*GAF Parser Summary* There are 28958 GAF parser warnings. *GAF summary* Found 1683480 annotations in 1683488 lines. *GAF Validation Summary* Errors are reported first. For rule GO_AR:0000001 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000001) Basic GAF checks, there are 249291 violations with type Error. For rule GO_AR:0000014 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000014) Valid GO term ID, there are 222 violations with type Error. For rule GO_AR:0000003 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000003) Annotations to 'binding ; GO:0005488' and 'protein binding ; GO:0005515' should be made with IPI and an interactor in the 'with' field, there are 170 violations with type Warning. For rule GO_AR:0000008 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000008) No annotations should be made to uninformative high level terms, there are 7430 violations with type Warning. For rule GO_AR:0000013 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000013) Taxon-appropriate annotation check, there are 52812 violations with type Warning. For rule GO_AR:0000014 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000014) Valid GO term ID, there are 18283 violations with type Warning. *GAF Prediction Summary* Found 92599 predictions, see prediction file for details. *Used Ontology Summary* go/extensions/go-gaf