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EMBOSS FAQ (Frequently Asked Questions)
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Q) Is there a quick guide?
A) A revised version is now available incorporating many of the suggestions
I have had. In order to get everything on I have shrunk the text to 9pt
(sorry, no free magnifying glasses) and also prepared a postscript
version.
ftp://ftp.no.embnet.org/embnet/tutorials/EMBOSS_QG.ps (Postscript file)
ftp://ftp.no.embnet.org/embnet/tutorials/EMBOSS_QG.doc (Word 97 format)
Q) Is there a table of substitutes for GCG programs?
A)
http://www.no.embnet.org/FromGCG.html
Q) Is there a reference I can cite for EMBOSS?
A) Rice,P. Longden,I. and Bleasby,A.
"EMBOSS: The European Molecular Biology Open Software Suite"
Trends in Genetics June 2000, vol 16, No 6. pp.276-277
Q) How do I compile EMBOSS?
A) Make sure you have the latest code and if you have compiled before
try the following:-
rm config.cache (if that file exists)
make clean
./configure
make
If this is the first time trying to compile all you need to do is:-
./configure
make
The above will produce the EMBOSS programs in the 'emboss'
subdirectory and you can set your PATH variable to point there.
This method is suitable for EMBOSS developers.
For system-wide installations we recommend installing the
EMBOSS programs into a different directory to the source
code (e.g. in the directory tree /usr/local/emboss). To do
this type [e.g.]:
./configure --prefix=/usr/local/emboss
make [to make sure there are no errors, then]
make install [if there are no errors]
You should then add [e.g.] /usr/local/emboss/bin to your PATH
variable [e.g.]
set path=(/usr/local/emboss/bin $path) [csh/tcsh shells]
export PATH="$PATH /usr/local/emboss/bin" [sh/bash shells]
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