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ABOUT
This is a java implementation of
* A parser for OBOF1.4 syntax
* An implementation of the OBOF1.4 mapping to OWL (uses the OWLAPI)
GETTING THE CODE
For now there are no releases; get the code via svn:
svn checkout http://oboformat.googlecode.com/svn/trunk/ oboformat-read-only
RUNNING THE CONVERTER ON THE COMMAND LINE:
You may find it helpful to add the bin dir to your path:
export PATH="$PATH:$HOME/oboformat-read-only/bin"
Convert a file like this:
obolib-obo2owl cell.obo [--to owlxml|manchester] -o FILE-PATH
You have to specify the file path as a URL; e.g
obolib-obo2owl cell.obo -o file:///Users/me/cell.owl
You may find it convenient to do this:
obolib-obo2owl cell.obo -o file://`pwd`/cell.owl
Alternative syntaxes like this:
obolib-obo2owl cell.obo --to manchester -o file://`pwd`/cell.owl
Windows users can run the obo2owl as:
bin\obolib-obo2owl.bat -o test_resources\caro.owl test_resources\caro.obo
LIMITATIONS
See
http://code.google.com/p/oboformat/issues/list
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