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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-pyteomics Python modules for proteomics data analysis
4.1.2_1 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 4.1.2Version of this port present on the latest quarterly branch.
Maintainer: sunpoet@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2015-11-02 09:24:59
Last Update: 2019-07-26 21:46:57
SVN Revision: 507372
Also Listed In: python
License: APACHE20
Description:
SVNWeb : Homepage

There is no configure plist information for this port.

Dependency lines:
  • py36-pyteomics>0:science/py-pyteomics
To install the port: cd /usr/ports/science/py-pyteomics/ && make install clean
To add the package: pkg install py36-pyteomics
PKGNAME: py36-pyteomics
Package flavors (<flavor>: <package>)
  • py36: py36-pyteomics
  • py27: py27-pyteomics
distinfo:

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. py36-setuptools>0 : devel/py-setuptools@py36
  2. python3.6 : lang/python36
Runtime dependencies:
  1. py36-lxml>=0 : devel/py-lxml@py36
  2. py36-matplotlib>=0 : math/py-matplotlib@py36
  3. py36-numpy>0 : math/py-numpy@py36
  4. py36-pandas>=0 : math/py-pandas@py36
  5. py36-sqlalchemy13>=0 : databases/py-sqlalchemy13@py36
  6. py36-setuptools>0 : devel/py-setuptools@py36
  7. python3.6 : lang/python36
There are no ports dependent upon this port

Configuration Options

USES:

Master Sites:
  1. https://files.pythonhosted.org/packages/source/p/pyteomics/
  2. https://pypi.org/packages/source/p/pyteomics/
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
    
    
Port Moves
  • port moved here from science/pyteomics on 2015-11-02
    REASON: Renamed to comply with Python ports policy

Number of commits found: 17

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  4.1.2_1
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
09 Jun 2019 16:52:36
Original commit files touched by this commit  4.1.2
Revision:503837
sunpoet search for other commits by this committer
Update to 4.1.2

Changes:	https://bitbucket.org/levitsky/pyteomics/src/default/CHANGELOG
		https://pyteomics.readthedocs.io/en/latest/changelog.html
25 May 2019 22:03:26
Original commit files touched by this commit  4.1.1
Revision:502648
sunpoet search for other commits by this committer
Update to 4.1.1

Changes:	https://pyteomics.readthedocs.io/en/latest/changelog.html
18 Apr 2019 18:00:53
Original commit files touched by this commit  4.1
Revision:499298
sunpoet search for other commits by this committer
Update to 4.1

- Update pkg-descr
- Update WWW
- Take maintainership

Changes:	https://pyteomics.readthedocs.io/en/latest/changelog.html
12 Dec 2018 01:35:36
Original commit files touched by this commit  3.5.1_1
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
29 Nov 2018 21:58:22
Original commit files touched by this commit  3.5.1
Revision:486213
makc search for other commits by this committer
science/py-pyteomics:
- Update to 3.5.1 and enable for all Python versions
20 Jun 2018 17:05:44
Original commit files touched by this commit  3.4.2_1
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
25 Apr 2018 16:42:38
Original commit files touched by this commit  3.4.2_1
Revision:468282
amdmi3 search for other commits by this committer
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
10 Mar 2018 17:46:06
Original commit files touched by this commit  3.4.2_1
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  3.4.2
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)
02 Jul 2017 16:10:25
Original commit files touched by this commit  3.4.2
Revision:444893
sunpoet search for other commits by this committer
Update to 3.4.2

- Sort USE_PYTHON

Changes:	https://bitbucket.org/levitsky/pyteomics/src/default/CHANGELOG
22 Feb 2017 01:45:24
Original commit files touched by this commit  3.4.1
Revision:434558
vanilla search for other commits by this committer
Update to 3.4.1.
01 Dec 2016 23:52:39
Original commit files touched by this commit  3.4
Revision:427536
jhale search for other commits by this committer
Update to 3.4
Add LICENSE_FILE

PR:		214198
Submitted by:	Jochen Neumeister <joneum@bsdproject.de>
07 Nov 2016 12:24:07
Original commit files touched by this commit  2.4.0_1
Revision:425611
amdmi3 search for other commits by this committer
- Add LICENSE
- Add NO_ARCH
20 Oct 2016 15:58:13
Original commit files touched by this commit  2.4.0_1
Revision:424339
rakuco search for other commits by this committer
Reassign makc's ports back to the pool.

See "Maintainer Reset" in
https://www.freebsd.org/portmgr/policies_contributors.html. makc's last commit
was in March 31st (r412218), and his ports have been timing out since at least
July (r418155).

I also emailed him 2 weeks ago and have received no response so far.
01 Apr 2016 14:25:18
Original commit files touched by this commit  2.4.0_1
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
02 Nov 2015 09:24:50
Original commit files touched by this commit  2.4.0_1
Revision:400643
makc search for other commits by this committer
Rename my ports to comply with Python ports policy

Requested by:	koobs

Number of commits found: 17

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