Port details |
- py-fastcluster Fast hierarchical clustering routines for R and Python
- 1.2.6_2 math =2 1.2.6_2Version of this port present on the latest quarterly branch.
- Maintainer: sunpoet@FreeBSD.org
- Port Added: 2013-12-18 11:12:51
- Last Update: 2024-07-01 20:27:23
- Commit Hash: 19d6872
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: python
- License: BSD2CLAUSE
- WWW:
- http://danifold.net/fastcluster.html
- https://github.com/dmuellner/fastcluster
- Description:
- This library provides Python functions for hierarchical clustering. It generates
hierarchical clusters from distance matrices or from vector data.
Part of this module is intended to replace the functions (linkage, single,
complete, average, weighted, centroid, median, ward) in the module
scipy.cluster.hierarchy with the same functionality but much faster algorithms.
Moreover, the function linkage_vector provides memory-efficient clustering for
vector data.
The interface is very similar to MATLAB's Statistics Toolbox API to make code
easier to port from MATLAB to Python/NumPy. The core implementation of this
library is in C++ for efficiency.
- ¦ ¦ ¦ ¦
- 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:
-
- ${PYTHON_PKGNAMEPREFIX}fastcluster>0:math/py-fastcluster@${PY_FLAVOR}
- To install the port:
- cd /usr/ports/math/py-fastcluster/ && make install clean
- To add the package, run one of these commands:
- pkg install math/py-fastcluster
- pkg install py311-fastcluster
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-fastcluster listed in the above command, you can pick from the names under the Packages section.- PKGNAME: py311-fastcluster
- Package flavors (<flavor>: <package>)
- distinfo:
- TIMESTAMP = 1647264604
SHA256 (fastcluster-1.2.6.tar.gz) = aab886efa7b6bba7ac124f4498153d053e5a08b822d2254926b7206cdf5a8aa6
SIZE (fastcluster-1.2.6.tar.gz) = 173773
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>=0,1 : math/py-numpy@py311
- py311-setuptools>=0 : devel/py-setuptools@py311
- py311-wheel>=0 : devel/py-wheel@py311
- python3.11 : lang/python311
- py311-build>=0 : devel/py-build@py311
- py311-installer>=0 : devel/py-installer@py311
- Test dependencies:
-
- python3.11 : lang/python311
- Runtime dependencies:
-
- py311-numpy>=1.9,1 : math/py-numpy@py311
- python3.11 : lang/python311
- There are no ports dependent upon this port
Configuration Options:
- No options to configure
- Options name:
- math_py-fastcluster
- USES:
- compiler 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 |
1.2.6_2 01 Jul 2024 20:27:23 |
Rene Ladan (rene) |
all: drop support for FreeBSD 13.2 which reached EOL today
Thanks again to jbeich for noticing various things I overlooked.
Reviewed by: acm, ashish, eduardo, ehaupt, eugen, jbeich, martymac, mat,
nobukata, sunpoet, tagattie, yuri, arrowd, kde
Differential Revision: https://reviews.freebsd.org/D45141 |
1.2.6_2 13 May 2024 14:02:29 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Convert to USE_PYTHON=pep517
- Bump PORTREVISION for package change |
1.2.6_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> |
1.2.6_1 23 Apr 2023 09:09:58 |
Gerald Pfeifer (gerald) |
*: Bump PORTREVISIONs for math/mpc update to 1.3.1 |
1.2.6 05 Apr 2023 17:30:44 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Update WWW and clean up pkg-descr |
1.2.6 08 Feb 2023 20:17:09 |
Piotr Kubaj (pkubaj) |
math/py-fastcluster: fix build on powerpc* with LLVM 14 by forcing 15
Assertion failed: ((CGF.CurFuncDecl == nullptr ||
CGF.Builder.getIsFPConstrained() || isa<CXXConstructorDecl>(CGF.CurFuncDecl) ||
isa<CXXDestructorDecl>(CGF.CurFuncDecl) || (NewExceptionBehavior ==
llvm::fp::ebIgnore && NewRoundingBehavior ==
llvm::RoundingMode::NearestTiesToEven)) && "FPConstrained should be enabled on
entire function"), function ConstructorHelper, file
/usr/local/poudriere/jails/main-powerpc64/usr/src/contrib/llvm-project/clang/lib/CodeGen/CodeGenFunction.cpp,
line 163. |
1.2.6 11 Jan 2023 15:58:34 |
Dmitry Marakasov (amdmi3) |
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
PR: 267994
Differential revision: D37518
Approved by: bapt |
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) |
1.2.6 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 ) |
1.2.6 20 Jul 2022 14:22:24 |
Tobias C. Berner (tcberner) |
math: remove 'Created by' lines
A big Thank You to the original contributors of these ports:
* Aaron Dalton <aaron@FreeBSD.org>
* Aaron Dalton <aaron@daltons.ca>
* Alessando Sagratini <ale_sagra@hotmail.com>
* Alex Dupre <ale@FreeBSD.org>
* Alexey Dokuchaev <danfe@FreeBSD.org>
* Amarendra Godbole <amarendra.godbole@gmail.com>
* Anders Nordby <anders@FreeBSD.org>
* Andreas Fehlner (fehlner@gmx.de)
* Andrew L. Neporada <andrew@chg.ru>
* Andrey <gugu@zoo.rambler.ru>
* Andrey Zakhvatov (Only the first 15 lines of the commit message are shown above ) |
1.2.6 25 Mar 2022 13:37:06 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Update to 1.2.6
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.2.4 05 Nov 2021 19:14:17 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Update USES=python
math/py-numpy requires Python 3.7+ |
1.2.4 21 Sep 2021 03:44:49 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Update to 1.2.4
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.2.3 20 Jun 2021 20:46:21 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Update to 1.2.3
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.28 18 Apr 2021 05:43:48 |
Po-Chuan Hsieh (sunpoet) |
math/py-fastcluster: Remove PYNUMPY |
1.1.28 06 Apr 2021 14:31:07 |
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
1.1.28 06 Feb 2021 20:46:52 |
sunpoet |
Update to 1.1.28
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.27 26 Jan 2021 17:28:57 |
sunpoet |
Update to 1.1.27
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.26 24 Dec 2020 13:46:02 |
kai |
Relax hardcoded paths to fix build with Python 3.8.7
Since r558913 Python 3.8 incorporates BPO-42604 [1] which changed the
shared libs naming scheme. This means "EXT_SUFFIX" is now derived from
SOABI and yields with Python 3.8 to ".cpython-38.so" instead of ".so".
The affected ports strip the libaries in the "post-install" target via
hardcoded path(s) and the build fails at the end because the new extension
is not expected at this place.
Remedy the issue by adding wildcards to these paths. This should also
prepare the ports for future Python releases, which will use the new shared
libs naming scheme.
[1] https://bugs.python.org/issue42604
PR: 252057
Reported by: John Kennedy
Reviewed by: fluffy, koobs
Approved by: koobs (python) |
1.1.26 24 Dec 2020 09:03:39 |
antoine |
scipy 1.5.4 is only compatible with python 3.6+
Reported by: pkg-fallout |
1.1.26 01 Jan 2020 16:30:48 |
sunpoet |
Update to 1.1.26
Changes: https://github.com/dmuellner/fastcluster/releases
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.25_2 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 |
1.1.25_1 12 Dec 2018 01:35:36 |
gerald |
Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.
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, as a double check, everything INDEX-11 showed depending on lang/gcc7.
PR: 231590 |
1.1.25 20 Jun 2018 17:05:44 |
mat |
Use PY_FLAVOR for dependencies.
FLAVOR is the current port's flavor, it should not be used outside of
this scope.
Sponsored by: Absolight |
1.1.25 01 Jun 2018 22:47:24 |
sunpoet |
Update to 1.1.25
Changes: https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.24_1 25 Apr 2018 16:42:38 |
amdmi3 |
Switch all pypi.python.org WWWs to a new PyPi home pypi.org where
they now redirect to anyway. All new urls checked to return 200,
I've fixed a couple of them in the process.
Approved by: portmgr blanket, mat |
1.1.24_1 10 Mar 2018 17:46:06 |
gerald |
Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079). |
1.1.24 25 Feb 2018 05:33:33 |
sunpoet |
Update to 1.1.24
- Update COMMENT
- Add LICENSE_FILE
- Add missing OPTIONS_DEFINE=DOCS
- Strip shared library
- Convert to options target helper
- Add PyPI and GitHub repository to WWW
- Take maintainership
Changes: https://github.com/dmuellner/fastcluster
https://github.com/dmuellner/fastcluster/blob/master/NEWS.txt |
1.1.23 24 Feb 2018 08:52:27 |
tcberner |
Give xmj@'s ports back to the pool
PR: 226157
Submitted by: xmj |
1.1.23 30 Nov 2017 15:50:34 |
mat |
Convert Python ports to FLAVORS.
Ports using USE_PYTHON=distutils are now flavored. They will
automatically get flavors (py27, py34, py35, py36) depending on what
versions they support.
There is also a USE_PYTHON=flavors for ports that do not use distutils
but need FLAVORS to be set. A USE_PYTHON=noflavors can be set if
using distutils but flavors are not wanted.
A new USE_PYTHON=optsuffix that will add PYTHON_PKGNAMESUFFIX has been
added to cope with Python ports that did not have the Python
PKGNAMEPREFIX but are flavored.
USES=python now also exports a PY_FLAVOR variable that contains the (Only the first 15 lines of the commit message are shown above ) |
1.1.23 03 Jun 2017 13:55:22 |
tcberner |
Update to 1.1.23
PR: 219354
Submitted by: xmj
Approved by: xmj (maintainer) |
1.1.21 01 Feb 2017 11:31:45 |
amdmi3 |
- Update to 1.1.21
- Allow concurrent installs (fix docdir)
PR: 212213
Submitted by: xmj@FreeBSD.org
Approved by: maintainer timeout (johannes@perceivon.net, 6 weeks) |
1.1.20 23 Jun 2016 09:48:53 |
tz |
Change all occurrences of xmj@chaot.net to johannes@perceivon.net as the owner
requested.
This only affects "Created by" lines with one exception: devel/uclcmd. There the
maintainer is changed. This was overlooked in r416918.
Approved by: junovitch (mentor) |
1.1.20 15 Jun 2016 09:04:29 |
tz |
Change MAINTAINER from xmj@FreeBSD.org to johannes@perceivon.net
PR: 210265
Submitted by: Johannes Jost Meixner (johannes@perceivon.net)
Approved by: pi (mentor) |
1.1.20 25 May 2016 16:54:31 |
pi |
Several ports: Change MAINTAINER from xmj@chaot.net to xmj@FreeBSD.org
PR: 209746
Submitted by: xmj |
1.1.20 24 May 2016 00:50:47 |
amdmi3 |
- Update to 1.1.20
PR: 209623
Submitted by: xmj (maintainer) |
1.1.13_2 01 Apr 2016 14:16:20 |
mat |
Remove ${PORTSDIR}/ from dependencies, categories m, n, o, and p.
With hat: portmgr
Sponsored by: Absolight |
1.1.13_2 21 Oct 2014 16:54:55 |
mva |
- Convert ports of math/ to new USES=python
Approved by: portmgr (implicit) |
1.1.13_2 10 Sep 2014 20:50:37 |
gerald |
Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.
Part II, Bump PORTREVISIONs.
PR: 192025
Tested by: antoine (-exp runs)
Approved by: portmgr (implicit) |
1.1.13_1 10 Mar 2014 20:55:22 |
gerald |
Update the default version of GCC used in the Ports Collection from
GCC 4.6.4 to GCC 4.7.3. This entails updating the lang/gcc port as
well as changing the default in Mk/bsd.default-versions.mk.
Part II, Bump PORTREVISIONs.
PR: 182136
Supported by: Christoph Moench-Tegeder <cmt@burggraben.net> (fixing many ports)
Tested by: bdrewery (two -exp runs) |
1.1.13 18 Dec 2013 11:12:40 |
wg |
math/py-fastcluster: Python functions for hierarchical clustering
Fastcluster provides Python functions for hierarchical clustering. It generates
hierarchical clusters from distance matrices or from vector data.
Part of this module is intended to replace the functions
linkage, single, complete, average, weighted, centroid, median, ward
in the module scipy.cluster.hierarchy with the same functionality but much
faster algorithms. Moreover, the function 'linkage_vector' provides
memory-efficient clustering for vector data.
The interface is very similar to MATLAB's Statistics Toolbox API to make code
easier to port from MATLAB to Python/Numpy. The core implementation of this
library is in C++ for efficiency.
WWW: http://danifold.net/fastcluster.html
PR: ports/184931
Submitted by: Johannes Jost Meixner <xmj chaot.net> |