When running makeOrgPackageFromNCBI from AnnotationForge, I received an error message saying 'Unexpected format to the list of available marts'. I browsed to the provided URL and find a page that starts with '<martregistry>' with more information below:
<martregistry> <marturllocation database="ensembl_mart_99" default="1" displayname="Ensembl Genes 99" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_ENSEMBL" path="/biomart/martservice" port="80" servervirtualschema="default" visible="1"/> <marturllocation database="mouse_mart_99" default="" displayname="Mouse strains 99" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_MOUSE" path="/biomart/martservice" port="80" servervirtualschema="default" visible="1"/> <marturllocation database="sequence_mart_99" default="" displayname="Sequence" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_SEQUENCE" path="/biomart/martservice" port="80" servervirtualschema="default" visible=""/> <marturllocation database="ontology_mart_99" default="" displayname="Ontology" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_ONTOLOGY" path="/biomart/martservice" port="80" servervirtualschema="default" visible=""/> <marturllocation database="genomic_features_mart_99" default="" displayname="Genomic features 99" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_GENOMIC" path="/biomart/martservice" port="80" servervirtualschema="default" visible=""/> <marturllocation database="snp_mart_99" default="" displayname="Ensembl Variation 99" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_SNP" path="/biomart/martservice" port="80" servervirtualschema="default" visible="1"/> <marturllocation database="regulation_mart_99" default="" displayname="Ensembl Regulation 99" host="www.ensembl.org" includedatasets="" martuser="" name="ENSEMBL_MART_FUNCGEN" path="/biomart/martservice" port="80" servervirtualschema="default" visible="1"/> </martregistry>
Can anyone help? Thank you!