• Uncompress the package, enter into the folder and run

./install --prefix=/home/usr/share

• For Ubuntu server, you may need to add en_GB into system ( ref)

sudo locale-gen en_GB
#sudo update-locale  # this line may not be required

• On rabi; 1UBQ; phenix.fmodel
  • fft: 3.3s (time phenix.fmodel 1UBQ.pdb 1ubq-sf.mtz format=cns algorithm=fft file_name=fft.hkl)
  • direct: 5.1s (time phenix.fmodel 1UBQ.pdb 1ubq-sf.mtz format=cns algorithm=direct file_name=direct.hk)

• openopt: just link /home/yxue/codelib/pypkg/openopt to /home/usr/share/phenix-1.12-2829/base/lib/python2.7/site-packages
• scipy (note: build-in numpy is 1.81, higher version of scipy is not recommended)

cd /home/usr/share/phenix-1.12-2829/base/bin
phenix.python ./pip install scipy==0.14.1

• Glossary of X-ray Crystallography
• http://www.ccp4.ac.uk/ccp4bin/viewcvs/cctbx/cctbx_sources/iotbx/iotbx/mtz/Attic/writer.py?rev=1.1.1.1&content-type=text/vnd.viewcvs-markup