| Port details |
- prodigy-lig Prediction of protein-small molecule binding affinities
- 1.1.3 biology
 =2      1.1.1Version of this port present on the latest quarterly branch. - Maintainer: yuri@FreeBSD.org
- Port Added: 2019-02-03 18:49:38
- Last Update: 2024-10-15 15:33:52
- Commit Hash: a58aa25
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: python
- License: APACHE20
- WWW:
- https://nestor.science.uu.nl/prodigy/lig
- Description:
- PRODIGY-LIG (PROtein binDIng enerGY prediction - LIGands) is a structure-based
method for the prediction of binding affinity in protein-small ligand (such as
drugs or metabolites) complexes.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- prodigy-lig>0:biology/prodigy-lig
- To install the port:
- cd /usr/ports/biology/prodigy-lig/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/prodigy-lig
- pkg install prodigy-lig
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: prodigy-lig
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1729012650
SHA256 (haddocking-prodigy-lig-v1.1.3_GH0.tar.gz) = 2dc553beea82259feb5d1cce104f830e48c8b7d64a653818a3e49a84fbc68c64
SIZE (haddocking-prodigy-lig-v1.1.3_GH0.tar.gz) = 157035
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:
-
- py311-numpy>=1.16,1<1.27,1 : math/py-numpy@py311
- py311-biopython>0 : biology/py-biopython@py311
- py311-poetry-core>0 : devel/py-poetry-core@py311
- gmake>=4.4.1 : devel/gmake
- python3.11 : lang/python311
- py311-build>=0 : devel/py-build@py311
- py311-installer>=0 : devel/py-installer@py311
- Test dependencies:
-
- py311-coverage>0 : devel/py-coverage@py311
- py311-hypothesis>0 : devel/py-hypothesis@py311
- py311-pytest-cov>0 : devel/py-pytest-cov@py311
- py311-pytest>=7,1 : devel/py-pytest@py311
- python3.11 : lang/python311
- Runtime dependencies:
-
- py311-biopython>0 : biology/py-biopython@py311
- python3.11 : lang/python311
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- biology_prodigy-lig
- USES:
- gmake 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 |
|---|
1.1.3
15 Oct 2024 15:33:52
 |
Yuri Victorovich (yuri) |
biology/prodigy-lig: update 1.1.2 → 1.1.3
Reported by: portscout |
1.1.2
04 Oct 2024 09:15:23
|
Yuri Victorovich (yuri) |
biology/prodigy-lig: update 1.1.1 → 1.1.2
Reported by: portscout |
1.1.1
27 Apr 2024 05:55:21
|
Yuri Victorovich (yuri) |
biology/prodigy-lig: update 1.1.0 → 1.1.1
Reported by: portscout |
1.1.0
21 Mar 2024 10:08:33
|
Yuri Victorovich (yuri) |
biology/prodigy-lig: update 1.0.1 → 1.1.0
Reported by: portscout |
1.0.1_2
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> |
1.0.1_2
23 Apr 2023 09:09:58
|
Gerald Pfeifer (gerald) |
*: Bump PORTREVISIONs for math/mpc update to 1.3.1 |
1.0.1_1
23 Jan 2023 08:17:38
|
Yuri Victorovich (yuri) |
biology/prodigy-lig: Update 1.0.0-3 -> 1.0.1
Reported by: portscout |
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) |
1.0.0.3_1
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  ) |
1.0.0.3_1
07 Apr 2021 08:09:01
|
Mathieu Arnold (mat) |
One more small cleanup, forgotten yesterday.
Reported by: lwhsu |
1.0.0.3_1
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
1.0.0.3_1
13 Jun 2020 15:05:45
 |
antoine |
Unbreak bulk -a |
1.0.0.3_1
26 Jul 2019 20:46:57
|
gerald |
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.
This includes ports
- with USE_GCC=yes or USE_GCC=any,
- with USES=fortran,
- using Mk/bsd.octave.mk which in turn features USES=fortran, and
- with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.
PR: 238330 |
1.0.0.3
03 Feb 2019 18:49:23
|
yuri |
New port: biology/prodigy-lig: Prediction of protein-small molecule binding
affinities |
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