and make makeplist is doing the same job just fine
- Remove DOCS option, only DOCSDIR directory was installed,
bump PORTREVISION - plist changed for default configuration
- Use options helper for EXAMPLES option
Drop the python version limit, by asking user to uncheck some options,
that will not work with python3 for now.
PR: 204594
Submitted by: John W. O'Brien <john@saltant.com>
Approved by: dikshie@sfc.wide.ad.jp (maintainer)
- Reintroduce DOCVERSION variable, PDF documentation is not synchronized with
release
- Add missing dependency [1] for NETLIB option
PR: 203638 [1]
Submitted by: John Hein [1]
Switch to fetching the source tarball from the website indicated in WWW. It
is slightly different from the previous tarball: some build system files
were generated by a more recent version of autotools, the documentation
contains a typo fix and its ChangeLog mentions this fix.
2015-12-30 www/ocsigen: Broken for more than 6 months
2015-12-30 devel/monodevelop-database: Broken for more than 6 months
2015-12-30 lang/cduce: Broken for more than 6 months
2015-12-30 science/hdf-java: Broken for more than 6 months
2015-12-30 math/p5-Math-Geometry-Planar-GPC-Polygon: Broken for more than 6 months
2015-12-30 www/eliom: Depends on broken and expiring www/ocsigen
2015-12-30 audio/py-fastaudio: Broken for more than 6 months
2015-12-30 devel/jgoodies-common: Broken for more than 6 months
2015-12-30 graphics/pinta: Broken for more than 6 months
2015-12-30 games/kanatest: Broken for more than 6 months
2015-12-30 editors/bless: Broken for more than 6 months
2015-12-30 security/burpsuite: Broken for more than 6 months
gnuplot completely removed support for the gnugraph and unixplot terminal
drivers in 2011. From the one of the ChangeLog files:
> 2011-05-31 Ethan A Merritt <merritt@u.washington.edu>
> [...]
> Remove obsolete terminal drivers gnugraph and unixplot. The underlying
> gnu plotutils library is itself more than 10 years out of date (last
> release July 2000) and the terminal drivers haven't been upgraded for
> longer than that. In any event, current gnuplot has better native
> terminal drivers for the devices supported by unixplot/gnugraph.
In practice, this means the PLOT option is a no-op and the dependency on
graphics/plotutils is unnecessary. Indeed, if one looks at the port's build
logs in the cluster the following can be seen:
configure: WARNING: unrecognized options: --without-lisp-files, --with-plot,
--disable-thin-splines, --with-wx-config
PR: 205488
Approved by: glewis (maintainer)
- Use other distfile naming scheme again
- Correct usage of wx-config for SAGA GIS module io_virtual
- Adjust naming scheme of patches via 'make makepatch'
- Update pkg-plist
PR: 205491
Submitted by: maintainer
control groups with similar covariate distributions - can be used
to match exactly on covariates, to match on propensity scores, or
perform a variety of other matching procedures.
WWW: http://gking.harvard.edu/matchit
mean, scale, and correlation structures, through mean link,
scale link, and correlation link. Can also handle clustered
categorical responses.
WWW: https://cran.r-project.org/web/packages/geepack/
${PERL5} points to a specific version of perl, say, perl5.22.1, it is
fine to use it in a ports Makefile to do Perly things, but ports using
it must use ${PERL}, that points to /usr/local/bin/perl so that if the
minor version is updated, the shebang keep working.
While there, make some ports use shebangfix, regen a few patches, and
bump PORTREVISION where a shebang went from PERL5 to PERL.
PR: 205367
With hat: portmgr
Sponsored by: Absolight
declare the pre and post conditions that you code should satisfy,
while also producing friendly error messages so that your users
know what they've done wrong.
WWW: https://cran.r-project.org/web/packages/assertthat/
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data set
(such as collected by years for each of several countries).
WWW: http://gking.harvard.edu/amelia
Bring in some long overdue updates, some of which are required for us to
later land the PyQt5 ports.
One big change with this update is that the PyQt4 ports now install their
.sip files into share/py-sip/PyQt4 instead of share/py-sip. This way we do
not end up with directories like share/py-sip/QtCore, which are especially
confusing once PyQt5 lands and starts installing files with the same names.
Other noteworthy items:
- PORTREVISION has been bumped on ports depending on devel/qscintilla2
because libqscintilla2.so's SOVERSION has changed.
- graphics/seexpr has been converted to USE_PYQT, as the file it used to
define a build-time dependency on x11-toolkits/py-qt4-gui has moved.
Once again, big thanks to Tobias Berner <tcberner@gmail.com> and Guido Falsi
(madpilot@) for their initial work on these ports as part of the effort to
land PyQt5 into the tree (see D2910 in Phabricator for an earlier version of
the PyQt5 patch set).
PR: 205143
There are two reasons to rename this port.
1) Upstream never liked it and requested -spark be the suffix instead
2) An ongoing attempt to fix lang/spark may result in a number of slave
ports with a -spark suffix, so this keeps up consistency as all of
these ports only exist to support that port.
This is the first major release of FreePascal in nearly four years.
There are a ton of new features, way more to list here. see:
http://wiki.freepascal.org/FPC_New_Features_3.0
Several new unit ports were added, some were contracted. Most of
those were absorbed into the main FPC packages, but two units are
no longer supported: sndfile and matroshka.
All 99 remaining ports (including Lazarus ports) were build tested
on FreeBSD i386 and amd64 Release 10.2
- Changes:
http://www.gnuplot.info/ReleaseNotes_5_0_1.html
- The "gnuplot mode" elisp and TeX files for use with emacs are now
maintained as a separate project
PR: 204886
Submitted by: pi
Approved by: glewis (maintainer), via mail
optimization, and related tools. It includes a unified way to
call different optimizers, and classes and methods to handle the
results from the ML viewpoint. It also includes a number of
convenience tools for testing and developing your own models.
WWW: http://www.maxlik.org/
Changes:
- Remove port's broken and depreciated status
- Add two dependencies
- Add GPLv3 as dual license
- Update website URL
Change Log:
- New power family called skewPower has been added that can be used with the
Box Cox method with a few negative responses (joint work with Doug Hawkins).
Several functions modified to accomodate two-parameter power families.
- Fixed bug in Anova() for coxph models with clusters (reported by Jesus
Humberto Gomez ), due apparently to a change in coxph().
- Anova() F-tests for binomial and Poisson GLMs now changes
error.estimate="dispersion" to "pearson" as advertized (bug reported by
Will Petry).
- Improved behavior of above-plot legends in scatterplot().
- Fixed sp() (bug reported by Cesar Rabak).
- Conforms to new CRAN requirements for package imports.
Reported by: tota@
PR: 203418
PR: 204587
models.At the heart of it are the vector generalized linear and
additive model (VGLM/VGAM) classes, and the book "Vector Generalized
Linear and Additive Models: With an Implementation in R" (Yee, 2015)
gives details of the statistical framework and VGAM package. Currently
only fixed-effects models are implemented, i.e., no random-effects models.
WWW: https://www.stat.auckland.ac.nz/~yee/VGAM
- Set LICENSE_FILE.
- Depend on devel/yasm instead of building a bundled yasm.
- Remove post-install target, the build system takes care of creating the
proper soversion symlinks.
- Bump PORTREVISION in dependent ports due to a change in the soversion
number.
- update to 1.10
- add YAML option (on by default)
- remove gratuitous word from option descriptions
- USE_PYTHON=concurrent instead of setting EXAMPLESDIR
- alphabetize USE_PYTHON
- discard pkg-message given all options are enabled by default
While here limit python version to 2.x, because it's dependencies
graphics/py-graphviz and math/py-matplotlib failed to configure
with python3.
PR: 204594
Submitted by: John W. O'Brien <john@saltant.com>
Approved by: dikshie@sfc.wide.ad.jp (maintainer)
Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation
penalized) models for conditional quantiles of a univariate response
and several methods for handling censored survival data. Portfolio
selection methods based on expected shortfall risk are also included.
WWW: https://cran.r-project.org/web/packages/quantreg/
Some basic linear algebra functionality for sparse matrices is
provided: including Cholesky decomposition and backsolving as well
as standard R subsetting and Kronecker products.
WWW: https://cran.r-project.org/web/packages/SparseM/
Test in linear mixed effects models. Attention is on linear mixed
effects models as implemented in the lme4 package. The package
implements a parametric bootstrap test. The package implements a
Kenward-Roger modification of F-tests.
WWW: https://cran.r-project.org/web/packages/pbkrtest/
Fit linear and generalized linear mixed-effects models. The models
and their components are represented using S4 classes and methods.
The core computational algorithms are implemented using the Eigen
C++ library for numerical linear algebra and RcppEigen "glue".
WWW: https://github.com/lme4/lme4/
R and Eigen integration using Rcpp. Eigen is a C++ template library
for linear algebra: matrices, vectors, numerical solvers and related
algorithms. It supports dense and sparse matrices on integer,
floating point and complex numbers, decompositions of such matrices,
and solutions of linear systems. Its performance on many algorithms
is comparable with some of the best implementations based on Lapack
and level-3 BLAS. The RcppEigen package includes the header files
from the Eigen C++ template library (currently version 3.2.2). Thus
users do not need to install Eigen itself in order to use RcppEigen.
Since version 3.1.1, Eigen is licensed under the Mozilla Public
License (version 2); earlier version were licensed under the GNU
LGPL version 3 or later. RcppEigen (the Rcpp bindings/bridge to
Eigen) is licensed under the GNU GPL version 2 or later, as is the
rest of Rcpp.
WWW: https://cran.r-project.org/web/packages/RcppEigen/
nloptr is an R interface to NLopt. NLopt is a free/open-source
library for nonlinear optimization, providing a common interface
for a number of different free optimization routines available
online as well as original implementations of various other algorithms.
WWW: https://cran.r-project.org/web/packages/nloptr/
2015-10-31 audio/cmus-post.fm: Broken for more than 6 months
2015-10-31 devel/libphish: Broken for more than 6 months
2015-10-31 devel/rubygem-debugger: This port is for Ruby 1.9 only. Upstream stopped maintenance.
2015-10-31 games/linux-ningpo-demo: Broken for more than 6 months
2015-10-30 graphics/gdal-grass: Superseded by gdal-2.0.0
2015-10-31 graphics/picviz: Broken for more than 6 months
2015-10-31 irc/weechat-devel: far behind stable irc/weechat (use it instead)
2015-10-31 mail/cucipop: Broken for more than 6 months
2015-10-31 math/rkward-kde4: Depends on deprecated math/R-cran-car
2015-10-31 multimedia/streamanalyze: Broken for more than 6 months
2015-10-31 net-mgmt/collectd: Please move to collectd5 - collect4 is not developed/patched
2015-10-31 sysutils/sdd: Broken for more than 6 months
2015-10-31 sysutils/xfce4-minicmd-plugin: Broken for more than 6 months
2015-10-31 www/linux-libgtkembedmoz: Broken for more than 6 months
2015-10-31 www/py-feedfinder: Broken for more than 6 months
2015-10-31 www/py-openssl-proxy: Broken for more than 6 months
2015-10-31 www/py-webware: Broken for more than 6 months
2015-10-31 www/py-webware-component: Depends on deprecated www/py-webware
2015-10-31 x11-fonts/code2001: Broken for more than 6 months
2015-10-31 x11-wm/e-module-diskio: Broken for more than 7 months
- Add LICENSE
- Use blaslapack
- Use flags and options hints from other COIN ports.
- Use pathfix
- Strip libraries
- Use the test framework
PR: 203277
Submitted by: pfg
Sponsored by: Absolight
- Support multiple values in *_OLD_CMD, i.e. we can now fix both "/usr/bin/python" and "/usr/bin/env python" at the same time
- Default *_OLD_CMD values are now always appended, so you don't need to specify them in individual ports
- Add lua support (depends on USES=lua)
- Add more default values, such as "/usr/bin/env foo" for python, perl, bash, ruby and lua
- Shebangfix now matches whole words, e.g. we will no longer (erroneously) replace "/usr/bin/perl5.005" with "${perl_CMD}5.005" (but "/usr/bin/perl -tt" is still (correctly) replaced with "${perl_CMD} -tt")
Note that *_OLD_CMD items containing spaces must now be quoted (e.g. perl_OLD_CMD=/bin/perl /usr/bin/perl "/usr/bin/env perl")
Update shebangfix usage according to new rules in many ports:
- Remove *_OLD_CMD for patterns now replaced by default
- Quote custom *_OLD_CMD which contain spaces
Fix shebangfix usage in many ports (irrelevant to infrastructure change):
- Remove redundant SHEBANG_LANG (no need to duplicate default langs)
- Remove redundant *_CMD (such as python_CMD=${LOCALBASE}/bin/python${PYTHON_VER} when USES=python is present)
- Never use *_OLD_CMD in REINPLACE_CMD matchers, these should always look for exact string
Approved by: portmgr (bapt)
Differential Revision: D3756
GraphicsMagick was just updated, but there was as newer, second
PR to upgrade it once more. And again, the shared library version
has been bumped (haven't these guys heard of symbol versioning?)
While the INDEX references 114 users of GraphicksMagick, I'm going to
only bump the same 8 ports as yesterday. The bump script appears to
be obsolete (still uses CVS!)
PR: 203547
Submitted by: Walter Schwarzenfeld
The previous version tried to ${STRIP} non-existing files.
Some additional fixes:
- Fix WXAGGBACKEND_VARS, which was overwritten and broke the WX build
- Fix permissions in .py files
- Sort entries in post-install
- Whitespace fixes
PR: 203417
Submitted by: Tomi Kause
Reviewed by: olgeni
Approved by: maintainer
This is because the octave packaging process can fail to delete this
directory when it becomes empty.
- Update to 1.3.
Submitted by: Dmitry Marakasov <amdmi3@amdmi3.ru>
