It appears that the combination of the latest (6.1.3) CCP4 and the latest (1.6) Phenix will cause problems for pointless. This will exhibit itself in xia2 as:
Status: error "no element found: line 27, column 0"
as a result of pointless having an error like:
/scratch/xtal/ccp4/ccp4-6.1.3/bin/pointless: symbol lookup error: /scratch/xtal/ccp4/ccp4-6.1.3/bin/pointless: undefined symbol: _ZNK5cctbx5sgtbx16space_group_type13lookup_symbolEv
I found installing a CCTBX from cctbx.sf.net made the problem "go away", but I have no idea why. Investigating!
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