HyeongSik Kim
HyeongSik Kim
This patch is for resolving [the issue](https://github.com/owlcollab/owltools/issues/253), i.e. the previous codes did not deep-copy all relevant ontologies in the manager, which leads to producing incorrect label and missing biological processes...
I added additional codes for generating regulation-only/strict closures in owltools, as requested in [this issue](https://github.com/owlcollab/owltools/issues/241). I also slightly extended the testcase to confirm that closures are generated in the resulting...
Suppose that we have the following owl snippet. ~~~~ d6 hereditary diffuse gastric cancer ~~~~ When I parse the above snippet using obograph and request the list of nodes from...
I realized that somehow [Meta](https://github.com/geneontology/obographs/blob/master/src/main/java/org/geneontology/obographs/model/Meta.java) class does not provide a getter method for the field `deprecated`. Are there any other ways to figure out whether a specific node is deprecated?...
Hello @caufieldjh @cmungall, I'd like to reproduce the recipe-all-merged.owl shown in the readme file, i.e. OWL output: [recipe-all-merged.owl](https://github.com/monarch-initiative/ontogpt/blob/main/tests/output/owl/merged/recipe-all-merged.owl), but I am experiencing some problems. I first got your codes from...
Hello @cmungall, I was able to install ontogpt after adjusting dependencies using poetry. I was trying to run the example your readme, i.e. ``` kih1pal@SYV-C-0001Y:~/ontogpt$ poetry run ontogpt extract -t...
* This pull request was made to cover [this issue](https://github.com/monarch-initiative/kboom/issues/1). To avoid empty return values from getFragment, I added curieUtil (https://github.com/prefixcommons/curie-util) to properly extract and return prefixes from IRIs. *...