/cctbx_sources/cbflib/README

                                     CBFlib

                                     README

            Information for CBFlib 0.9.2 release of 12 February 2011
             revised as the CBFlib 0.9.2.1 release of 20 June 2011
              revised as the CBFlib 0.9.2.2 release of 2 July 2011
              revised as the CBFlib 0.9.2.3 release of 9 July 2011
            revised as the CBFlib 0.9.2.4 release of 1 January 2012

                                       by
                                 Paul J. Ellis
                   Stanford Synchrotron Radiation Laboratory

                                      and
                              Herbert J. Bernstein
                                Bernstein + Sons
                      yaya at bernstein-plus-sons dot com

                (c) Copyright 2006 -- 2012 Herbert J. Bernstein

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      YOU MAY REDISTRIBUTE THE CBFLIB PACKAGE UNDER THE TERMS OF THE GPL.

    ALTERNATIVELY YOU MAY REDISTRIBUTE THE CBFLIB API UNDER THE TERMS OF THE
                                     LGPL.

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                  Before using this software, please read the
                                     NOTICE
for important disclaimers and the IUCr Policy on the Use of the Crystallographic
            Information File (CIF) and other important information.

   Work on imgCIF and CBFlib supported in part by the U. S. Department of
   Energy (DOE) under grants ER63601-1021466-0009501 and
   ER64212-1027708-0011962, by the U. S. National Science Foundation (NSF)
   under grants DBI-0610407, DBI-0315281 and EF-0312612, the U. S. National
   Institutes of Health (NIH) under grants 1R15GM078077 from NIGMS and
   1R13RR023192 from NCRR and funding from the International Union for
   Crystallography (IUCr). The content is solely the responsibility of the
   authors and does not necessarily represent the official views of DOE, NSF,
   NIH, NIGMS, NCRR or IUCr.

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   CBFlib 0.9.2.4 is a minor revision to the CBFlib 0.9.2.3 release to
   support tiff2cbf for short in tiffs and to fix problems with 64 bit long
   integers uncovered on Mac OSX 10.6 and 10.7 for 64 compilers.

   CBFlib 0.9.2.3 is a minor revision to the CBFlib 0.9.2.2 release to allow
   use of NO_CBF_REGEX to suppress use of regex for convenience in doing
   visual studio builds for cctbx as requested by Ralf Ralf Grosse-Kunstleve
   for cctbx builds.

   CBFlib 0.9.2.2 is a minor revision to the CBFlib 0.9.2.1 release in July
   2011 to update doc/cif_img.dic to the 1.6.4 revision.

   CBFlib 0.9.2.1 is a minor revision to the CBFlib 0.9.2 release in June
   2011 to upgrade the setup script for the pycbf Python bindings to simplify
   using pycbf outside the context of the CBFlib pycbf directory.

   CBFlib 0.9.2 is the recommended release of CBFlib of February 2011. The
   commulative changes in releases 0.9.1 and 0.9.2 since CBFlib 0.9.0 are:
     * Temporary removal of default PyCifRW support for compliance with
       Fedora license requirements.
     * Addition of a new tiff2cbf example program.
     * Update pycbf python wraapper for CBFlib.
     * Padding options added to adscimg2cbf by C. Nielsen.
     * System and gnu versions of getopt replaced by cbf_getopt.
     * Code to handle CIF2 bracketed constructs and quoted strings added.
     * System to log errors and warnings added.
     * Java wrapper by Peter Chang added.
     * Dectris template code by E. Eikenberry added.

   CBFlib 0.9.1 included a correction to CBFlib 0.9.0 to make axis the
   cbf_simple routines apply axis rotations correctly for detectors and to
   pick up corrections for byte offet compression incorporated into the
   upcoming CBFlib 0.9.1 release. The earlier version had failed to apply the
   rotations to the accumulated displacements. Our thanks to Joerg Kaercher
   of Bruker-AXS for identifying the rotation problem.

   CBFlib 0.9.0 was a partial pre-release of CBFlib version 0.8 needed to
   support changes in RasMol. This release was incomplete and used were
   advided to use it with caution, but it has proven to be a reliable, stable
   release for 2 years. There have been significant changes in the
   input/output logic and in validation. For a ChangeLog consult the SVN of
   the CBFlib project on sourceforge.

   CBFLIB is a library of ANSI-C functions providing a simple mechanism for
   accessing Crystallographic Binary Files (CBF files) and Image-supporting
   CIF (imgCIF) files. The CBFLIB API is loosely based on the CIFPARSE API
   for mmCIF files. Starting with this release, CBFLIB performs validation
   checks on reading of a CBF. If a dictionary is provided, values will be
   validated against dictionary ranges and enumerations. Tags missing under
   parent-child relationships or category key requirements will be reported.
   CBFlib provides functions to create, read, modify and write CBF binary
   data files and imgCIF ASCII data files.

  Installation

   CBFLIB should be built on a disk with at least 350 megabytes of free
   space, for a full installation with complete tests. Read the instructions
   below carefully, if space is a problem.

   A gizpped tarball of this release is available on sourceforge at

   http://downloads.sf.net/cbflib/CBFlib-0.9.2.4.tar.gz

   In addition,
   http://downloads.sf.net/cbflib/CBFlib_0.9.2_Data_Files_Input.tar.gz (13
   MB) is a "gzipped" tar of the input data files needed to test the API,
   http://downloads.sf.net/cbflib/CBFlib_0.9.2_Data_Files_Output.tar.gz (34
   MB) is a "gzipped" tar of the output data files needed to test the API,
   and, if space is at a premium,
   http://downloads.sf.net/cbflib/CBFlib_0.9.2_Data_Files_Output_Sigs_Only.tar.gz
   (1KB) is a "gzipped" tar of only the MD5 signatures of the output data
   files needed to test the API. Place the CBFlib_0.9.2.4.tar.gz file in the
   directory that is intended to contain up to 4 new directories, named
   CBFlib_0.9.2.4 (the "top-level" directory), CBFlib_0.9.2_Data_Files_Input
   and either CBFlib_0.9.2_Data_Files_Output or
   CBFlib_0.9.2_Data_Files_Output_Sigs_Only. If you have wget on your
   machine, you only need to download the source tarball. If you do not have
   wget, you will need to download all the tarballs into the same directory

   Uncompress CBFlib_0.9.2.4.tar.gz with gunzip and unpack it with tar:

      gunzip CBFlib_0.9.2.4.tar.gz
      tar xvf CBFLIB_0.9.2.4.tar

   To run the test programs, you will also need Paul Ellis's sample MAR345
   image, example.mar2300, Chris Nielsen's sample ADSC Quantum 315 image,
   mb_LP_1_001.img, and Eric Eikenberry's SLS sample Pilatus 6m image,
   insulin_pilatus6m, as sample data. In addition there are is a PDB mmCIF
   file, 9ins.cif, and 3 special test files testflatin.cbf,
   testflatpackedin.cbf and testrealin.cbf. All these files will be dowloaded
   and extracted by the Makefile from CBFlib_0.9.2_Data_Files_Input. Do not
   download copies into the top level directory.

   After unpacking the archives, the top-level directory should contain a
   makefile:

                           Makefile   Makefile for unix 

   and the subdirectories:

     src/           CBFLIB source files                                       
     include/       CBFLIB header files                                       
                                                                              
     bin/           Executable example programs                               
     doc/           Documentation                                             
     examples/      Example program source files                              
     html_images/   JPEG images used in rendering the HTML files              
     lib/           Compiled CBFLIB (libcbf.a) and FCBLIB (libfcb.a)          
                  libraries                                                   
     m4/            CBFLIB m4 macro files (used to build .f90 files)          
     mswin/         An MS Windows CodeWarrior project file                    
     pycbf/         Jon Wright's Python bindings                              

   and additional Makefiles for other systems. All the makefiles are created
   from m4/Makefile.m4. Edit the closest approximation to your system, and
   then copy that variant to Makefile.

   For instructions on compiling and testing the library, go to the top-level
   directory and type:

      make

   Once you have a properly configure Makefile, compile and test the package
   with

      make tests

   or, if space is at a premium, with

      make tests_sigs_only

   Please refer to the manual doc/CBFlib.html for more detailed information.

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   Updated 1 January 2012.  yaya at bernstein-plus-sons dot com