cctbx multi-platform build 2006_07_05

Build tag: 2006_07_05_2228

Self-extracting binary distributions

cctbx+Python bundles are larger but completely self-contained.
cctbx only bundles use the Python that ships with the OS or require that a matching Python version is installed separately.
Use [stream] if your browser displays the [direct] download in a text window instead of saving it to a file.
Use cctbx.python to run scripts. The plain python command is not longer supported to avoid confusion with the Python version provided by some operating systems.

Platform	cctbx+Python	cctbx only
Fedora Core 3 (x86_64) Python 2.4.3	[stream][direct] 23.3 MB	[stream][direct] 12.4 MB
Fedora Core 3 Python 2.4.3	[stream][direct] 22.4 MB	[stream][direct] 12.0 MB
Fedora Core 4 Python 2.4.3	[stream][direct] 22.7 MB	[stream][direct] 11.5 MB
Fedora Core 5 (x86_64) Python 2.4.3	[stream][direct] 23.5 MB	[stream][direct] 11.6 MB
IRIX 6.5.10 MIPSpro 7.3.1.2 Python 2.4.3	[stream][direct] 33.0 MB	[stream][direct] 23.9 MB
IRIX 6.5.21 MIPSpro 7.41 Python 2.4.3	[stream][direct] 32.4 MB	[stream][direct] 23.4 MB
Mac OS 10.2.8 [Notes] Python 2.3	Python 2.3 must be installed separately	[stream][direct] 16.7 MB
Mac OS 10.3.9 [Notes]	Python 2.3 ships with OS	[stream][direct] 18.2 MB
Red Hat 7.3 Python 2.4.3	[stream][direct] 30.8 MB	[stream][direct] 19.0 MB
Red Hat 8.0 Python 2.4.3	[stream][direct] 24.2 MB	[stream][direct] 11.4 MB
Red Hat 9.0	Python 2.2.2 ships with OS	[stream][direct] 11.4 MB
Red Hat 9.0 Python 2.4.3	[stream][direct] 24.1 MB	[stream][direct] 11.4 MB
Red Hat AS 4.2 (32-bit) (x86_64) Python 2.4.3	[stream][direct] 23.4 MB	[stream][direct] 12.0 MB
Red Hat WS 3	Python 2.2.3 ships with OS	[stream][direct] 11.5 MB
Red Hat WS 3 (x86_64) Python 2.4.3	[stream][direct] 22.7 MB	[stream][direct] 12.1 MB
Red Hat WS 3 Python 2.4.3	[stream][direct] 21.6 MB	[stream][direct] 11.5 MB
SuSE 9.2 (x86_64) Python 2.4.3	[stream][direct] 25.2 MB	[stream][direct] 12.7 MB
Compaq Tru64 V5.1 cxx V6.5-042 Python 2.4.3	[stream][direct] 30.2 MB	[stream][direct] 21.4 MB
Compaq Tru64 V5.1 cxx V7.1-006 Python 2.4.3	[stream][direct] 30.8 MB	[stream][direct] 22.6 MB
Windows 2000/XP Visual C++ 7.1 Python 2.4.3	[stream][direct] 13.8 MB	[stream][direct] 7.4 MB
Windows 2000/XP Visual C++ 8.0 Python 2.4.3	[stream][direct] 14.6 MB	[stream][direct] 8.2 MB

[Other platforms]

Download the self-extracting binary distribution for your platform to any new, empty directory. Under Unix selfx bundles are installed with the perl command (which is available by default on all supported platforms), for example:

    perl cctbx_redhat80.selfx

Under Windows exe distributions are installed simply by running them.

The installer must be run on the platform where it is used. The installed package may be used over the network, but only if the pathnames to the installation directory are identical on the server and the client.

Uninstalling a bundle is as easy as using rm -rf * in the installation directory under Unix or dragging the installation directory to the Recycle Bin under Windows. The Windows registry is not modified by the installation.

[Installation overview]

Attention macromolecular users

Some functions of the mmtbx module require the CCP4 Monomer Library (Vagin, A.A., Steiner, R.A., Lebedev, A.A., Potterton, L., McNicholas, S., Long, F. & Murshudov, G.N. (2004). Acta Cryst. D60, 2184-2195) which is not included in any of the bundles advertised at this page. To add the CCP4 Monomer Library to a cctbx installation, download this file:

http://cci.lbl.gov/cctbx_downloads/ccp4_mon_lib.tar.gz

Run this command to unpack the Monomer Library in the cctbx_sources directory (Unix only):

    libtbx.unpack_in_sources ccp4_mon_lib.tar.gz

After this the ccp4_mon_lib.tar.gz file is no longer needed and may be deleted.

To test the installation, run this command:

    mmtbx.pdb_interpretation your.pdb

were your.pdb is any available PDB file.

Note: to enable the libtbx.unpack_in_sources and mmtbx.pdb_interpretation commands you have to source one of the setpaths scripts as indicated at the end of the cctbx installation (e.g. source setpaths.csh for csh users).

Self-extracting cctbx and Python 2.4.3 sources for Unix

cctbx_python_243_bundle.selfx [stream][direct]
28.0 MB

Download the file and run the following command in any new, empty directory:

    perl cctbx_python_243_bundle.selfx

This installs Python 2.4.3 and all cctbx modules from scratch.

The install script will prompt for the number of available CPUs. To avoid the prompt (e.g. for scripting the installation), add the number of available CPUs to the command line. E.g.:

    perl cctbx_python_243_bundle.selfx 4

Alternative for manual installation:
cctbx_python_243_bundle.tar.gz [stream][direct]
28.0 MB
[Installation instructions]

Self-extracting cctbx sources for Unix

cctbx_bundle.selfx [stream][direct]
18.9 MB

Download the file and run the following command in any new, empty directory:

    perl cctbx_bundle.selfx

This installs all cctbx modules from scratch. Python 2.2.1 or higher must be pre-installed on the target machine. Known to work under Redhat 8.0 or higher with the Python version that ships with the operating system (/usr/bin/python). The first python on PATH is used. To install with a different, specific python, add the full path to the command line, e.g.:

    perl cctbx_bundle.selfx /usr/local/bin/python

Alternative for manual installation:
cctbx_bundle.tar.gz [stream][direct]
18.9 MB
[Installation instructions]

Self-extracting cctbx sources for Windows

cctbx_bundle.exe [stream][direct]
27.4 MB

Execute this file in any new, empty directory to unpack the sources required for compiling all cctbx modules from scratch.
[Installation instructions]

Changes

This build was used for phenix release 1.24.1b (2006 Jul 05)

Sorry, we didn't keep track of many changes. Please visit

  https://lists.sourceforge.net/lists/listinfo/cctbx-cvs

to see the full change logs.

iotbx.mtz:
  additional in-place manipulations:
    crystal::set_name(), set_project_name()
    dataset::set_name(), set_wavelength()
    column::set_label(), set_type()

iotbx:
  write a test ADSC-format image with arbitrary data

iotbx.pdb:
  - new C++ parser

iotbx.reflection_statistics improvements
  - enumeration of equivalent twin laws, reindexing matrices
    to find & display the best choice
  - clear indication of how reindexing matrices are to be used
  - new --lattice_symmetry_max_delta option

iotbx.scalepack:
  bug fix scalepack no_merge_original_index: the centring type
  of the space group was not correctly accounted for before

cctbx.xray:
  - new class refinement_flags
  - new attribute scatterer.refinement_flags

cctbx.sgtbx.direct_space_asu:
  - bug fix: reference_table.asu_096():
      Previously the asu was in an incorrect setting. However, the
      volume was correct anyway, only the sub-conditions for facets,
      edges and points were incorrect.

scitbx.math:
  - new r3_rotation_axis_and_angle_as_matrix
  - new r3_rotation_axis_and_angle_from_matrix

libtbx:
  - HP-UX11i support (native aCC compiler)

Transition to Python-2.4.3

Boost CVS 2006_06_11_2253
SCons CVS 2006_05_26_2213