Azara, v2.7, copyright (C) 1993-2002 Wayne Boucher
	and Department of Biochemistry, University of Cambridge.

README file explaining the ftp files for Azara.

Date file created:  10 Oct 1994
Date last updated:  30 Oct 2002

ftp address:

	ftp.bio.cam.ac.uk : pub/azara

WWW address:

	www.bio.cam.ac.uk/azara

e-mail address (bugs, etc.):

	azara@bioc.cam.ac.uk

snail mail address (license, etc.):

	Azara
	c/o Dr. Rasmus Fogh
	Department of Biochemistry
	Tennis Court Road
	Cambridge CB2 1QW
		England

Azara is a suite of programs to process and view NMR data. See the LICENSE for the terms and conditions of use.

The problem of support still needs to be worked out, but one statement definitely holds: no LICENSE, no support.

Release 1.0-0:  10 Oct 1994
Release 1.0-1:  26 Nov 1994
Release 1.0-2:  04 Feb 1995
Release 1.0-3:  22 May 1995
Release 2.0-0:  23 Nov 1996
Release 2.5-0:  15 May 2001
Release 2.6-0:  15 Nov 2001
Release 2.7-0:  30 Oct 2002

This ftp directory contains the following files:

README-2.7 this file LICENSE the license azara-2.7-irix.tar.gz source code and Irix executables azara-2.7-linux.tar.gz source code and Linux executables azara-2.7-src.tar.gz source code azara-2.7-exe.tar.gz Irix executables azara-2.0-scripts.tar.gz sample script files azara-2.0-peaks.tar.gz Ansig macros for peak picking CHANGES-1.0-1 changes from release 1.0-0 to 1.0-1 CHANGES-1.0-2 changes from release 1.0-1 to 1.0-2 CHANGES-1.0-3 changes from release 1.0-2 to 1.0-3 CHANGES-2.0-0 changes from release 1.0-3 to 2.0-0 CHANGES-2.5-0 changes from release 2.0-0 to 2.5-0 CHANGES-2.6-0 changes from release 2.5-0 to 2.6-0 CHANGES-2.7-0 changes from release 2.6-0 to 2.7-0

Files compressed using gzip (ending in .gz) are also available. The Azara 'release' is considered to be one of the tar files, azara-2.7-all.tar.gz, azara-2.7-src.tar.gz or azara-2.7-exe.tar.gz.

The executables are compiled for both Silicon Graphics and Linux computers. If you are using another operating system then you will certainly need to re-compile the programs, and in particular you will definitely need the source code. The code has been successfully compiled on Mac OS-X and Sun computers in the past, and the non-graphical programs have been ported successfully to Windows.

See the file INSTALL in the release for more details.

The sample script files were put together by Bill Broadhurst of the Department of Biochemistry, University of Cambridge. The Ansig peak picking macros were written by Colin Hardman of the Department of Biochemistry, University of Cambridge. Many thanks to them for putting these files together, and for allowing them to be placed with this release.

Finally, a quick guide to the programs currently available. [Motif] means that the Motif and X libraries are needed to compile the program, and an X server is needed to run it. [GL] means that the GL and X libraries are needed to compile the program, and an X server is needed to run it.

process:

	A general multi-dimensional NMR processing program.
	It can be used just to convert unblocked data to
	blocked data, for use in the other programs.

plot2: [Motif]

	Allows contouring and viewing of (2-dimensional) planes
	from one or more data files, with hardcopy output also
	available.  Also allows (approximate) phasing of
	(1-dimensional) slices (rows or columns) of the planes.

plot1: [Motif]

	Allows processing and viewing of 1-dimensional data,
	with 'real-time' control over arbitrary parameters.
	Hardcopy output is also available.

contours:

	Contours (two-dimensional) planes from multi-dimensional
	data.  The contours are output in a format suitable for
	use by Per Kraulis' program Ansig.

viewer: [GL]

	Allows viewing (but nothing else) of contour files
	created by 'contours' program.

connect:

	Takes a shift file and a crosspeak file and matches
	the crosspeaks to one or more pairs of shifts.
	Creates output suitable for Xplor/CNS.

peak_find:

	Finds extrema in a spectrum, and optionally allows a
	simple parabolic fit of the extrema centers.

peak_fit :

	Fits extrema (magnitude, phase, center and linewidth) in
	a spectrum using process scripts.

combine:

	Combines two or more separate data sets, e.g. by
	adding them together.  Only a couple of combining
	functions are currently defined.

project:

	Projects multi-dimensional data onto chosen dimensions.
	It can also be used to permute the ordering of the
	dimensions of data.  In particular, any 2 dimensions
	of a multi-dimensional data file can be transposed.

extract:

	Extracts (hyper)planes from multi-dimensional data.
	Useful for testing 'process' on smaller data sets.

deflate:

	Compresses data by zeroing all data below a specified
	level (in absolute value), and then using 'run-length'
	encoding.  Can be used as input to Per Kraulis'
	program Ansig.

reflate:

	Uncompresses data compressed using 'deflate'.

slides :

	Allows multiple Postscript files to be combined into
	one Postscript file. [ Not very useful as stands. ]

components:

	Calculates the principal components of a group of
	spectra.

unblock:

	Converts blocked data to unblocked (i.e., sequential)
	data.  This provides a possible route to importing
	data into other programs.

Azara help: README-2.7 / W. Boucher / azara@bioc.cam.ac.uk