FreshPorts -- science/py-gemmi: Macromolecular crystallography library and utilities

Port details

py-gemmi Macromolecular crystallography library and utilities

0.7.1 science =2 0.6.7Version of this port present on the latest quarterly branch.

Maintainer: yuri@FreeBSD.org

Port Added: 2022-10-04 01:36:50

Last Update: 2025-03-25 08:26:20

Commit Hash: 6721fd0

People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py311-PyOpenGL, p5-Sane

Also Listed In: python

License: MPL20

WWW:

https://gemmi.readthedocs.io/en/latest/

Description:

Gemmi is a library, accompanied by a set of programs, developed primarily for use in macromolecular crystallography (MX). For working with: * macromolecular models (content of PDB, PDBx/mmCIF and mmJSON files), * refinement restraints (CIF files), * reflection data (MTZ and mmCIF formats), * data on a 3D grid (electron density maps, masks, MRC/CCP4 format) * crystallographic symmetry.

¦ ¦ ¦ ¦

Manual pages:

FreshPorts has no man page information for this port.

pkg-plist: as obtained via: make generate-plist

There is no configure plist information for this port.

Dependency lines:

${PYTHON_PKGNAMEPREFIX}gemmi>0:science/py-gemmi@${PY_FLAVOR}

To install the port:

cd /usr/ports/science/py-gemmi/ && make install clean

To add the package, run one of these commands:

pkg install science/py-gemmi
pkg install py311-gemmi

NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
NOTE: This is a Python port. Instead of py311-gemmi listed in the above command, you can pick from the names under the Packages section.

PKGNAME: py311-gemmi

Package flavors (<flavor>: <package>)

py311: py311-gemmi

distinfo:

TIMESTAMP = 1742885714 SHA256 (project-gemmi-gemmi-v0.7.1_GH0.tar.gz) = 5d87c3e82ee159f5642d7c083a74e00ca9cc038ccf9be2522d7ae985f3377393 SIZE (project-gemmi-gemmi-v0.7.1_GH0.tar.gz) = 1910265

Packages (timestamps in pop-ups are UTC):

py39-gemmi
ABI	aarch64	amd64	armv6	armv7	i386	powerpc	powerpc64	powerpc64le
FreeBSD:13:latest	-	-	-	-	-	-	-	-
FreeBSD:13:quarterly	-	-	0.6.2	-	-	0.6.4	0.6.4	0.6.4
FreeBSD:14:latest	-	-	0.5.8	-	-	0.6.2	-	0.6.2
FreeBSD:14:quarterly	-	-	-	-	-	0.6.4	0.6.4	0.6.4
FreeBSD:15:latest	-	-	n/a	-	n/a	0.6.4	0.6.4	0.6.5

py311-gemmi
ABI	aarch64	amd64	armv6	armv7	i386	powerpc	powerpc64	powerpc64le
FreeBSD:13:latest	0.6.7	0.7.1	-	0.6.7	0.7.1	-	-	-
FreeBSD:13:quarterly	0.6.7	0.7.1	-	0.6.7	0.7.1	-	-	-
FreeBSD:14:latest	0.6.7	0.7.1	-	0.6.7	0.7.1	-	-	-
FreeBSD:14:quarterly	0.6.7	0.7.1	-	0.6.7	0.7.1	-	-	-
FreeBSD:15:latest	0.6.7	0.7.1	n/a	0.6.7	n/a	-	-	-

Dependencies

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:

py311-pip>0 : devel/py-pip@py311
py311-nanobind>0 : devel/py-nanobind@py311
py311-wheel>0 : devel/py-wheel@py311
pybind11>=2.6 : devel/pybind11
cmake : devel/cmake-core
ninja : devel/ninja
python3.11 : lang/python311

Test dependencies:

py311-biopython>0 : biology/py-biopython@py311
python3.11 : lang/python311

Runtime dependencies:

python3.11 : lang/python311

Library dependencies:

libgemmi_cpp.so : science/gemmi

There are no ports dependent upon this port

Configuration Options:

No options to configure

Options name:

science_py-gemmi

USES:

cmake compiler:c++17-lang localbase:ldflags python

FreshPorts was unable to extract/find any pkg message

Master Sites:

Expand this list (1 items)

Collapse this list.

https://codeload.github.com/project-gemmi/gemmi/tar.gz/v0.7.1?dummy=/

Collapse this list.

Number of commits found: 11

Commit	Credits	Log message
Commit History - (may be incomplete: for full details, see links to repositories near top of page)
0.7.1 25 Mar 2025 08:26:20	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.7 → 0.7.1 Reported by: portscout
0.6.7 07 Sep 2024 06:24:52	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.6 → 0.6.7 Reported by: portscout
0.6.6 29 May 2024 08:49:15	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.5 → 0.6.6 Reported by: portscout
0.6.5 18 Feb 2024 10:07:54	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.4 → 0.6.5 Reported by: portscout
0.6.4 14 Dec 2023 21:04:02	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.3 → 0.6.4 Reported by: portscout
0.6.3 10 Sep 2023 18:10:46	Yuri Victorovich (yuri)	science/{,py-}gemmi: update 0.6.2 → 0.6.3 Reported by: portscout
0.6.2 28 May 2023 23:41:04	Yuri Victorovich (yuri)	science/{,py-}gemmi: Update 0.6.0 → 0.6.2 Reported by: portscout
0.6.0 08 Mar 2023 11:41:47	Yuri Victorovich (yuri)	science/py-gemmi: Update 0.5.8 → 0.6.0 Reported by: portscout
0.5.8 25 Dec 2022 11:00:41	Yuri Victorovich (yuri)	science/{,py-}gemmi: Update 0.5.7 -> 0.5.8 Reported by: portscout
0.5.7 04 Oct 2022 02:40:28	Yuri Victorovich (yuri)	science/py-gemmi: Correct CATEGORIES
0.5.7 04 Oct 2022 01:35:25	Yuri Victorovich (yuri)	science/{,py-}gemmi: New ports: Macromolecular crystallography library and utilities

Number of commits found: 11

Login
User Login Create account

Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD

This site
What is FreshPorts? About the authors Issues FAQ How big is it? Security Policy Privacy Blog Contact

Search
Enter Keywords: more...

Latest Vulnerabilities

firefox	Apr 13
firefox	Apr 13
firefox-esr	Apr 13
thunderbird	Apr 13
thunderbird	Apr 13
jenkins	Apr 11
jenkins-lts	Apr 11
gitlab	Apr 10
expat2	Apr 09
firefox	Apr 07
firefox	Apr 07
firefox	Apr 07
firefox	Apr 07
firefox	Apr 07
firefox	Apr 07

31 vulnerabilities affecting 352 ports have been reported in the past 14 days

^* - modified, not new

All vulnerabilities

Last processed:
2025-04-14 08:12:50 UTC

Ports
Home Categories Deleted ports Sanity Test Failures Newsfeeds

Statistics

Graphs
NEW Graphs (Javascript)

Calculated hourly:

Port count	33269
Broken	127
Deprecated	285
Ignore	243
Forbidden	1
Restricted	2
No CDROM	1
Vulnerable	27
Expired	33
Set to expire	242
Interactive	0
new 24 hours	1
new 48 hours	3
new 7 days	19
new fortnight	27
new month	90

Newsfeed changes