文件列表:

CHANGES (5857, 2014-04-08)
MANIFEST (4572, 2014-04-08)
MANIFEST.SKIP (263, 2014-04-08)
Makefile (4003, 2014-04-08)
Makefile.develop (457, 2014-04-08)
Makefile.irix4 (409, 2014-04-08)
Makefile.irix5 (358, 2014-04-08)
Makefile.irix6 (334, 2014-04-08)
Makefile.linux (496, 2014-04-08)
Makefile.macosx (272, 2014-04-08)
Makefile.msvc-win32 (3717, 2014-04-08)
Makefile.site (3492, 2014-04-08)
Makefile.sun4 (274, 2014-04-08)
Makefile.version (421, 2014-04-08)
doc (0, 2014-04-08)
doc\Makefile (2376, 2014-04-08)
doc\emma-help.tex (30948, 2014-04-08)
doc\emma.tex (25093, 2014-04-08)
doc\flow.xfig (908, 2014-04-08)
doc\gen_html_docs (1446, 2014-04-08)
doc\leastsq.tex (7484, 2014-04-08)
doc\matlab_activities.txt (2067, 2014-04-08)
doc\rCBF_activities.txt (10173, 2014-04-08)
doc\rcbf-help.tex (8332, 2014-04-08)
doc\rcbf.tex (52542, 2014-04-08)
doc\simul.tex (31122, 2014-04-08)
doc\state_of_the_world.txt (4751, 2014-04-08)
doc\structure.xfig (1205, 2014-04-08)
matlab (0, 2014-04-08)
matlab\fdg (0, 2014-04-08)
matlab\fdg\cnvCa.m (629, 2014-04-08)
matlab\fdg\fdg.m (4221, 2014-04-08)
matlab\fdg\getFDG_CPI.m (1602, 2014-04-08)
matlab\fdg\getFDGplasma.m (1775, 2014-04-08)
matlab\fdg\igrate.m (572, 2014-04-08)
matlab\fdg\shift_1.m (309, 2014-04-08)
matlab\fdg\solveFDG.m (6883, 2014-04-08)
matlab\general (0, 2014-04-08)
... ...

------------------------------ EMMA 1.0.0 5 February 2010 ------------------------------ This version fixes a segmentation fault that commonly occurs on ***-bit architectures. It is a mystery why 32 bits work, but this could be related to the Matlab mex compiler in 32 vs *** bits. The new code seems to work in both 32 and *** bits with recent versions of Matlab and the surfstats package. The maintainer of this release is Claude Lepage, claude@bic.mni.mcgill.ca ------------------------------ EMMA 0.9.9 10 January 2008 ------------------------------ This version can now be built with minc2 (which has become the default for compilation). The following steps are suggested to build it: 1 - build minc2, HDF5, netcdf 2 - make MINCLIBPATH=... MINCINCPATH=... CC=gcc MATLAB_INSTALL_DIR=... BIN_INSTALL_DIR=... DOC_INSTALL_DIR=... make MINCLIBPATH=... MINCINCPATH=... CC=gcc MATLAB_INSTALL_DIR=... BIN_INSTALL_DIR=... DOC_INSTALL_DIR=... install where you have to fill in the blanks for the paths in the above. The Makefile will try to autodetect your architecture (if Linux, IRIX, SunOS or Darwin). For minc1, add the option MINC_BASE=1. MINCLIBPATH has the form MINCLIBPATH=-L/usr/local/mni/bin (this string is passed to the linker so you must add -L in front). MINCINCPATH has the form MINCINCPATH=-I/usr/local/mni/include (this string is passed to the preprocessor to you must add -I in front). The maintainer of this release is Claude Lepage, claude@bic.mni.mcgill.ca ------------------------------ EMMA 0.9.6 11 March 2004 ------------------------------ This version is a maintenance release which deals with some of the issues arising from changes in Matlab's programming interface for MEX files. There should be no user-visible changes in EMMA 0.9.6 relative to EMMA 0.9.5 The maintainer of this release is Bert Vincent, bert@bic.mni.mcgill.ca ------------------------------ EMMA 0.9.4 20 October, 1997 ------------------------------ Welcome to EMMA! ================ EMMA is a MATLAB package developed at the McConnell Brain Imaging Centre (BIC) of the Montreal Neurological Institute, created to allow MATLAB programmers to develop medical image analysis applications quickly and interactively. Previously this development was done at the BIC with FORTRAN on a VAX. In spite of the inherent loss of speed due to using an interpreted language, the reduced time and complexity of development offer a significant advantage. (In fact, MATLAB code written to carefully take advantage of MATLAB's vectorized nature can compete with code written in compiled languages. Of course, it doesn't hurt that today's Unix workstations are a heck of a lot faster than yesterday's VAXen.) Release 0.9.4 is mostly a bug-fix release; see the CHANGES file for details. Several of those bugs only revealed themselves when we tested EMMA under MATLAB 5, though, so this release has the distinction of being the first to compile and run under both MATLAB 4 and 5. The acronym EMMA stands for whatever you want it to stand for. Current favourites include: EMMA Makes MATLAB Acceptable EMMA: MATLAB and MINC Arguing Elbowing MATLAB and MINC into Agreement Everyone's Memory Munching Alternative Effortlessly Making MINC Accessible In a nutshell: it makes quantitative analysis of medical image data in MINC files readily accessible to MATLAB programmers. Components ---------- EMMA consists of: 1) MATLAB scripts. These do not need to be compiled. 2) CMEX programs. These are dynamically loaded by MATLAB when they are called, and must be compiled. You will need the cmex script supplied with MATLAB, as well as the MINC and NetCDF libraries. You should have obtained these libraries along with EMMA; if not, they are available by anonymous ftp from ftp.bic.mni.mcgill.ca, in /pub/minc. 3) Stand-alone C programs. These require both the MINC and netCDF libraries. 4) LaTeX documentation. Figures are included using the widely available psfig package. PostScript versions of the documentation are included in case you don't have LaTeX. Building -------- To build EMMA (after unpacking the archive): 1) Edit Makefile.site for various site-dependent parameters. These include the architecture type, the directories where MATLAB, MINC, and NetCDF are installed, and the directories to which EMMA will be installed. Be sure to read the comments in Makefile.site carefully. 2) Take a look in the Makefile for your architecture (one of Makefile.irix4, Makefile.irix5, Makefile.sun4, and Makefile.linux), and ensure that the compiler and compiler flags are reasonable. (The C compiler used must be ANSI compliant, hence the default for SunOS is 'gcc'. You might prefer to use 'acc' if you have it.) 3) Type "make". If your architecture is not supported by EMMA, don't despair -- all you have to do is create a Makefile fragment named after your architecture, using one of the existing machine-specific Makefiles as a model. If you have to do create a new machine-specific Makefile fragment, please let us know -- we want EMMA to be readily usable on as many Unix-like platforms as possible, and including your new Makefile in future EMMA distributions will help. Installation ------------ 1) Type "make install". (Note that you must have already edited Makefile.site to set the destination directories.) All MATLAB files (.m and CMEX) will be copied to a specified directory (MATLAB_INSTALL_DIR), the standalone binaries will be copied to a different directory (BIN_INSTALL_DIR), and the documentation (in PostScript form) to a third directory (DOC_INSTALL_DIR). Assuming that MATLAB is installed under /usr/local/matlab (this can be changed in Makefile.site), then EMMA will by default be installed to /usr/local/matlab/toolbox/emma. You will have to modify the MATLAB path to search this directory; this can be done for an individual user by setting the MATLABPATH environment variable, i.e. add setenv MATLABPATH /usr/local/matlab/toolbox/emma to your .cshrc file (or equivalent to your .profile, if you're a sh/zsh/bash/ksh type of person). To make a system-wide modification, add the line path (path, '/usr/local/matlab/toolbox/emma'); to the system matlabrc.m file. (This file lives in toolbox/local under the root MATLAB directory.) (Of course, you could also set MATLABPATH for all users, or you could put a 'path' statement in your personal startup.m file. Take your pick.) The binary executables should be somewhere in your default search path. Therefore, the default is to put them in /usr/local/bin; you could give them their own directory, but you'd have to ensure that they are on the system search path ($PATH, not MATLAB's search path) whenever EMMA is used. The documentation files can go wherever you normally put documentation files. We provide the original LaTeX source files, DVI files, and PostScript(tm) output files. Between all these options, you should have some way of printing out the final documentation. We are currently working on an interactive HTML (Hyper Text Markup Language) version of the documentation suitable for browsing with a World Wide Web (WWW) client; you should be able to find this documentation at the BIC's web site: http://www.bic.mni.mcgill.ca/ Bug Reports ----------- EMMA is fairly mature at this point (even though it's still not at release 1.0), but we make no guarantees that it's free of bugs. If you think you have found a bug, we very much want to hear about it. (Even if you haven't found a bug, it may be that the documentation isn't clear or is erroneous; this is considered a documentation bug, and will be dealt with accordingly.) The current maintainer of EMMA is Greg Ward; he can be reached at: E-mail: greg@bic.mni.mcgill.ca Snail-mail: McConnell Brain Imaging Centre McGill University 3801 University Street Montreal, Quebec H3A 2B4 Canada Authors & Acknowledgements -------------------------- The authors of EMMA are: Mark Wolforth Greg Ward EMMA started as a summer project back in 1993, when both of us were undergraduates (Mark in electrical engineering, Greg in physics). It has undergone continued maintenance throughout our years of graduate school (biomedical engineering and computer science, respectively), and has been in constant use at the BIC for the last four years. We would like to thank Sean Marrett for being the driving force behind this project. He provided invaluable guidance when all seemed lost. We would also like to thank Brad Beattie from Memorial Sloan-Ketering Cancer Center, who was the first to suffer the installation process, and gave many important pointers to where we had gone wrong. Copyright Notice and Disclaimer ------------------------------- Copyright (c) 1993-97 Mark Wolforth and Greg Ward, McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University. Permission to use, copy, modify, and distribute this software and its documentation for any purpose and without fee is hereby granted, provided that the above copyright notice appear in all copies. The authors and McGill University make no representations about the suitability of this software for any purpose. It is provided "as is" without express or implied warranty.

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