| Port details |
- py-python-libsbml LibSBML Python API
- 5.20.4 biology
 =2      5.20.1Version of this port present on the latest quarterly branch. - Maintainer: yuri@FreeBSD.org
- Port Added: 2021-08-17 21:33:06
- Last Update: 2024-11-12 10:18:13
- Commit Hash: 820169d
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: python
- License: LGPL21
- WWW:
- https://sbml.org/Main_Page
- Description:
- Python binding for libsbml - Systems Biology Markup Language (SBML) read/write
library.
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- 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:
-
- ${PYTHON_PKGNAMEPREFIX}python-libsbml>0:biology/py-python-libsbml@${PY_FLAVOR}
- To install the port:
- cd /usr/ports/biology/py-python-libsbml/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/py-python-libsbml
- pkg install py311-python-libsbml
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-python-libsbml listed in the above command, you can pick from the names under the Packages section.- PKGNAME: py311-python-libsbml
- Package flavors (<flavor>: <package>)
- py311: py311-python-libsbml
- distinfo:
- TIMESTAMP = 1731400774
SHA256 (python-libsbml-5.20.4.tar.gz) = c9d57cb81661eec7d9ec3a0efa463999d6cd389418dfdbeea764664f3a44617a
SIZE (python-libsbml-5.20.4.tar.gz) = 48841959
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- cmake : devel/cmake-core
- swig : devel/swig
- py311-setuptools>=63.1.0 : devel/py-setuptools@py311
- python3.11 : lang/python311
- Test dependencies:
-
- python3.11 : lang/python311
- Runtime dependencies:
-
- py311-setuptools>=63.1.0 : devel/py-setuptools@py311
- python3.11 : lang/python311
- This port is required by:
- for Run
-
- biology/py-PySCeS
Configuration Options:- No options to configure
- Options name:
- biology_py-python-libsbml
- USES:
- python
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
5.20.4
12 Nov 2024 10:18:13
 |
Yuri Victorovich (yuri) |
biology/py-python-libsbml: update 5.20.1 → 5.20.4 |
5.20.1
03 Dec 2023 12:02:23
|
Ruslan Makhmatkhanov (rm) |
biology/py-python-libsbml: relax python version requirement
According to [1] python-libsbml supports Python 3.11 since version 5.19.2
[1] https://github.com/sbmlteam/python-libsbml/releases/tag/v5.19.2
PR: 275494
Approved by: portmgr (blanket) |
5.20.1
26 Jul 2023 07:04:04
|
Yuri Victorovich (yuri) |
biology/py-python-libsbml: Use CMAKE_BUILD_PARALLEL_LEVEL env var for
parallelization |
5.20.1
26 Jul 2023 06:20:26
|
Yuri Victorovich (yuri) |
biology/py-python-libsbml: Parallelize build |
5.20.1
27 Jun 2023 19:34:34
|
Rene Ladan (rene) |
all: remove explicit versions in USES=python for "3.x+"
The logic in USES=python will automatically convert this to 3.8+ by
itself.
Adjust two ports that only had Python 3.7 mentioned but build fine
on Python 3.8 too.
finance/quickfix: mark BROKEN with PYTHON
libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../.. -I -I. -I.. -I../.. -I../C++
-DLIBICONV_PLUG -DPYTHON_MAJOR_VERSION=3 -Wno-unused-variable
-Wno-maybe-uninitialized -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong
-fno-strict-aliasing -DLIBICONV_PLUG -Wall -ansi
-Wno-unused-command-line-argument -Wpointer-arith -Wwrite-strings
-Wno-overloaded-virtual -Wno-deprecated-declarations -Wno-deprecated -std=c++0x
-MT _quickfix_la-QuickfixPython.lo -MD -MP -MF
.deps/_quickfix_la-QuickfixPython.Tpo -c QuickfixPython.cpp -fPIC -DPIC -o
.libs/_quickfix_la-QuickfixPython.o
warning: unknown warning option '-Wno-maybe-uninitialized'; did you mean
'-Wno-uninitialized'? [-Wunknown-warning-option]
QuickfixPython.cpp:175:11: fatal error: 'Python.h' file not found
^~~~~~~~~~
1 warning and 1 error generated.
Reviewed by: portmgr, vishwin, yuri
Differential Revision: <https://reviews.freebsd.org/D40568> |
5.20.1
26 Jun 2023 15:53:03
|
Yuri Victorovich (yuri) |
biology/py-python-libsbml: Update 5.19.0 → 5.20.1
Reported by: portscout |
5.19.0
11 Jan 2023 15:58:34
|
Dmitry Marakasov (amdmi3) |
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
PR: 267994
Differential revision: D37518
Approved by: bapt |
5.19.0
09 Sep 2022 20:32:24
|
Daniel Engberg (diizzy) |
*/*: Update path set in BUILD_DEPENDS for CMake
Commit b23ea4e2d2f51b53d8915fe9fd7b4efbdd575e38 changed its location to
devel/cmake-core
Approved by: portmgr (blanket) |
07 Sep 2022 21:58:51
|
Stefan Eßer (se) |
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner) |
5.19.0
07 Sep 2022 21:10:59
|
Stefan Eßer (se) |
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above  ) |
5.19.0
03 Nov 2021 18:26:41
|
Dmitry Marakasov (amdmi3) |
biology/py-python-libsbml: limit supported python versions, fix build
- Cap supported python verions with 3.9. Fails with 3.10:
Traceback (most recent call last):
File
"/wrkdirs/usr/ports/biology/py-python-libsbml/work-py310/python-libsbml-5.19.0/libsbml_source/src/bindings/python/doc-converter/rewrite_pydoc.py",
line 121, in <module>
from formatter import NullWriter, AbstractFormatter
ModuleNotFoundError: No module named 'formatter'
- Fix library stripping to unbreak port with python != 3.8
Approved by: portmgr blanket |
5.19.0
17 Aug 2021 21:30:07
|
Yuri Victorovich (yuri) |
biology/py-python-libsbml: New port: LibSBML Python API |
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