Debian 13 (Trixie) native package

python3-cctbx

Python Toolbox for crystallography

Packages / Debian 13 (Trixie) / python / python3-cctbx

[Source: cctbx]

Package: python3-cctbx (2024.10+ds2+~3.22.1+ds1-5)

Maintainers:

Debian Science Maintainers

External Resources:

Homepage: [github.com]

Similar packages:

[libcctbx0]
Computational Crystallography Toolbox - runtime libraries
[libcctbx-dev]
Computational Crystallography Toolbox - headers

Python Toolbox for crystallography

Other Packages Related to python3-cctbx:

dep: [ca-certificates]
Common CA certificates
dep: [libcctbx-dev] (= 2024.10+ds2+~3.22.1+ds1-5)
Computational Crystallography Toolbox - headers
dep: [libcctbx0] (= 2024.10+ds2+~3.22.1+ds1-5)
Computational Crystallography Toolbox - runtime libraries
dep: [python3-legacy-cgi]
fork of the standard library cgi and cgitb modules
dep: [python3-pycbf] (>= 0.9.7+dfsg1-2~)
Python modules for CBFLib -- Python3
dep: [python3] (<< 3.14)
interactive high-level object-oriented language (default python3 version)
dep: [python3] (>= 3.13~)
interactive high-level object-oriented language (default python3 version)
dep: [python3-h5py] (>= 3)
general-purpose Python interface to hdf5
dep: [python3-hdf5plugin]
Python library to make HDF5 compression filters usable from h5py
dep: [python3-matplotlib]
Python based plotting system in a style similar to Matlab
dep: [python3-mrcfile]
Python implementation of the MRC2014 file format
dep: [python3-natsort]
Natural sorting for Python (Python3)
dep: [python3-numpy]
Python library for numerical computations (Python 3)
dep: python3-numpy2-abi0
Package not available
dep: python3-numpy-abi9
Package not available
dep: [python3-nxmx]
Read HDF5 data in the NXmx subformat of the NeXus format
dep: [python3-ordered-set]
ordered set implementation for Python 3
dep: [python3-pil]
Python Imaging Library (Python3)
dep: [python3-pint]
define, operate and manipulate physical quantities - Python 3.x
dep: [python3-procrunner]
Versatile utility function to run external processes from Python
dep: [python3-pymol]
Molecular Graphics System (Python 3 modules)
dep: [python3-requests]
elegant and simple HTTP library for Python3, built for human beings
dep: [python3-scipy]
scientific tools for Python 3
dep: [python3-six]
Python 2 and 3 compatibility library
dep: [python3-tqdm]
fast, extensible progress bar for Python 3 and CLI tool
dep: [python3-wxgtk4.0]
Python 3 interface to the wxWidgets Cross-platform C++ GUI toolkit
dep: [python3] [any]
interactive high-level object-oriented language (default python3 version)
dep: [libantlr3c-3.4-0]
ANTLR v3 parser generator C runtime
dep: [libantlr3c-antlrdbg-3.4-0]
ANTLR v3 parser generator C runtime with ANTLR debugger
dep: [libboost-numpy1.83.0] (>= 1.83.0)
Boost.Python NumPy extensions
dep: libboost-numpy1.83.0-py313
Package not available
dep: [libboost-python1.83.0] (>= 1.83.0)
Boost.Python Library
dep: libboost-python1.83.0-py313
Package not available
dep: [libboost-thread1.83.0] (>= 1.83.0)
portable C++ multi-threading
dep: [libboost-timer1.83.0] (>= 1.83.0)
C++ wall clock and CPU process timers
dep: [libc6] (>= 2.38)
GNU C Library: Shared libraries
dep: [libcbf1t64] (>= 0.9.7+dfsg1-2~)
shared library supporting CBFlib
dep: [libccp4c0t64] (>= 8.0.0)
CCP4 core functionality - C runtime
dep: [libgcc-s1] (>= 4.0)
GCC support library
dep: [libgl1]
Vendor neutral GL dispatch library -- legacy GL support
dep: [libglu1-mesa]
Mesa OpenGL utility library (GLU)
dep: libglu1
Package not available
dep: [libhdf5-310] (>= 1.14.3)
HDF5 C runtime files - serial version
dep: [libmmdb2-0] (>= 2.0.22)
macromolecular coordinate library - runtime
dep: [libssm2] (>= 1.4.0)
macromolecular superposition library - runtime
dep: [libstdc++6] (>= 14)
GNU Standard C++ Library v3

Download python3-cctbx

Architecture	Package Size	Installed Size	Files
amd64	36 MiB	279 MiB	[list of files]

Package file paths (5,229)

Showing the first 250 sorted package-associated paths. Use file search to locate a specific path.

/usr/bin/annlib.python
/usr/bin/annlib.show_build_path
/usr/bin/annlib.show_dist_paths
/usr/bin/boost_adaptbx.divide_by_zero
/usr/bin/boost_adaptbx.double_overflow
/usr/bin/boost_adaptbx.inexact
/usr/bin/boost_adaptbx.int_overflow
/usr/bin/boost_adaptbx.nested_cpp_loops_with_check_signals
/usr/bin/boost_adaptbx.segmentation_fault
/usr/bin/boost_adaptbx.show_environ_usage
/usr/bin/boost_adaptbx.show_platform_info
/usr/bin/boost.gcd
/usr/bin/boost.lcm
/usr/bin/boost.python
/usr/bin/boost.show_build_path
/usr/bin/boost.show_dist_paths
/usr/bin/cbf.dump
/usr/bin/cbflib.python
/usr/bin/cbflib.show_build_path
/usr/bin/cbflib.show_dist_paths
/usr/bin/cbflib.tst_memory
/usr/bin/ccp4io.python
/usr/bin/ccp4io.show_build_path
/usr/bin/ccp4io.show_dist_paths
/usr/bin/cctbx_blobs
/usr/bin/cctbx.brehm_diederichs
/usr/bin/cctbx.cod_select_and_pickle
/usr/bin/cctbx.convert_ccp4_symop_lib
/usr/bin/cctbx.data_viewer
/usr/bin/cctbx.eltbx.show_fp_fdp
/usr/bin/cctbx.euclidean_model_matching
/usr/bin/cctbx.find_distances
/usr/bin/cctbx.getting_started
/usr/bin/cctbx.HKLinfo
/usr/bin/cctbx.HKLviewer
/usr/bin/cctbx.image_viewer
/usr/bin/cctbx.lattice_symmetry
/usr/bin/cctbx.loggraph
/usr/bin/cctbx.make_install_HKLviewer_ChimeraX
/usr/bin/cctbx.multiplicity_viewer
/usr/bin/cctbx.patterson_map
/usr/bin/cctbx.plot_anomalous_scattering
/usr/bin/cctbx.precession_view
/usr/bin/cctbx.python
/usr/bin/cctbx_regression.test_nightly
/usr/bin/cctbx.show_build_path
/usr/bin/cctbx.show_dist_paths
/usr/bin/cctbx.show_systematic_absences
/usr/bin/cctbx.space_group_info
/usr/bin/cctbx.structure_factor_timings
/usr/bin/cctbx.subgroups
/usr/bin/cctbx.suitename
/usr/bin/cctbx.suitename_old
/usr/bin/cctbx.sym_equiv_sites
/usr/bin/cctbx.sys_abs_equiv_space_groups
/usr/bin/cctbx.version
/usr/bin/cctbx.visualize_r_factors
/usr/bin/cctbx.wavelength_units
/usr/bin/cctbx.web.install
/usr/bin/cctbx.wxpython
/usr/bin/cma_es.python
/usr/bin/cma_es.show_build_path
/usr/bin/cma_es.show_dist_paths
/usr/bin/crys3d.model_viewer
/usr/bin/crys3d.python
/usr/bin/crys3d.qttbx.view_structure
/usr/bin/crys3d.show_build_path
/usr/bin/crys3d.show_dist_paths
/usr/bin/cxi.image2pickle
/usr/bin/cxi.image_average
/usr/bin/dev.dxtbx.debug_memory
/usr/bin/dev.dxtbx.read_sequence
/usr/bin/distl.find_active_area
/usr/bin/distl.image_viewer
/usr/bin/distl.mp_spotfinder_server_read_file
/usr/bin/distl.signal_strength
/usr/bin/distl.sweep_strength
/usr/bin/distl.thin_client
/usr/bin/dxtbx.any2nexus
/usr/bin/dxtbx.depends_on
/usr/bin/dxtbx.detector_superpose
/usr/bin/dxtbx.display_parallax_correction
/usr/bin/dxtbx.dlsnxs2cbf
/usr/bin/dxtbx.image2pickle
/usr/bin/dxtbx.image_average
/usr/bin/dxtbx.install_format
/usr/bin/dxtbx.overload
/usr/bin/dxtbx.plot_detector_models
/usr/bin/dxtbx.print_header
/usr/bin/dxtbx.print_matching_images
/usr/bin/dxtbx.python
/usr/bin/dxtbx.radial_average
/usr/bin/dxtbx.saturation
/usr/bin/dxtbx.show_build_path
/usr/bin/dxtbx.show_dist_paths
/usr/bin/dxtbx.show_mask_info
/usr/bin/dxtbx.show_matching_formats
/usr/bin/dxtbx.show_registry
/usr/bin/fable.cout
/usr/bin/fable.fem_include_search_paths
/usr/bin/fable.insert_write_at_start_of_each_procedure
/usr/bin/fable.python
/usr/bin/fable.read
/usr/bin/fable.show_build_path
/usr/bin/fable.show_calls
/usr/bin/fable.show_dist_paths
/usr/bin/fable.split
/usr/bin/gltbx.python
/usr/bin/gltbx.show_build_path
/usr/bin/gltbx.show_dist_paths
/usr/bin/gltbx.try_imports
/usr/bin/iotbx.blast_pdb
/usr/bin/iotbx.build_phil_cache
/usr/bin/iotbx.cbf_read
/usr/bin/iotbx.cif.as_miller_arrays
/usr/bin/iotbx.cif_as_mtz
/usr/bin/iotbx.cif_as_pdb
/usr/bin/iotbx.cif.as_xray_structure
/usr/bin/iotbx.cif.validate
/usr/bin/iotbx.cns.reflection_reader
/usr/bin/iotbx.cns.sdb_reader
/usr/bin/iotbx.cns.transfer_crystal_symmetry
/usr/bin/iotbx.crystal_symmetry_from_any
/usr/bin/iotbx.dano_as_amplitudes
/usr/bin/iotbx.distance_least_squares
/usr/bin/iotbx.dtrek.to_cns
/usr/bin/iotbx.emma
/usr/bin/iotbx.export_scalepack_unmerged
/usr/bin/iotbx.fetch_pdb
/usr/bin/iotbx.file_reader
/usr/bin/iotbx.french_wilson
/usr/bin/iotbx.get_pubmed_citation
/usr/bin/iotbx.lattice_symmetry
/usr/bin/iotbx.merging_statistics
/usr/bin/iotbx.mtz.dump
/usr/bin/iotbx.pdb.add_conformations
/usr/bin/iotbx.pdb_as_fasta
/usr/bin/iotbx.pdb.as_xray_structure
/usr/bin/iotbx.pdb.box_around_molecule
/usr/bin/iotbx.pdb.flip_symmetric_amino_acids
/usr/bin/iotbx.pdb.get_citation
/usr/bin/iotbx.pdb.insert_scale_records
/usr/bin/iotbx.pdb.join_fragment_files
/usr/bin/iotbx.pdb_labels_comparison
/usr/bin/iotbx.pdb_labels_diff
/usr/bin/iotbx.pdb.link_as_geometry_restraints_edits
/usr/bin/iotbx.pdb.print_sequence
/usr/bin/iotbx.pdb_remediator
/usr/bin/iotbx.pdb.show_connectivity
/usr/bin/iotbx.pdb.sort_atoms
/usr/bin/iotbx.pdb.split_models
/usr/bin/iotbx.pdb.superpose_atoms_by_name
/usr/bin/iotbx.pdb.superpose_centers_of_mass
/usr/bin/iotbx.phil
/usr/bin/iotbx.poscar_as_xray_structure
/usr/bin/iotbx.python
/usr/bin/iotbx.reflection_file_converter
/usr/bin/iotbx.reflection_file_editor
/usr/bin/iotbx.reflection_file_reader
/usr/bin/iotbx.r_free_flags_accumulation
/usr/bin/iotbx.r_free_flags_as_cns
/usr/bin/iotbx.r_free_flags_completion_simple
/usr/bin/iotbx.shelx.as_cif
/usr/bin/iotbx.shelx.as_xray_structure
/usr/bin/iotbx.shelx.dump_as_python
/usr/bin/iotbx.show_build_path
/usr/bin/iotbx.show_distances
/usr/bin/iotbx.show_dist_paths
/usr/bin/iotbx.simple_map_coefficients
/usr/bin/iotbx.split_data_cif
/usr/bin/iotbx.symmetry_search
/usr/bin/iotbx.unique_with_biomt
/usr/bin/iotbx.xplor.map.show_summary
/usr/bin/labelit.png
/usr/bin/libtbx.add_from_future_import_division
/usr/bin/libtbx.analyse_code_comments
/usr/bin/libtbx.any2unix
/usr/bin/libtbx.assert_line_count
/usr/bin/libtbx.assert_not_show_diff
/usr/bin/libtbx.assert_stdin
/usr/bin/libtbx.assert_stdin_contains_strings
/usr/bin/libtbx.assert_stdin_does_not_contain_strings
/usr/bin/libtbx.assert_stdin_ends_with
/usr/bin/libtbx.bash
/usr/bin/libtbx.bibtex
/usr/bin/libtbx.bootstrap
/usr/bin/libtbx.bundle_as_exe
/usr/bin/libtbx.bundle_as_selfx
/usr/bin/libtbx.check_libcpp
/usr/bin/libtbx.chunk
/usr/bin/libtbx.clean_clutter
/usr/bin/libtbx.clear_paths
/usr/bin/libtbx.configure
/usr/bin/libtbx.create_cctbx_bundle_for_installer
/usr/bin/libtbx.create_installer
/usr/bin/libtbx.create_install_script_bat
/usr/bin/libtbx.create_mac_app
/usr/bin/libtbx.create_selfx
/usr/bin/libtbx.create_unzipsfx
/usr/bin/libtbx.create_windows_exe
/usr/bin/libtbx.csh
/usr/bin/libtbx.dtrace
/usr/bin/libtbx.easy_qsub
/usr/bin/libtbx.env_run
/usr/bin/libtbx.epydoc_run
/usr/bin/libtbx.exec
/usr/bin/libtbx.extract_code_from_txt
/usr/bin/libtbx.find_clutter
/usr/bin/libtbx.find_files
/usr/bin/libtbx.find_in_repositories
/usr/bin/libtbx.find_old_style_classes
/usr/bin/libtbx.find_pdb_mmcif_problems
/usr/bin/libtbx.find_reserved_names
/usr/bin/libtbx.find_under_build
/usr/bin/libtbx.find_untested
/usr/bin/libtbx.find_unused_imports
/usr/bin/libtbx.find_unused_imports_crude
/usr/bin/libtbx.gdb
/usr/bin/libtbx.git_avoid_merges
/usr/bin/libtbx.help
/usr/bin/libtbx.import_all_ext
/usr/bin/libtbx.import_all_python
/usr/bin/libtbx.install
/usr/bin/libtbx.install_conda
/usr/bin/libtbx.latex
/usr/bin/libtbx.line_count
/usr/bin/libtbx.list_files
/usr/bin/libtbx.list_modules
/usr/bin/libtbx.list_source_files_sorted_by_size
/usr/bin/libtbx.make_dist
/usr/bin/libtbx.make_sphinx_html
/usr/bin/libtbx.nequal
/usr/bin/libtbx.parallel_simple
/usr/bin/libtbx.path_utility
/usr/bin/libtbx.pdflatex
/usr/bin/libtbx.phil
/usr/bin/libtbx.prime_factors_of
/usr/bin/libtbx.printenv
/usr/bin/libtbx.py_compile_all
/usr/bin/libtbx.python
/usr/bin/libtbx.raise_exception_for_testing
/usr/bin/libtbx.refresh
/usr/bin/libtbx.remote_processing
/usr/bin/libtbx.remove_tree
/usr/bin/libtbx.remove_unused_imports
/usr/bin/libtbx.resource_monitor_plot
/usr/bin/libtbx.run_pickled_function
/usr/bin/libtbx.run_tests_parallel
/usr/bin/libtbx.scons
/usr/bin/libtbx.seconds_since_the_epoch

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

Use this package

OpenFactory can boot this operating system in a browser VM, or start a build that includes the native package name from this record.

Try Debian 13 (Trixie) in the browser Build an image that includes python3-cctbx

Versions, suites, and repositories

Each row is recorded package-index metadata for one version, architecture, suite, and repository. Names, URLs, and sizes are source-reported; a link is a potentially mutable retrieval location, not an OpenFactory redistribution claim or proof that OpenFactory retained the artifact bytes.

Version	Release	Architecture	Repository	Package size	Installed size	Publisher repository artifact
2024.10+ds2+~3.22.1+ds1-5	trixie / main	amd64	Debian 13 · main · amd64	36 MiB	279 MiB	pool/main/c/cctbx/python3-cctbx_2024.10+ds2+~3.22.1+ds1-5_amd64.deb

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

Checksums and observation dates

For an APT source, signature verification authenticates the repository metadata chain and the Packages index containing this source-reported artifact digest. It does not certify package safety.

2024.10+ds2+~3.22.1+ds1-5 / amd64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: 5f00bd19da597d79206842e965b5a2a1e407f407ba7d0c308931c2ca75689929

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' '5f00bd19da597d79206842e965b5a2a1e407f407ba7d0c308931c2ca75689929' 'python3-cctbx_2024.10+ds2+~3.22.1+ds1-5_amd64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

Catalog record completeness

The completeness score measures metadata coverage, not software quality, security, compatibility, or suitability.

Summary and description: 25/25
Artifact path and source digest: 25/25
Dependency metadata: 15/15
Package-file index: 15/15
Homepage: 5/5
License text: 0/5
Source package or maintainer: 10/10

Recorded total: 95/100

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3, Debian 13 (Trixie) main arm64 revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908. The cross-OS mapping is catalog-derived from the source-reported homepage; it does not establish authorship or publisher identity

Sources and provenance

Field-source links above resolve here. Each source entry names the metadata publisher, trust tier, exact snapshot revision, signature result, and observation time; catalog-derived mappings are labeled separately.

Debian 13 (Trixie) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-amd64/Packages.xz
Expected SHA-256: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Observed SHA-256: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Result: match verified
Debian 13 (Trixie) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-arm64/Packages.xz
Expected SHA-256: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Observed SHA-256: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Result: match verified