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oboformat/oboformat-tools
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ABOUT This is a wrapper for the Java (OWL-API) implementation of * A parser for OBOF1.4 syntax * An implementation of the OBOF1.4 mapping to OWL (uses the OWLAPI) Originally the project was a stand-alone Java project on googlecode. The main code to load, write and convert OBO to OWL is now part of the OWL-API (version 3.5.x and later). GETTING THE CODE git clone https://github.com/oboformat/oboformat-tools.git BUILDING THE PROJECT mvn clean package This maven command will create/update the required jar files to run the converter.. 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-tools/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 ISSUE TRACKER See github issue tracker for the project https://github.com/oboformat/oboformat-tools
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ARCHIVED: this has been folded into the owlapi
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