option>
+ <option>--version</option>
+ </term>
+ <listitem>
+ <para>Show version of program.</para>
+ </listitem>
+ </varlistentry>
+ </variablelist>
+<para>
+ -g [0..9] Specifies the distance measure for gene clustering
+ 0: No gene clustering
+ 1: Uncentered correlation
+ 2: Pearson correlation
+ 3: Uncentered correlation, absolute value
+ 4: Pearson correlation, absolute value
+ 5: Spearman's rank correlation
+ 6: Kendall's tau
+ 7: Euclidean distance
+ 8: Harmonically summed Euclidean distance
+ 9: City-block distance
+ (default: 1)</para><para>
+ -e [0..9] Specifies the distance measure for microarray clustering
+ 0: No clustering
+ 1: Uncentered correlation
+ 2: Pearson correlation
+ 3: Uncentered correlation, absolute value
+ 4: Pearson correlation, absolute value
+ 5: Spearman's rank correlation
+ 6: Kendall's tau
+ 7: Euclidean distance
+ 8: Harmonically summed Euclidean distance
+ 9: City-block distance
+ (default: 0)</para><para>
+ -m [msca] Specifies which hierarchical clustering method to use
+ m: Pairwise complete-linkage
+ s: Pairwise single-linkage
+ c: Pairwise centroid-linkage
+ a: Pairwise average-linkage
+ (default: m)</para>
+ </refsect1>
+ <refsect1>
+ <title>SEE ALSO</title>
+
+ <para>mapletree (1), smile (1).</para>
+
+ </refsect1>
+ <refsect1>
+ <title>AUTHOR</title>
+
+ <para>This manual page was written by &dhusername; &dhemail; for
+ the &debian; system (but may be used by others). Permission is
+ granted to copy, distribute and/or modify this document under
+ the terms of the &gnu; General Public License, Version 2 any
+ later version published by the Free Software Foundation.
+ </para>
+ <para>
+ On Debian systems, the complete text of the GNU General Public
+ License can be found in /usr/share/common-licenses/GPL.
+ </para>
+
+ </refsect1>
+</refentry>
+
+<!-- Keep this comment at the end of the file
+Local variables:
+mode: sgml
+sgml-omittag:t
+sgml-shorttag:t
+sgml-minimize-attributes:nil
+sgml-always-quote-attributes:t
+sgml-indent-step:2
+sgml-indent-data:t
+sgml-parent-document:nil
+sgml-default-dtd-file:nil
+sgml-exposed-tags:nil
+sgml-local-catalogs:nil
+sgml-local-ecat-files:nil
+End:
+-->
+
+
Added: trunk/packages/cluster3/trunk/debian/compat
===================================================================
--- trunk/packages/cluster3/trunk/debian/compat (rev 0)
+++ trunk/packages/cluster3/trunk/debian/compat 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1 @@
+4
Added: trunk/packages/cluster3/trunk/debian/control
===================================================================
--- trunk/packages/cluster3/trunk/debian/control (rev 0)
+++ trunk/packages/cluster3/trunk/debian/control 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,30 @@
+Source: cluster3
+Section: non-free/science
+Priority: optional
+Maintainer: Steffen Moeller <moeller at pzr.uni-rostock.de>
+Build-Depends: debhelper (>= 4.0.0), docbook-to-man, libmotif-dev, autotools-dev, perl
+Standards-Version: 3.6.1.1
+
+Package: cluster3
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Recommends: treeview
+Suggests: mapleview, smile
+Description: [Biology] Reimplementation of the Eisen-clustering software
+ The open source clustering software available here contains clustering
+ routines that can be used to analyze gene expression data. Routines for
+ hierarchical (pairwise simple, complete, average, and centroid linkage)
+ clustering, k-means and k-medians clustering, and 2D self-organizing maps
+ are included. The routines are available in the form of a C clustering
+ library, an extension module to Python, a module to Perl, as well as an
+ enhanced version of Cluster, which was originally developed by Michael
+ Eisen of Berkeley Lab. The C clustering library and the associated
+ extension module for Python was released under the Python license. The
+ Perl module was released under the Artistic License. Cluster 3.0 is
+ covered by the original Cluster/TreeView license.
+ .
+ This package only contains the command line and motif gui versions
+ of Cluster 3.0.
+ .
+ Homepage: http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/
+
Added: trunk/packages/cluster3/trunk/debian/copyright
===================================================================
--- trunk/packages/cluster3/trunk/debian/copyright (rev 0)
+++ trunk/packages/cluster3/trunk/debian/copyright 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,32 @@
+This package was debianized by Steffen Moeller <moeller at pzr.uni-rostock.de> on
+Tue, 6 Apr 2004 18:31:37 +0200.
+
+It was downloaded from http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/software.htm
+
+Upstream Authors: M. J. L. de Hoon <mdehoon at ims.u-tokyo.ac.jp>, S. Imoto, J. Nolan, and S. Miyano
+
+Copyright:
+
+
+License Information
+===================
+
+The Open Source Clustering Software consists of several packages, which have
+different licenses.
+
+* Cluster 3.0 is a GUI-based program for Windows, Mac OS X, Linux, and Unix.
+ It is based on Michael Eisen's Cluster/TreeView code. Cluster 3.0 is covered
+ by Michael Eisen's original license, available at
+ http://rana.lbl.gov/EisenSoftwareSource.htm. The command-line version of
+ Cluster 3.0 is also covered by this license.
+* Pycluster is an extension module to the scripting language Python. It is
+ covered by the Python License (same license as Python itself).
+* Algorithm::Cluster, the interface to the scripting language Perl. It was
+ released under the Artistic License (same license as Perl itself).
+* The routines in the C Clustering Library can also be used directly by calling
+ them from other C programs. In that case, the Python License applies.
+
+In all cases, copyright notices must be retained in their original form.
+
+The Artistic License is usually distributed in /usr/share/common-licenses/Artistic
+and the GPL is /usr/share/common-licenses/GLP on Debian systems.
Added: trunk/packages/cluster3/trunk/debian/menu
===================================================================
--- trunk/packages/cluster3/trunk/debian/menu (rev 0)
+++ trunk/packages/cluster3/trunk/debian/menu 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,2 @@
+?package(cluster3):needs="X11" section="Apps/Science" \
+ title="cluster3" command="/usr/bin/xcluster3"
Added: trunk/packages/cluster3/trunk/debian/rules
===================================================================
--- trunk/packages/cluster3/trunk/debian/rules (rev 0)
+++ trunk/packages/cluster3/trunk/debian/rules 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,143 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+# Sample debian/rules that uses debhelper.
+# GNU copyright 1997 to 1999 by Joey Hess.
+#
+# Modified to make a template file for a multi-binary package with separated
+# build-arch and build-indep targets by Bill Allombert 2001
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+# This has to be exported to make some magic below work.
+export DH_OPTIONS
+
+# These are used for cross-compiling and for saving the configure script
+# from having to guess our platform (since we know it already)
+DEB_HOST_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_HOST_GNU_TYPE)
+DEB_BUILD_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE)
+
+
+CFLAGS = -Wall -g
+
+ifneq (,$(findstring noopt,$(DEB_BUILD_OPTIONS)))
+ CFLAGS += -O0
+else
+ CFLAGS += -O2
+endif
+ifeq (,$(findstring nostrip,$(DEB_BUILD_OPTIONS)))
+ INSTALL_PROGRAM += -s
+endif
+
+#Architecture
+
+configure: configure-stamp
+configure-stamp:
+ cp -f /usr/share/misc/config.sub config.sub
+ cp -f /usr/share/misc/config.guess config.guess
+ touch configure-stamp
+
+build-arch: build-arch-stamp-nox build-arch-stamp-x cluster3.1 xcluster3.1
+build-arch-stamp-nox: configure
+ # Add here commands to compile the arch part of the package.
+ CFLAGS="$(CFLAGS)" ./configure -C --host=$(DEB_HOST_GNU_TYPE) --build=$(DEB_BUILD_GNU_TYPE) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info --without-x
+ $(MAKE) CFLAGS="$(CFLAGS)"
+ touch build-arch-stamp-nox
+
+build-arch-stamp-x: configure
+ CFLAGS="$(CFLAGS)" ./configure -C --host=$(DEB_HOST_GNU_TYPE) --build=$(DEB_BUILD_GNU_TYPE) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info --with-x
+ $(MAKE) CFLAGS="$(CFLAGS)"
+ touch build-arch-stamp-x
+
+
+install-arch-perl: install-arch-perl-stamp
+install-arch-perl-stamp:
+ perl Makefile.PL prefix=$(CURDIR)/debian/cluster3/usr/
+ make
+ make test
+ make install
+
+cluster3.1: debian/cluster3.sgml
+ docbook-to-man $< > $@
+
+xcluster3.1: debian/xcluster3.sgml
+ docbook-to-man $< > $@
+
+build-indep: build-indep-stamp
+build-indep-stamp:
+
+ # Add here commands to compile the indep part of the package.
+ touch build-indep-stamp
+
+clean:
+ dh_testdir
+ dh_testroot
+ rm -f build-arch-stamp* build-indep-stamp #CONFIGURE-STAMP#
+
+ # Add here commands to clean up after the build process.
+ -$(MAKE) clean
+
+ -find . -name .deps -a -type d | xargs rm -rf
+
+ dh_clean config.status config.cache config.sub config.guess src/*.o X11/*.o src/cluster X11/cluster cluster3.1 xcluster3.1 src/Makefile src/Makefile.old X11/Makefile Makefile
+
+install: install-indep install-arch
+install-indep:
+ dh_testdir -i
+ dh_testroot -i
+ dh_clean -k -i
+ dh_installdirs -i
+
+ # Add here commands to install the indep part of the package into
+ # debian/<package>-doc.
+ #INSTALLDOC#
+
+ dh_install -i
+
+install-arch: build-arch install-arch-perl
+ dh_testdir -a
+ dh_testroot -a
+ dh_clean -k -a
+ dh_installdirs -a
+
+ # Add here commands to install the arch part of the package into
+ # debian/tmp.
+ cp X11/cluster $(CURDIR)/debian/cluster3/usr/bin/xcluster3
+ cp src/cluster $(CURDIR)/debian/cluster3/usr/bin/cluster3
+ cp doc/* $(CURDIR)/debian/cluster3/usr/share/doc/cluster3
+ cp -r example $(CURDIR)/debian/cluster3/usr/share/cluster3
+ dh_install -s
+
+# Must not depend on anything. This is to be called by
+# binary-arch/binary-indep
+# in another 'make' thread.
+binary-common:
+ dh_testdir
+ dh_testroot
+ dh_installchangelogs ChangeLog
+ dh_installdocs
+ dh_installmenu
+ dh_installman cluster3.1 xcluster3.1
+ dh_link
+ dh_strip
+ dh_compress
+ dh_fixperms
+ dh_perl
+# dh_python
+ dh_makeshlibs
+ dh_installdeb
+ dh_shlibdeps
+ dh_gencontrol
+ dh_md5sums
+ dh_builddeb
+# Build architecture independant packages using the common target.
+binary-indep: build-indep install-indep
+ $(MAKE) -f debian/rules DH_OPTIONS=-i binary-common
+
+# Build architecture dependant packages using the common target.
+binary-arch: build-arch install-arch
+ $(MAKE) -f debian/rules DH_OPTIONS=-a binary-common
+
+binary: binary-arch
+
+.PHONY: build build-arch clean binary-indep binary-arch binary install install-indep install-arch
Added: trunk/packages/cluster3/trunk/debian/xcluster3.sgml
===================================================================
--- trunk/packages/cluster3/trunk/debian/xcluster3.sgml (rev 0)
+++ trunk/packages/cluster3/trunk/debian/xcluster3.sgml 2008-03-13 08:44:41 UTC (rev 1569)
@@ -0,0 +1,112 @@
+<!doctype refentry PUBLIC "-//OASIS//DTD DocBook V4.1//EN" [
+
+<!-- Process this file with docbook-to-man to generate an nroff manual
+ page: `docbook-to-man manpage.sgml > manpage.1'. You may view
+ the manual page with: `docbook-to-man manpage.sgml | nroff -man |
+ less'. A typical entry in a Makefile or Makefile.am is:
+
+manpage.1: manpage.sgml
+ docbook-to-man $< > $@
+
+
+ The docbook-to-man binary is found in the docbook-to-man package.
+ Please remember that if you create the nroff version in one of the
+ debian/rules file targets (such as build), you will need to include
+ docbook-to-man in your Build-Depends control field.
+
+ -->
+
+ <!-- Fill in your name for FIRSTNAME and SURNAME. -->
+ <!ENTITY dhfirstname "<firstname>Steffen</firstname>">
+ <!ENTITY dhsurname "<surname>Moeller</surname>">
+ <!-- Please adjust the date whenever revising the manpage. -->
+ <!ENTITY dhdate "<date>April 6, 2004</date>">
+ <!-- SECTION should be 1-8, maybe w/ subsection other parameters are
+ allowed: see man(7), man(1). -->
+ <!ENTITY dhsection "<manvolnum>1</manvolnum>">
+ <!ENTITY dhemail "<email>moeller at pzr.uni-rostock.de</email>">
+ <!ENTITY dhusername "Steffen Moeller">
+ <!ENTITY dhucpackage "<refentrytitle>CLUSTER3</refentrytitle>">
+ <!ENTITY dhpackage "cluster3">
+
+ <!ENTITY debian "<productname>Debian</productname>">
+ <!ENTITY gnu "<acronym>GNU</acronym>">
+ <!ENTITY gpl "&gnu; <acronym>GPL</acronym>">
+]>
+
+<refentry>
+ <refentryinfo>
+ <address>
+ &dhemail;
+ </address>
+ <author>
+ &dhfirstname;
+ &dhsurname;
+ </author>
+ <copyright>
+ <year>2003</year>
+ <holder>&dhusername;</holder>
+ </copyright>
+ &dhdate;
+ </refentryinfo>
+ <refmeta>
+ &dhucpackage;
+
+ &dhsection;
+ </refmeta>
+ <refnamediv>
+ <refname>x&dhpackage;</refname>
+
+ <refpurpose>Eisen-clustering of microarray data</refpurpose>
+ </refnamediv>
+ <refsynopsisdiv>
+ <cmdsynopsis>
+ <command>x&dhpackage;</command>
+ </refsynopsisdiv>
+ <refsect1>
+ <title>DESCRIPTION</title>
+ <para>
+ xcluster3 is the Motif-based X-interface of the Linux-variant of the program cluster by Michael Eisen. It is used to cluster microarray expression data. The presentation of the data is performed by TreeView. This is a Windows program of his, for which the Linux variants TreeView and MapleView exist as Java rewrites.
+ </para>
+ </refsect1>
+ <refsect1>
+ <title>SEE ALSO</title>
+
+ <para>mapletree (1), treeview (1), smile (1).</para>
+
+ </refsect1>
+ <refsect1>
+ <title>AUTHOR</title>
+
+ <para>This manual page was written by &dhusername; &dhemail; for
+ the &debian; system (but may be used by others). Permission is
+ granted to copy, distribute and/or modify this document under
+ the terms of the &gnu; General Public License, Version 2 any
+ later version published by the Free Software Foundation.
+ </para>
+ <para>
+ On Debian systems, the complete text of the GNU General Public
+ License can be found in /usr/share/common-licenses/GPL.
+ </para>
+
+ </refsect1>
+</refentry>
+
+<!-- Keep this comment at the end of the file
+Local variables:
+mode: sgml
+sgml-omittag:t
+sgml-shorttag:t
+sgml-minimize-attributes:nil
+sgml-always-quote-attributes:t
+sgml-indent-step:2
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+sgml-default-dtd-file:nil
+sgml-exposed-tags:nil
+sgml-local-catalogs:nil
+sgml-local-ecat-files:nil
+End:
+-->
+
+
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