The reference catalogs supplied with the twinkles data I have are in the a.net format, and do not contain flux errors. When we update them to the new style format, we should also add flux errors of some sort, so that they can be used with jointcal's new photometry system.
Update: after much thought and discussion, we decided that the twinkles1 jointcal testdata no longer serves a useful purpose, and is holding us up from removing a.net refcats and obs_lsstSim. Instead of trying to update the included refcat (the HTM indexed version that krughoff found was not a drop in replacement), I'm going to delete the twinkles data and tests all together. We'll be getting some DC2 data built on obs_lsst soon enough, and we will have to write entirely new tests for that anyway.