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Things are slow!

Some of the pages ont the website are slow. I know diskio is way up. I don't know what it is but it's been going on for about three weeks. It might have been a change to the zpool recordsize on the PostgreSQL database dataset.

One way to know: copy the dataset to another dataset with the original recordsize and use that. I hope can get to that later this week.

I have not tackled the issue yet because I've been concentrating on the BSDCan and PGCon calls for papers.

Port details
py-hcluster Hierarchical Clustering Package For Scipy
0.2.0_11 science on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port 0.2.0Version of this port present on the latest quarterly branch.
There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
search for ports maintained by this maintainer
Port Added: 2008-09-26 23:25:08
Last Update: 2019-07-26 21:46:57
SVN Revision: 507372
Also Listed In: python
License: BSD3CLAUSE
Description:
SVNWeb : Homepage

There is no configure plist information for this port.

Dependency lines:
  • py27-hcluster>0:science/py-hcluster
To install the port: cd /usr/ports/science/py-hcluster/ && make install clean
To add the package: pkg install py27-hcluster
PKGNAME: py27-hcluster
Package flavors (<flavor>: <package>)
  • py27: py27-hcluster
distinfo:

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. py27-numpy>0 : math/py-numpy@py27
  2. py27-matplotlib>0 : math/py-matplotlib@py27
  3. py27-setuptools>0 : devel/py-setuptools@py27
  4. python2.7 : lang/python27
Runtime dependencies:
  1. py27-numpy>0 : math/py-numpy@py27
  2. py27-matplotlib>0 : math/py-matplotlib@py27
  3. py27-setuptools>0 : devel/py-setuptools@py27
  4. python2.7 : lang/python27
There are no ports dependent upon this port

Configuration Options

USES:

Master Sites:
  1. https://files.pythonhosted.org/packages/source/h/hcluster/
  2. https://pypi.org/packages/source/h/hcluster/
Notes from UPDATING
These upgrade notes are taken from /usr/ports/UPDATING
  • 2017-11-30
    Affects: */py*
    Author: mat@FreeBSD.org
    Reason: 
      Ports using Python via USES=python are now flavored.  All the py3-* ports
      have been removed and folded into their py-* master ports.
    
      People using Poudriere 3.2+ and binary packages do not have to do anything.
    
      For other people, to build the Python 3.6 version of, for example,
      databases/py-gdbm, you need to run:
    
        # make FLAVOR=py36 install
    
    

Number of commits found: 24

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
26 Jul 2019 20:46:57
Original commit files touched by this commit  0.2.0_11
Revision:507372
gerald search for other commits by this committer
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
12 Dec 2018 01:35:36
Original commit files touched by this commit  0.2.0_10
Revision:487272
gerald search for other commits by this committer
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
20 Jun 2018 17:05:44
Original commit files touched by this commit  0.2.0_9
Revision:472884
mat search for other commits by this committer
Use PY_FLAVOR for dependencies.

FLAVOR is the current port's flavor, it should not be used outside of
this scope.

Sponsored by:	Absolight
10 Mar 2018 17:46:06
Original commit files touched by this commit  0.2.0_9
Revision:464084
gerald search for other commits by this committer
Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079).
30 Nov 2017 15:50:34
Original commit files touched by this commit  0.2.0_8
Revision:455210  Sanity Test Failure
mat search for other commits by this committer
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 View all of this commit message)
19 May 2016 10:53:06
Original commit files touched by this commit  0.2.0_8
Revision:415500
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-descrs, categories [p-x]*

Approved by:	portmgr blanket
01 Apr 2016 14:25:18
Original commit files touched by this commit  0.2.0_8
Revision:412349
mat search for other commits by this committer
Remove ${PORTSDIR}/ from dependencies, categories r, s, t, and u.

With hat:	portmgr
Sponsored by:	Absolight
14 Sep 2015 12:20:10
Original commit files touched by this commit  0.2.0_8
Revision:396895
amdmi3 search for other commits by this committer
- Add LICENSE
- Pet portlint
- Strip library
- Regenerate patches with `make makepatch`
- Fix WWW:
11 Sep 2015 02:49:29
Original commit files touched by this commit  0.2.0_7
Revision:396642
wen search for other commits by this committer
- Reset the maintainer to ports@
23 Jan 2015 15:21:52
Original commit files touched by this commit  0.2.0_7
Revision:377743
antoine search for other commits by this committer
Canonicalize some dependencies on numpy
24 Oct 2014 16:50:43
Original commit files touched by this commit  0.2.0_7
Revision:371453
mva search for other commits by this committer
- Convert ports of science/ and security to new USES=python

Approved by:	portmgr (implicit)
10 Sep 2014 20:50:37
Original commit files touched by this commit  0.2.0_7
Revision:367888
gerald search for other commits by this committer
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)
26 Jun 2014 14:27:46
Original commit files touched by this commit  0.2.0_6
Revision:359362
wg search for other commits by this committer
science/py-hcluster: support stage

- Remove leading article from COMMENT
- Use auto plist

Approved by:	portmgt (stage blanket)
10 Mar 2014 20:55:22
Original commit files touched by this commit  0.2.0_6
Revision:347809
gerald search for other commits by this committer
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)
26 Oct 2013 00:52:36
Original commit files touched by this commit  0.2.0_5
Revision:331644
gerald search for other commits by this committer
Update to libmpc version 1.0.1 which brings the following fixes:

 - Switched to automake 1.11.6, see CVE-2012-3386.
 - #14669: Fixed extraction of CC from gmp.h.
 - Fixed case of intermediate zero real or imaginary part in mpc_fma,
   found by hydra with GMP_CHECK_RANDOMIZE=1346362345.

This is on top of the following changes from version 1.0

 - Licence change towards LGPLv3+ for the code and GFDLv1.3+ (with no
   invariant sections) for the documentation.
 - 100% of all lines are covered by tests
 - Renamed functions
   . mpc_mul_2exp to mpc_mul_2ui
   . mpc_div_2exp to mpc_div_2ui
(Only the first 15 lines of the commit message are shown above View all of this commit message)
20 Sep 2013 22:48:31
Original commit files touched by this commit  0.2.0_4
Revision:327767
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
science)
01 Jun 2012 05:26:28
Original commit files touched by this commit  0.2.0_4

dinoex search for other commits by this committer
- update png to 1.5.10
21 Jan 2012 17:40:15
Original commit files touched by this commit  0.2.0_3

eadler search for other commits by this committer
At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450
ports use BUILD_DEPENDS:= ${RUN_DEPENDS}. This patch fixes ports that are
currently broken. This is a temporary measure until we organically stop using
:= or someone(s) spend a lot of time changing all the ports over.

Explicit duplication > := > = and this just moves ports one step to the left

Approved by:    portmgr
03 Jul 2011 13:22:25
Original commit files touched by this commit  0.2.0_3

ohauer search for other commits by this committer
 - remove MD5
28 Mar 2010 06:47:48
Original commit files touched by this commit  0.2.0_3

dinoex search for other commits by this committer
- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi
05 Feb 2010 11:46:55
Original commit files touched by this commit  0.2.0_2

dinoex search for other commits by this committer
- update to jpeg-8
31 Jul 2009 13:57:52
Original commit files touched by this commit  0.2.0_1

dinoex search for other commits by this committer
- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by:   edwin
22 Dec 2008 21:10:33
Original commit files touched by this commit  0.2.0

miwi search for other commits by this committer
- Update to 0.2.0

PR:             129652
Submitted by:   Wen Heping <wenheping@gmail.com> (maintainer)
26 Sep 2008 23:21:54
Original commit files touched by this commit  0.1.9

miwi search for other commits by this committer
py-hcluster library provides Python functions for
agglomerative clustering. Its features include
* generating hierarchical clusters from distance matrices
* computing distance matrices from observation vectors
* computing statistics on clusters
* cutting linkages to generate flat clusters
* and visualizing clusters with dendrograms.

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://code.google.com/p/scipy-cluster/

PR:             ports/127515
Submitted by:   Wen Heping <wenheping at gmail.com>

Number of commits found: 24

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