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https://fedorahosted.org/freeipa/ticket/1922 gidNumber is not an allowed attribute for a non-posix group. When adding a non-posix group from the UI, unchecking the "Is this a POSIX group?:" box should disable the "GID:" field.
Ground rules on adding new schema Brand new schema, particularly when written specifically for IPA, should be added in share/*.ldif. Any new files need to be explicitly loaded in ipaserver/install/dsinstance.py. These simply get copied directly into the new instance schema directory. Existing schema (e.g. in an LDAP draft) may either be added as a separate ldif in share or as an update in the updates directory. The advantage of adding the schema as an update is if 389-ds ever adds the schema then the installation won't fail due to existing schema failing to load during bootstrap. If the new schema requires a new container then this should be added to install/bootstrap-template.ldif.