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This tutorial assumes that someone else has already installed the MORGAN software somewhere. If not, please contact your local system administrator or download the software yourself and follow the instructions therein. Overview of MORGAN.
Follow the following steps to download and set up the examples:
user$ tar zxvf morgan-examples.tar.gz |
Or if the above command fails (you don't have GNU tar), use
user$ gunzip -c morgan-examples.tar.gz | tar xvf - |
This will produce a `morgan-examples' directory under your current directory.
vi
or pico
) in the
`morgan-examples' directory to make sure the paths to your
MORGAN programs are correct.
Here is the relevant part of the `Makefile',
# Change the following macros to where MORGAN is installed on your # system!!! MORGANDIR = /castor/genepi/MORGAN_V2.6 # ===== Usually not necessary to edit these ====== LMAUTO = $(MORGANDIR)/Autozyg/lm_auto LMPVAL = $(MORGANDIR)/Autozyg/lm_pval LMLODS = $(MORGANDIR)/Autozyg/lm_lods LMBAYE = $(MORGANDIR)/Autozyg/lm_bayes LMMRKS = $(MORGANDIR)/Autozyg/lm_markers PEDCHK = $(MORGANDIR)/PedComp/pedcheck KIN = $(MORGANDIR)/PedComp/kin GENDRP = $(MORGANDIR)/Genedrop/genedrop IBDDRP = $(MORGANDIR)/Genedrop/ibddrop MULVAR = $(MORGANDIR)/PolyEM/multivar RM = rm -f # ===== No editing necessary below. ====== |
Change MORGANDIR
to the base directory of MORGAN installed on
your system. Ordinarily this is the only change one needs to make to
run the tutorials.
By default, the compiled executable programs are in various
subdirectories of the base directory. Programs can be run using make
or gmake
.
You may type:
make help |
make links (on Linux) make linka (on Unix) |
Notes for Microsoft Windows users:
Windows users should download the examples and download and install Morgan 2.6 the usual way. Then, move the executable programs to the examples directory.
Please note that MORGAN programs are command-line based tools, meaning that there is no icon to click and you need to make yourself comfortable with working in the "Command Window" (called up by pressing the Windows key and R together, typing in cmd and then pressing return).
`Makefile' is not as useful under Windows. However, if you put the programs into the same directory as the examples, you can run the programs directly by typing the corresponding commands in the examples directory.
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