implementation of genome scale analyses. The library contains a variety of
useful modules, but the particular strengths are:
Classes for reading and working with genome-scale multiple local alignments
(in MAF, AXT, and LAV formats). Generic data structure for indexing on disk
files that contain blocks of data associated with intervals on various
sequences (used, for example, to provide random access to individual
alignments in huge files; optomized for use over network filesystems).
Data structures for working with intervals on sequences:
* "Binned bitsets" which act just like chromosome sized bit arrays,
but lazily allocate regions and allow large blocks of all set or
all unset bits to be stored compactly
* "Intersecter" for performing fast intersection tests that preserve
both query and target intervals and associated annotation
WWW: https://github.com/bxlab/bx-python
PR: 218757
Submitted by: Yuri Victorovich <yuri@rawbw.com>
read and write SAM/BAM/VCF/BCF/BED/GFF/GTF/FASTA/FASTQ files as well as access
to the command line functionality of the samtools and bcftools packages. The
module supports compression and random access through indexing.
This module provides a low-level wrapper around the htslib C-API as using
cython and a high-level API for convenient access to the data within standard
genomic file formats.
WWW: https://pypi.python.org/pypi/pysam
PR: 218745
Submitted by: Yuri Victorovich <yuri@rawbw.com>
This release introduces some new features and fixes several bugs:
http://savannah.gnu.org/forum/forum.php?forum_id=8751
* update to 2.3 and take maintainership
* update math/py-gsl to 2.2.0 for gsl2 support
* update math/rubygem-rb-gsl to 2.1.0.2 for gsl2 support
PR: 218952
Exp-run by: antoine
Reviewed by: mat, rakuco
Approved by: rakuco (mentor)
Differential Revision: https://reviews.freebsd.org/D10522
2017-04-30 devel/py-coil: Unfetchable for more than six months (google code has gone away)
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2017-04-30 multimedia/opencinematools: Unfetchable for more than six months (google code has gone away)
2017-04-30 multimedia/vstream-client: Unfetchable for more than six months (google code has gone away)
2017-04-30 biology/treeviewx: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/pylot: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/xpi-pencil: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/mod_myvhost: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/feedonfeeds: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/mod_jail: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/jspacker: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/cocoon: Overly complex port with no maintainer since 2008, requires openjdk 1.6
2017-04-30 www/mod_authz_unixgroup24: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/trac-down: Upstream is gone
www/tengine
2017-04-30 www/arora: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/py-postmarkup: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/py-dotcloud.cli: deprecated in upstream
2017-04-30 www/closure-linter: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/httpsqs: Unfetchable for more than six months (google code has gone away)
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2017-04-30 www/py-django-app-plugins: Unfetchable for more than six months (google code has gone away)
2017-04-30 www/mod_authz_unixgroup22: Unfetchable for more than six months (google code has gone away)
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2017-04-30 www/xpi-pentadactyl: Unfetchable for more than six months (google code has gone away)
2017-04-30 net-mgmt/py-flowtools: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/ydict: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/py-cconv: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/fqterm: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/libgooglepinyin: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/p5-cconv: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/fcitx-googlepinyin: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/php-cconv: Unfetchable for more than six months (google code has gone away)
2017-04-30 chinese/ibus-table-chinese: Unfetchable for more than six months (google code has gone away)
2017-04-30 databases/jdbm2: Unfetchable for more than six months (google code has gone away)
2017-04-30 databases/akonadi-googledata: Unfetchable for more than six months (google code has gone away)
2017-04-30 lang/ofc: Unfetchable for more than six months (google code has gone away)
2017-04-30 comms/esmska: Unfetchable for more than six months (google code has gone away)
2017-04-30 x11/keynav: Unfetchable for more than six months (google code has gone away)
2017-04-30 x11/hotwire-shell: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/fuzzdb: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/truecrack: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/skipfish: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/py-yara-editor: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/nmapsi4: Unfetchable for more than six months (google code has gone away)
2017-04-30 security/cmd5checkpw: Unfetchable for more than six months (google code has gone away)
2017-04-30 net-p2p/unworkable: Unfetchable for more than six months (google code has gone away)
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2017-04-30 graphics/rubygem-gemojione2: Use graphics/rubygem-gemojione instead
- The base compilers meet all of Diamond's requirements, so remove
compiler:c++11-lang from USES definition.
- Upstream release notes:
https://github.com/bbuchfink/diamond/releases/tag/v0.8.38
Approved by: swills (mentor, implicit)
lang/gcc which have moved from GCC 4.9.4 to GCC 5.4 (at least under some
circumstances such as versions of FreeBSD or platforms).
This includes ports
- with USE_GCC=yes or USE_GCC=any,
- with USES=fortran,
- using using Mk/bsd.octave.mk which in turn has USES=fortran, and
- with USES=compiler specifying openmp, nestedfct, c++11-lib, c++14-lang,
c++11-lang, c++0x, c11, or gcc-c++11-lib.
PR: 216707
EXPIRATION_DATE at the end of April 2017.
In the past six months, about a third of the ports marked BROKEN because
they were hosted on Google Code have been fixed. The remaining must not
be of use to anyone.
With hat: portmgr
Sponsored by: Absolight
Upstream changelog:
- Added compositional score adjustments (option --comp-based-stats
(0,1)). This is a useful feature for filtering false positive hits and
is enabled by default.
- Removed --single-domain option and replaced by --max-hsps, to set the
maximum number of Hsps per query/subject pair, to be consistent with
BLAST. This option is set to 1 by default as getting more than 1 Hsp
per subject seems to be confusing users.
- Added option --no-self-hits to filter identical self-hits.
Approved by: AMDmi3 (mentor)
Differential Revision: https://reviews.freebsd.org/D9134
If you want to set WRKSRC, set GH_PROJECT instead.
- The GitHub URLs are case insensitive, but the distribution files you
get out of them are not.
- If the repository was renamed, the old URL will still work, but the
distribution name will be ith the new name.
Sponsored by: Absolight
Many ports passed ZLIB_CFLAGS="-I/usr/include" ZLIB_LIBS="-L/usr/lib -lz"
which is unsafe at least with lang/gcc* that override some system headers
and have newer libgcc_s.so that our old version in base may not be
forward-compatible with.
Upstream changes:
- slightly improved sensitivity
- added option to report unaligned queries: --unal (0=no, 1=yes)
- pairwise, XML and SAM format will report unaligned queries by default
- added option to filter alignments by subject cover (--subject-cover)
Approved by: swills (mentor)
Differential Revision: https://reviews.freebsd.org/D9000
Changes in version 4.6.6:
Bug fix for cd-hit-dup in variable length input when write out R1 reads
Changes in version 4.6.5:
Add filter for -aL option so that short sequences will be skipped if not
satisfy representative sequences' -aL requirement. This will make compute
faster in clustering settings where sequences in the same cluster are
required to have similar length using -aL -AL option (e.g. -aL 0.9).
Approved by: AMDmi3 (mentor) swills (mentor)
Differential Revision: https://reviews.freebsd.org/D8186
Upstream changes since version 2.2.4:
- Fix compilation warnings/errors with newer version of gcc (5.3 & 6.1).
- Fix bug in parsing function that made it stop on sequences that consist
of only empty lines.
- New methods in bindings to enumerate the mers of a string.
Approved by: AMDmi3 (mentor)
Differential Revision: https://reviews.freebsd.org/D8204
Bio::Coordinate classes are used for working with various biological coordinate
systems. See Bio::Coordinate::Collection and Bio::Collection::Pair for examples.
WWW: http://search.cpan.org/dist/Bio-Coordinate/
- Change MASTER_SITES back to CPAN
- Update LICENSE
- Add LICENSE_FILE
- Use PORTDOCS
- Convert to options target helper
- Use INSTALL_SCRIPT
- Pet portlint: fix diff header of patch file
Changes: http://search.cpan.org/dist/BioPerl-Run/Changes
- Update *_DEPENDS
- Use TEST_DEPENDS: Test::Most and URI::Escape are test-only dependencies
- Use PORTDATA, PORTDOCS and PORTEXAMPLES
Changes: http://search.cpan.org/dist/BioPerl/Changes
Upstream change: fixed an issue that could cause a crash when using view on
incomplete DAA files
Approved by: swills (mentor)
Differential Revision: https://reviews.freebsd.org/D8832
lang/gcc which have moved from GCC 4.8.5 to GCC 4.9.4 (at least under some
circumstances such as versions of FreeBSD or platforms), part II.
The first part covered ports with USE_GCC=yes, USE_GCC=any, or one of
gcc-c++11-lib, openmp, nestedfct, c++11-lib as well as c++14-lang,
c++11-lang, c++0x, c11 requested via USES=compiler.
This adds ports with USES=fortran and ports using Mk/bsd.octave.mk
which in turn has USES=fortran.
PR: 214965
Reported by: thierry
The only reason to use post-stage is because the port needs to do
"things" at a later time, like some plist manipulation.
While there, fold post-install in do-install targets when they are
defined.
PR: 214780
Submitted by: mat
Exp-run by: antoine
Sponsored by: Absolight
Correct LICENSE and set LICENSE_FILE
Upstream changelog:
- support for gzip compressed files containing multiple gzip streams
- support for the BLAST pairwise format (option -f 0)
- slightly improved sensitivity
Approved by: AMDmi3 (mentor)
Differential Revision: https://reviews.freebsd.org/D8652
lang/gcc which have moved from GCC 4.8.5 to GCC 4.9.4 (at least under some
circumstances such as versions of FreeBSD or platforms).
In particular that is ports with USE_GCC=yes, USE_GCC=any, or one of
gcc-c++11-lib, openmp, nestedfct, c++11-lib as well as c++14-lang,
c++11-lang, c++0x, c11 requested via USES=compiler.
- Blixem: Features can now be added to multiple different groups/filters.
- Belvu: Fix a problem where column highlighting can get out of sync
with the text.
- Update to version 4.9c
- Set LICENSE=GPLv3
- Use the variable PORTDOCS to automate the generation of the DOCS plist (as
suggested by mat@).
- Install dat/ examples/ and Technical/ directories as well as files in the root
directory of the distribution tarball.
- Fix broken permissions.
- Delete Windows executables.
- Build and install useful binaries not built by upstream's Makefile.
- Update pkg-descr.
Reviewed by: swills (mentor)
Approved by: swills (mentor)
Differential Revision: https://reviews.freebsd.org/D8040
- If a port has another upstream, remove GOOGLE_CODE
- If a port only has GOOGLE_CODE mark it BROKEN
Some ports have a local mirror configured but for security reasons, it
is not considered upstream.
Sponsored by: Absolight
hide actual commands executed and only show short summary line (like
"CC foo.c"). CMake and ninja enable this by default, some autotools
using ports do as well. This is unacceptable because we need complete
build logs at any time, so we now switch to verbose build logs
unconditionally. Note that this change deliberately affects ALL
builds and not only package builds on cluster, because we need to
be sure that user experiencing failure can always provide informative
build log regardless of settings and without rerunning the build.
Change summary:
- Always do verbose builds for cmake, ninja and GNU configure (the
latter includes check if --disable-silent-rules is actually supported
by the configure script; there are isolated cases when it's not true)
- Remove CMAKE_VERBOSE, NINJA_VERBOSE and
CONFIGURE_ARGS=--disable-silent-rules from all ports which set them
for this is no longer needed
- Revert hacks for --disable-silent-rules support priorly committed
to biology/ncbi-blast+ and net-p2p/mldonkey - no longer needed as well
Submitted by: amdmi3
Reviewed by: mat
Exp-run by: antoine
Approved by: portmgr (mat, antoine)
Differential Revision: D7534
Mk/Uses/linux.mk.
- Replace USE_LINUX=yes with USES+=linux and USE_LINUX=(.*) with
USES+=linux:\1 in all ports.
- Replace USE_LINUX_APPS with USE_LINUX in all ports.
- Use INSTALL_SCRIPT instead of INSTALL_PROGRAM to install scripts in some
ports.
- When USE_LINUX_RPM is defined, simplify the way DISTFILES and EXTRACT_ONLY
are defined.
- Remove BRANDELF_DIRS and BRANDELF_FILES handling. In the very rare cases
that it is still necessary ports can run ${BRANDELF} from post-patch.
- Remove AUTOMATIC_PLIST handling. Only one port used it.
- Fix Linux MASTER_SITES.
- Replace OVERRIDE_LINUX_BASE_PORT and OVERRIDE_LINUX_NONBASE_PORTS with
default versions framework.
- bsd.port.mk:
- Move Linux related bits to Uses/linux.mk, except USE_LINUX_PREFIX.
- Put USE_LINUX_PREFIX handling after USES processing.
- Define DOCSDIR, DATADIR, etc. after handling USE_LINUX_PREFIX so it can
give these variables a different default value.
- When a package needs to run Linux ldconfig check before installation if
Linux support is enabled.
- emulators/linux_base-*:
- Use USES=linux and remove duplication.
- Remove files/lp. FreeBSD or CUPS lp(1) should work.
- Remove files/yp.conf. No longer seems to be used.
- Remove pkg-deinstall and move pkg-install into pkg-plist.
- Update pkg-descr and pkg-message.
- Fix handling of ldconfig cache in pkg-plist.
- devel/fb-adb: Use a Linux shell to run a Linux script but patch the script
to use FreeBSD mkdir so mkdir -p $path creates $path and not
/compat/linux/$path.
PR: 211645
Exp-run by: antoine
Approved by: portmgr (antoine)
- Adds editable text fields that are longer than the visible string
and introduces a new way of selecting a range of amino acids.
- introduces interfaces to the open source packages openbabel and pharmer.
Openbabel is used to create 2D images of the molecules in a .sdf
file. It is also used to do 2D fingerprint searching.
Pharmer is used to pharmacophore (3D) searching against indexed
databases of .sdf files.
- Regenerate patches with `make makepatch`
- Mark WXGTK option broken: does not build: src/convErr/gc_errhandling.cpp:75:12: error: cannot initialize return object of type 'const char *' with an rvalue of type 'const wxChar *' (aka 'const wchar_t *')
everything at once. Sometime, rename post-install into a options helper
target.
I did not fix ports that were such a mess that I could not figure out
what they really wanted to do. I also did not change ports that had
some version of an auto-plist code in post-install, for the same reason.
With hat: portmgr
Sponsored by: Absolight
2016-07-04 security/openpgpsdk: Broken for more than 6 months
2016-07-04 security/radiusniff: Broken for more than 6 months
2016-07-04 security/pear-Auth_OpenID: Broken for more than 6 months
2016-07-04 security/sshit: Broken for more than 6 months
2016-07-04 security/ifd-slb_rf60: Broken for more than 6 months
2016-07-04 security/rainbowcrack: Broken for more than 6 months
2016-07-04 security/vlog: Broken for more than 6 months
2016-07-04 security/cryptstring: Broken for more than 6 months
2016-07-04 x11/libdnd: Broken for more than 6 months
2016-07-04 x11/xlupe: Broken for more than 6 months
2016-07-04 x11/xco: Broken for more than 6 months
2016-07-04 x11/xclick: Broken for more than 6 months
2016-07-04 devel/ocfpcsc: Broken for more than 6 months
2016-07-04 devel/dits: Broken for more than 6 months
2016-07-04 devel/ruby-cache: Broken for more than 6 months
2016-07-04 devel/rapidsvn: Broken for more than 6 months
2016-07-04 devel/svnkit: Broken for more than 6 months
2016-07-04 devel/py-EnthoughtBase: Broken for more than 6 months
2016-07-04 devel/cl-uffi: Broken for more than 6 months
2016-07-04 devel/ruby-event-loop: Broken for more than 6 months
2016-07-04 devel/libqxt: Broken for more than 6 months
2016-07-04 devel/dasm: Broken for more than 6 months
2016-07-04 devel/libopendaap: Broken for more than 6 months
2016-07-04 devel/cl-uffi-sbcl: Depends on expiring devel/cl-uffi
2016-07-04 devel/cvs2p4: Broken for more than 6 months
2016-07-04 devel/bufferpool: Broken for more than 6 months
2016-07-04 devel/ifd-test: Broken for more than 6 months
2016-07-04 devel/eric4: Broken for more than 6 months
2016-07-04 devel/uclmmbase: Broken for more than 6 months
2016-07-04 devel/obfuscatejs: Broken for more than 6 months
2016-07-04 devel/oniguruma: Broken for more than 6 months
2016-07-04 devel/libbnr: Broken for more than 6 months
2016-07-04 devel/c4: Broken for more than 6 months
2016-07-04 devel/memcheck: Broken for more than 6 months
2016-07-04 devel/liblcfg: Broken for more than 6 months
2016-07-04 devel/omake: Broken for more than 6 months
2016-07-04 devel/svndelta: Broken for more than 6 months
2016-07-04 devel/papp: Broken for more than 6 months
2016-07-04 devel/mk: Broken for more than 6 months
2016-07-04 devel/avltree: Broken for more than 6 months
2016-07-04 devel/cbind: Broken for more than 6 months
2016-07-04 devel/tclgetopts: Broken for more than 6 months
2016-07-04 devel/antlrworks: Broken for more than 6 months
2016-07-04 devel/acme: Broken for more than 6 months
2016-07-04 devel/libopensync022: Broken for more than 6 months
2016-07-04 archivers/epkg: Broken for more than 6 months
2016-07-04 print/enscriptfonts: Broken for more than 6 months
2016-07-04 print/mup: Broken for more than 6 months
2016-07-04 lang/lua-mode.el: Broken for more than 6 months
2016-07-04 lang/s9fes: Broken for more than 6 months
2016-07-04 lang/alisp: Broken for more than 6 months
2016-07-04 lang/intel2gas: Broken for more than 6 months
2016-07-04 lang/stalin: Broken for more than 6 months
2016-07-04 french/eric4: Depends on expiring devel/eric4
2016-07-04 textproc/exslt: Broken for more than 6 months
2016-07-04 textproc/xt: Broken for more than 6 months
2016-07-04 textproc/ssddiff: Broken for more than 6 months
2016-07-04 textproc/xslint: Broken for more than 6 months
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2016-07-04 textproc/tralics: Broken for more than 6 months
2016-07-04 textproc/docbookide.el: Broken for more than 6 months
2016-07-04 textproc/glpi-plugins-AdditionalReports: Broken for more than 6 months
2016-07-04 textproc/tdhkit: Broken for more than 6 months
2016-07-04 textproc/p5-Groonga-API: Broken for more than 6 months
2016-07-04 textproc/glpi-plugins-DataInjection: Broken for more than 6 months
2016-07-04 dns/ldnsm: Broken for more than 6 months
2016-07-04 japanese/guesswork-classic: Broken for more than 6 months
2016-07-04 japanese/texinfo: Broken for more than 6 months
2016-07-04 japanese/jyuroku: Broken for more than 6 months
2016-07-04 japanese/mtools: Broken for more than 6 months
2016-07-04 palm/pdbar: Broken for more than 6 months
2016-07-04 graphics/gplot: Broken for more than 6 months
2016-07-04 graphics/white_dune: Broken for more than 6 months
2016-07-04 graphics/whirlgif: Broken for more than 6 months
2016-07-04 graphics/libaux: Broken for more than 6 months
2016-07-04 graphics/import-pictures: Broken for more than 6 months
2016-07-04 math/xgobi: Broken for more than 6 months
2016-07-04 math/fricas: Broken for more than 6 months
2016-07-04 math/dcdflib: Broken for more than 6 months
2016-07-04 math/libneural: Broken for more than 6 months
2016-07-04 math/open-axiom: Broken for more than 6 months
2016-07-04 irc/nefarious: Broken for more than 6 months
2016-07-04 irc/slirc: Broken for more than 6 months
2016-07-04 irc/ratbox-respond: Broken for more than 6 months
2016-07-04 irc/qwebirc: Broken for more than 6 months
2016-07-04 biology/platon: Broken for more than 6 months
2016-07-04 news/slnr: Broken for more than 6 months
2016-07-04 science/jmol: Broken for more than 6 months
2016-07-04 net/nstxd: Broken for more than 6 months
2016-07-04 net/sprinkle: Broken for more than 6 months
2016-07-04 editors/ssam: Broken for more than 6 months
2016-07-04 editors/fb: Broken for more than 6 months
2016-07-04 misc/quotes: Broken for more than 6 months
2016-07-04 misc/boxquote.el: Broken for more than 6 months
2016-07-04 misc/pypanda: Broken for more than 6 months
2016-07-04 misc/cuecat: Broken for more than 6 months
2016-07-04 deskutils/displaycalibrator: Broken for more than 6 months
2016-07-04 german/eric4: Depends on expiring devel/eric4
2016-07-04 multimedia/vic: Depends on expiring devel/uclmmbase
2016-07-04 multimedia/ggrab: Broken for more than 6 months
2016-07-04 emulators/dynamips: Broken for more than 6 months
2016-07-04 emulators/dynamips-devel: Broken for more than 6 months
2016-07-04 emulators/sim6811: Broken for more than 6 months
2016-07-04 emulators/minivmac: Broken for more than 6 months
2016-07-04 cad/qcad-partslib: Broken for more than 6 months
2016-07-04 comms/dump1090_mr: Broken for more than 6 months
2016-07-04 x11-fm/asfiles: Depends on expiring x11/libdnd
2016-07-04 x11-fonts/fonts-te: Broken for more than 6 months
2016-07-04 sysutils/rsyncmanager: Broken for more than 6 months
2016-07-04 sysutils/jfbterm: Broken for more than 6 months
2016-07-04 sysutils/daedalus: Broken for more than 6 months
2016-07-04 sysutils/pcfclock: Broken for more than 6 months
2016-07-04 sysutils/vlogger: Broken for more than 6 months
2016-07-04 sysutils/bontmia: Broken for more than 6 months
2016-07-04 mail/pop3gwd: Broken for more than 6 months
2016-07-04 mail/mailtray: Broken for more than 6 months
2016-07-04 mail/pflogstats: Broken for more than 6 months
2016-07-04 mail/exact: Broken for more than 6 months
2016-07-04 mail/wmpop3: Broken for more than 6 months
2016-07-04 mail/qmail-conf: Broken for more than 6 months
2016-07-04 mail/gld: Broken for more than 6 months
2016-07-04 mail/dsbl-testers: Broken for more than 6 months
2016-07-04 mail/vqregister: Broken for more than 6 months
2016-07-04 mail/atmail: Broken for more than 6 months
2016-07-04 mail/ml: Broken for more than 6 months
2016-07-04 net-im/icb: Broken for more than 6 months
2016-07-04 net-im/cicquin: Broken for more than 6 months
2016-07-04 net-im/pidgin-manualsize: Broken for more than 6 months
2016-07-04 net-im/pidgin-rhythmbox: Broken for more than 6 months
2016-07-04 russian/eric4: Depends on expiring devel/eric4
2016-07-04 russian/fortune-bashorgru: Broken for more than 6 months
2016-07-04 www/xpi-clearfields: Broken for more than 6 months
2016-07-04 www/pecl-varnish: Broken for more than 6 months
2016-07-04 www/py-requests-oauth-hook: Broken for more than 6 months
2016-07-04 www/hudson: Broken for more than 6 months
2016-07-04 www/xpi-mldonkey: Broken for more than 6 months
2016-07-04 www/xpi-cookiesafe: Broken for more than 6 months
2016-07-04 www/trac-mastertickets: Broken for more than 6 months
2016-07-04 www/dotclear: Broken for more than 6 months
2016-07-04 www/ruby-wgettsv: Broken for more than 6 months
2016-07-04 www/wwwstat: Broken for more than 6 months
2016-07-04 www/xpi-prism: Broken for more than 6 months
2016-07-04 www/xpi-fasterfox: Broken for more than 6 months
2016-07-04 www/siteframe: Broken for more than 6 months
2016-07-04 www/py-urljr: Broken for more than 6 months
2016-07-04 www/reviewboard: Broken for more than 6 months
2016-07-04 www/xpi-tabletools: Broken for more than 6 months
2016-07-04 www/wikindx: Broken for more than 6 months
2016-07-04 www/typolight: Broken for more than 6 months
2016-07-04 www/varnish-libvmod-header: Broken for more than 6 months
2016-07-04 www/xpi-gbrain: Broken for more than 6 months
2016-07-04 www/trac-robotstxt: Broken for more than 6 months
2016-07-04 www/simplog: Broken for more than 6 months
2016-07-04 www/chtml: Broken for more than 6 months
2016-07-04 databases/postgresql_autodoc: Broken for more than 6 months
2016-07-04 databases/oracle_odbc_driver: Broken for more than 6 months
2016-07-04 databases/mysql-xql: Broken for more than 6 months
2016-07-04 databases/mysql-udf-sys: Broken for more than 6 months
2016-07-04 games/lucidlife: Broken for more than 6 months
2016-07-04 games/gma: Broken for more than 6 months
2016-07-04 games/smiley: Broken for more than 6 months
2016-07-04 games/noegnud-littlehack: Broken for more than 6 months
2016-07-04 games/sdlquake2: Broken for more than 6 months
2016-07-04 games/daimonin: Depends on expiring games/daimonin-music
2016-07-04 games/noegnud-nethack: Broken for more than 6 months
2016-07-04 games/xbomber: Broken for more than 6 months
2016-07-04 games/xwelltris: Broken for more than 6 months
2016-07-04 games/ftjava: Broken for more than 6 months
2016-07-04 games/daimonin-music: Broken for more than 6 months
2016-07-04 games/gno3dtet: Broken for more than 6 months
2016-07-04 games/qtv: Broken for more than 6 months
2016-07-04 games/xwordpy: Broken for more than 6 months
2016-07-04 games/netris: Broken for more than 6 months
2016-07-04 games/rt2-demo: Broken for more than 6 months
2016-07-04 games/noegnud-addons: Broken for more than 6 months
2016-07-04 games/noegnud-nethack-deet: Broken for more than 6 months
2016-07-04 games/live-f1: Broken for more than 6 months
2016-07-04 games/xonix: Broken for more than 6 months
2016-07-04 games/fgkicker: Broken for more than 6 months
2016-07-04 games/tank: Depends on expiring graphics/libaux
2016-07-04 games/linux-nwserver: Broken for more than 6 months
2016-07-04 games/quake2-zaero: Broken for more than 6 months
2016-07-04 games/pyching: Broken for more than 6 months
2016-07-04 games/thevalley: Broken for more than 6 months
2016-07-04 games/xroads: Broken for more than 6 months
2016-07-04 games/fxsudoku: Broken for more than 6 months
2016-07-04 games/sudoku: Broken for more than 6 months
2016-07-04 games/kmancala: Broken for more than 6 months
2016-07-04 games/plonx: Broken for more than 6 months
2016-07-04 games/wmminichess: Broken for more than 6 months
2016-07-04 games/noegnud-slashem: Broken for more than 6 months
2016-07-04 games/latrine: Broken for more than 6 months
2016-07-04 games/pysycache-themes: Broken for more than 6 months
2016-07-04 games/nibbles: Broken for more than 6 months
2016-07-04 games/hlstatsx: Broken for more than 6 months
2016-07-04 audio/streamtuner: Broken for more than 6 months
2016-07-04 audio/mangler: Broken for more than 6 months
2016-07-04 audio/hawkvoice: Broken for more than 6 months
2016-07-04 audio/alac: Broken for more than 6 months
2016-07-04 x11-wm/e-module-mpdule: Broken for more than 6 months
2016-07-04 x11-wm/e-module-tclock: Broken for more than 6 months
2016-07-04 x11-wm/musca: Broken for more than 6 months
2016-07-04 x11-wm/e-module-places: Broken for more than 6 months
2016-07-04 x11-wm/e-module-forecasts: Broken for more than 6 months
2016-07-04 x11-wm/e-module-net: Broken for more than 6 months
2016-07-04 x11-wm/e-module-penguins: Broken for more than 6 months
2016-07-04 ftp/fget: Broken for more than 6 months
2016-07-04 net-mgmt/netmond: Broken for more than 6 months
2016-07-04 net-mgmt/ipfm: Broken for more than 6 months
