In each example, there are two ways to get the validated mmCIF file. 

1,  The first method:

One way is to use test.sh which is a full unix command line for the 
pdb_extract program. Please see the documentation from directory for details.
pdb-extract-v1.4-prod/pdb-extract-v1.2/doc.

pdb_extract    is for obtaining all the information from structure solution.
pdb_extract_sf is for obtaining all the reflections.
validation-v8  is used for validation of structure.
maxit-v8.01-O  is used to translate the mmCIF file to the standard form for
               deposition


2,  The second method:

Another way (easier) is to use test_script.sh which combines the two programs 
(pdb_extract and pdb_extract_sf) together. The user needs to fill in the 
script input file "pdb_extract.inp" which can be generated by using the
command  "extract -pdb  pdb_file_name" or "extract -cif  cif_file_name".

The two files  test.sh and test_script.sh are in each Example directory.
The input files are in  Example_?/input_data
The mmCIF files for deposition are in Example_?/deposit/
The validation files  are in Example_?/validation_result/

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Example_1: MAD experiment:
Mad phasing CNS; density modification CNS; structure refinement CNS:

Example_2: MAD experiment:
Mad phasing MLPHARE; density modification DM; structure refinement REFMAC5:

Example_3: MR experiment:
Molecular replacement  AMORE;  structure refinement CNS:

Example_4: MAD experiment:
Mad phasing SOLVE; density modification RESOLVE; structure refinement REFMAC5:

Example_5: MAD experiment:
Mad phasing SOLVE; density modification RESOLVE; structure refinement CNS:
