CVE and update status of the FreeBSD ports tree4,526 unaddressed CVEs in 616 portsAll times are CET

Port details

science/massxpert6.0.3_1

Software suite for (bio)chemists

Maintainer
ports@FreeBSD.org
Packages
massxpert 6.0.3_1
Upstream
Higher version available: 7.0.0
CPE
none, CVEs only via VuXML
WWW
http://www.msxpertsuite.org
Links
cgit · VuXML

Unaddressed (0) · The CVE record lists this version as affected, no VuXML entry names the CVE

None. There is no CVE without a VuXML entry for this version.

VuXML only (0) · listed, port not fixed yet

None. pkg audit reports nothing for this version.

Fixed (0)

No VuXML entries for this package.

Commits (55)

Lorenzo Salvadore (salvadore) · 6.0.3_1
*/*: Drop maintainership for some of my ports

Drop maintainership for ports for which I do not have much interest any
more or for which I do not have as much time as they require, so that I
can focus more on the ports I maintain and other projects both inside
and outside FreeBSD and so that they can be adopted by other
contributors.
cca6bb3451
Felix Palmen (zirias) · 6.0.3
bsd.sites.mk: Update all ports using USE_GITLAB

Replace GL_COMMIT by GL_TAGNAME in all ports. The new GL_TAGNAME is
backwards-compatible (accepting any commit hash as before), but also
understands an actual tag name. Moving to tag names where appropriate is
left to individual ports' maintainers.

Approved by:		portmgr (tcberner, mentor)
Differential Revision:	https://reviews.freebsd.org/D37077
7d1faa7179
Lorenzo Salvadore (salvadore) · 6.0.3
science/massxpert: drop unused libpthread-stubs

PR:		269468
Approved by:	salvadore (maintainer)
9b81c04be8
Felix Palmen (zirias) · 6.0.3
Mk/Uses: always use colon for build/run suffix

Most USES use a colon for build/run(/test) suffixes. Change kde.mk,
qt.mk and pyqt.mk to do the same, and update all ports using that.

Document in CHANGES.

PR:			266034
Exp-run by:		antoine
Approved by:		tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D36349
ddae4e92d8
Stefan Eßer (se) · 6.0.3
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)
fb16dfecae
Stefan Eßer (se) · 6.0.3
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.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)
b7f05445c0
Tobias C. Berner (tcberner) · 6.0.3
science: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Andreas Fehlner <fehlner@gmx.de>
  *  Brad Huntting <huntting@glarp.com>
  *  Chao Shin <quakelee@cn.FreeBSD.org>
  *  Cheng-Lung Sung <clsung@FreeBSD.org>
  *  Chia-Hsing Yu <me@davidyu.org>
  *  Chris Rees <utisoft@gmail.com>
  *  David Naylor <dbn@FreeBSD.org>
  *  Dmitry Sivachenko <demon@FreeBSD.org>
  *  Ed Schouten <ed@FreeBSD.org>
  *  Eric Freeman <freebsdports@chillibear.com>
  *  Erik B Knudsen
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Frederic Culot <frederic@culot.org>
  *  Gea-Suan Lin <gslin@gslin.org>
  *  Glenn Johnson
  *  Greg Lewis <glewis@FreeBSD.org>
  *  Igor Serikov <iserikov@acm.org>
  *  Johannes Dieterich <dieterich@ogolem.org>
  *  Johannes Dieterich <jmd@FreeBSD.org>
  *  Johannes M Dieterich <jmd@FreeBSD.org>
  *  Johannes Meixner <johannes@perceivon.net>
  *  Ju Pengfei <jupengfei@gmail.com>
  *  Kay Lehmann <kay_lehmann@web.de>
  *  Klaus Aehlig <aehlig@linta.de>
  *  Kurt Kanzenbach <kurt@kmk-computers.de>
  *  Leland Wang <llwang@infor.org>
  *  Li-Lun Wang <llwang@infor.org>
  *  Markus Brueffer <markus@FreeBSD.org>
  *  NAKATA Maho <maho@FreeBSD.org>
  *  NAKATA, Maho <maho@FreeBSD.org>
  *  Nakata Maho <chat95@mbox.kyoto-inet.or.jp>
  *  Nakata Maho <maho@FreeBSD.org>
  *  Pav Lucistnik <pav@FreeBSD.org>
  *  Pav Lucistnik <pav@oook.cz>
  *  Pedro F. Giffuni
  *  Pedro F. Giffuni <giffunip@tutopia.com>
  *  Pedro Giffuni
  *  Pedro Giffuni <giffunip@asme.org>
  *  Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Rong-En Fan <rafan@FreeBSD.org>
  *  Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
  *  Seamus Venasse <svenasse@polaris.ca>
  *  Shin'ya Murakami <murakami@ahs.scitec.kobe-u.ac.jp>
  *  Shin-ya MURAKAMI <murashin@gfd-dennou.org>
  *  Shin-ya Murakami <murashin@gfd-dennou.org>
  *  Stas Timokhin <devel@stasyan.com>
  *  Stephen Montgomery-Smith <stephen@math.missouri.edu>
  *  Steve Wills <steve@mouf.net
  *  Steve Wills <steve@mouf.net>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@sunpoet.net>
  *  TAKATSU Tomonari <tota@FreeBSD.org>
  *  TAOKA Fumiyoshi
  *  Thierry Thomas <thierry@pompo.net>
  *  Tim Cas <ports@stdrand.com>
  *  Uffe Jakobsen <uffe@uffe.org>
  *  Veniamin Gvozdikov <vg@FreeBSD.org>
  *  Vsevolod Stakhov <vsevolod@highsecure.ru>
  *  Wen Heping <wen@FreeBSD.org>
  *  Wen Heping <wenheping@gmail.com>
  *  Wen heping <wenheping@gmail.com>
  *  Ying-Chieh Liao <ijliao@FreeBSD.org>
  *  Yuri Victorovich <yuri@rawbw.com>
  *  anholt@FreeBSD.org
  *  bacon@smithers.neuro.mcw.edu
  *  batman <batman@udel.edu>
  *  db
  *  gurkan@phys.ethz.ch
  *  ijliao
  *  jbacon
  *  maintainer.freebsd@xpoundit.com
  *  mi
  *  rafan@infor.org
  *  shurd@FreeBSD.org
  *  thierry@pompo.net
  *  will

With hat:	portmgr
46196047a4
Lorenzo Salvadore (salvadore) · 6.0.3
science/massxpert: Improve port

- Remove unneeded dependency on libpcre. [1]
- Add USES= compiler:c++17-lang, consistent with
  set(CMAKE_CXX_STANDARD 17) (line 65 of CMakeLists.txt). [1]
- Remove USES= tar:bzip2. [1]
- Set WWW in pkg-descr to the site reported by README.md.

Reported by:	diizzy [1]
Reviewed by:	diizzy
Approved by:	gerald (mentor)
Differential Revision:	https://reviews.freebsd.org/D35138
1e0a1b9bd6
Lorenzo Salvadore (salvadore) · 6.0.3
science/massxpert: Update to 6.0.3 and adopt

Summary:
- Update to 6.0.3
- Remove unneeded dependency on GCC, fixing [1]
- Style improvements
- Adopt

PR:		263541 [1]
Approved by:	gerald (mentor)
Differential Revision:	https://reviews.freebsd.org/D35072
c768cdd4fe
Matthias Fechner (mfechner) · 3.6.1_1
Regenerate all distfiles using gitlab as source.

This regeneration is required as the new gitlab version changed
the address and the directory the source files can be downloaded.

This commit also applies some small fixes to make sure all ports using
gitlab are buildable.

Reviewed by:	mat
Approved by:	portmgr
Differential Revision:	https://reviews.freebsd.org/D29628
911f04257e
Mathieu Arnold (mat) · 3.6.1_1
Remove # $FreeBSD$ from Makefiles.
305f148f48
Alexey Dokuchaev (danfe) · 3.6.1_1
Sanitize COMMENT per Section 5.6 of the FreeBSD Porter's Handbook (part 6).
2c4b1d164e
Niclas Zeising (zeising) · 3.6.1_1
Add USES=xorg USES=gl, ports categories s

Add USES=xorg and USES=gl to ports in categories starting with 's'
While here, try to sprinkle other USES (mostly gnome and sdl) as needed.
428fac4e1c
Gerald Pfeifer (gerald) · 3.6.1_1
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
ea8c8ec7da
Tobias C. Berner (tcberner) · 3.6.1
science/massxpert: prepare for Qt 5.13

PR:		238782
61ee61d083
Piotr Kubaj (pkubaj) · 3.6.1
science/massxpert: fix build with GCC-based architectures

Replace USE_GCC=any with USE_GCC=yes to fix build on GCC architectures.

Build failure log:
CMake Error in lib/CMakeLists.txt:

  The compiler feature "cxx_decltype" is not known to CXX compiler

  "GNU"

   version 4.2.1.

Approved by:	tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D20067
bf6aa4f49e
Yuri Victorovich (yuri) · 3.6.1
science/massxpert: Update 3.4.0 -> 3.6.1

This software seems to be abandoned by its upstream, and rescued by the Debian team.
I've set its source to Debian's GitLab server, where they source it from now.

Port changes:
* 3.6.1 is Qt5-based: remove the DEPRECATED lines
* USE_GCC seems to be needed due to clang error messages
* MAKE_JOBS_UNSAFE isn't needed
8cc0cedbc9
Gerald Pfeifer (gerald) · 3.4.0_12
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
a9f015d155
Rene Ladan (rene) · 3.4.0_11
Mark QT4 ports/functionality for removal on 2019-03-15

While here, chase some KDE4 ports and functionality, these are scheduled for
removal on 2018-12-31. Change the default option/flavor to QT5 where applicable
or use alternative toolkits like GTK.

Submitted by:	tcberner
Reviewed by:	adridg, jhale, rene, tcberner
Approved by:	portmgr (implicit, flavor hook)
Differential Revision:	https://reviews.freebsd.org/D17741
99d6d12a38
Gerald Pfeifer (gerald) · 3.4.0_11
Bump PORTREVISION for ports depending on the canonical version of GCC in the ports tree (via Mk/bsd.default-versions.mk and lang/gcc) which has now moved from GCC 6 to GCC 7 by default.

This includes ports
 - featuring USE_GCC=yes or USE_GCC=any,
 - featuring USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and those
 - with USES=compiler specifying one of openmp, nestedfct, c11, c++0x,
   c++11-lib, c++11-lang, c++14-lang, c++17-lang, or gcc-c++11-lib.

PR:		222542
09f9633cb6
Tobias C. Berner (tcberner) · 3.4.0_10
Replace bsd.qt.mk by Uses/qt.mk and Uses/qt-dist.mk

From now on, ports that depend on Qt4 will have to set
	USES=		qt:4
	USE_QT=		foo bar
ports depending on Qt5 will use
	USES=		qt:5
	USE_QT=		foo bar

PR:		229225
Exp-run by:	antoine
Reviewed by:	mat
Approved by:	portmgr (antoine)
Differential Revision:	→https://reviews.freebsd.org/D15540
b1a1d38bf9
Gerald Pfeifer (gerald) · 3.4.0_10
Bump PORTREVISIONs of all users of math/mpc that we just updated to version 1.1.0 (via revision 464079).
c2a92a1aea
Rene Ladan (rene) · 3.4.0_9
Reset vg@'s ports after he resigned.

With hat:	portmgr-secretary
fbd43637e1
Gerald Pfeifer (gerald) · 3.4.0_9
Bump PORTREVISION for ports depending on the canonical version of GCC (via Mk/bsd.default-versions.mk and lang/gcc) which has moved from GCC 5.4 to GCC 6.4 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, c++11-lib, c++11-lang,
   c++14-lang, c++0x, c11, or gcc-c++11-lib.

PR:		219275
e59c88cece
Raphael Kubo da Costa (rakuco) · 3.4.0_8
Revert r447879.

Apparently the build is indeed broken with parallel jobs, even though I wasn't
able to reproduce it in my tests. Checking what's broken would take time and
anyone interested in that should rather try updating the port to 3.6.0.

PR:		219293
Reported by:	John Marino <freebsdml@marino.st>
7b8ee6a695
Raphael Kubo da Costa (rakuco) · 3.4.0_8
Drop MAKE_JOBS_UNSAFE.

Tentatively remove it after testing the port with -j2 and -jLOTS_OF_CORES.

PR:		219293
603032a36f
Raphael Kubo da Costa (rakuco) · 3.4.0_8
Add patch to drop a wrong ';' in an if check.

In addition to fixing an actual bug, this also fixes the build with GCC 6:

/wrkdirs/usr/ports/science/massxpert/work/massxpert-3.4.0/lib/propListHolder.cpp: In member function 'bool massXpert::PropListHolder::removeProp(const QString&)':
/wrkdirs/usr/ports/science/massxpert/work/massxpert-3.4.0/lib/propListHolder.cpp:216:2: error: this 'if' clause does not guard... [-Werror=misleading-indentation]
  if(m_propList.at(iter)->name() == name);
  ^~
/wrkdirs/usr/ports/science/massxpert/work/massxpert-3.4.0/lib/propListHolder.cpp:217:2: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if'
  {

PR:		219293
Approved by:	maintainer timeout (vg, 18 days)
MFH:		2017Q3
8d6300ed68
Raphael Kubo da Costa (rakuco) · 3.4.0_7
Update WWW.

The massxpert.org domain no longer belongs to the project.
c6bff79fef
Gerald Pfeifer (gerald) · 3.4.0_7
Bump PORTREVISIONs for ports depending on the canonical version of GCC and 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
04d6f52202
Ashish SHUKLA (ashish) · 3.4.0_6
- Update devel/libpthread-stubs to 0.4 - Chase libpthread-stubs update, and also switch to BUILD_DEPENDS   from LIB_DEPENDS, as port is now only .pc file

PR:		218015
Submitted by:	rezny
9cba0ef67a
Gerald Pfeifer (gerald) · 3.4.0_5
Bump PORTREVISIONS for ports depending on the canonical version of GCC and 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.
89f8b05214
Mathieu Arnold (mat) · 3.4.0_4
Remove ${PORTSDIR}/ from dependencies, categories r, s, t, and u.

With hat:	portmgr
Sponsored by:	Absolight
597afc47ba
Raphael Kubo da Costa (rakuco) · 3.4.0_4
Drop USES=iconv.

The port's source does not use iconv anywhere, so remove the unnecessary
dependency from the Makefile.

PR:		202717
Approved by:	maintainer timeout (vg, 14 days)
333ff881f6
John Marino (marino) · 3.4.0_3
science/massxpert: Fix two logical errors (found by gcc5)

There were two boolean logic issues found by gcc5 when compiling
massxpert.  One was comparing boolean output to a negative integer
(is always false) and the other applied the "not" operator in the wrong
place.  Fix provided per request by maintainer.

PR:	197823
94c5d47dac
Baptiste Daroussin (bapt) · 3.4.0_2
Bump portrevision after png update
bb21093773
Antoine Brodin (antoine) · 3.4.0_1
Change libpng15.so to libpng.so in LIB_DEPENDS to prepare the upgrade
7ae46e9b12
Antoine Brodin (antoine) · 3.4.0_1
Cleanup plist
ee9b96077b
Veniamin Gvozdikov (vg) · 3.4.0_1
- Support staging.
a48da8fa7d
Niclas Zeising (zeising) · 3.4.0_1
The FreeBSD x11@ and graphics team proudly presents a zeising, kwm production, with help from dumbbell, bdrewery:

NEW XORG ON FREEBSD 9-STABLE AND 10-STABLE

This update switches over to use the new xorg stack by default on FreeBSD 9
and 10 stable, on osversions where vt(9) is available.
It is still possible to use the old stack by specifying WITHOUT_NEW_XORG in
/etc/make.conf .
FreeBSD 8-STABLE and released versions of FreeBSD still use
the old version.
A package repository with binary packages for new xorg will
be available soon.

This patch also contains updates of libxcb and related ports, pixman, as well
as some drivers and utilities.

Bump portrevisions for xf86-* ports, as well as virtualbox-ose-additions due
to xserver version change.

Apart from these updates, the way shared libraries are handled has been
changed for all xorg ports, as well as libxml2 and freetype, which means
ltverhack is gone and as a consequence shared libraries have been bumped.
The plan is that this change will make library bumps less likely in the
future.
All affected ports have had their portrevisions bumped as a consequence of
this.

Fix some issues where WITH_NEW_XORG weren't detected properly on CURRENT.

Update instructions, hardware support, and more notes can be found on
https://wiki.freebsd.org/Graphics

Thanks to:	all testers, bdrewery and the FreeBSD x11@ team
exp-run by:	bdrewery [1]
PR:		ports/187602 [1]
Approved by:	portmgr (bdrewery), core (jhb)
39fc32e828
Dmitry Marakasov (amdmi3) · 3.4.0
- Remove manual creation and removal of share/applications, as it's now in the mtree (categories starting with [st])

Approved by:	portmgr (bdrewery)
db25d63f5a
Baptiste Daroussin (bapt) · 3.4.0
Add NO_STAGE all over the place in preparation for the staging support (cat: science)
1dd0d087e7
Veniamin Gvozdikov (vg) · 3.4.0
- Changed my email  - Trim Makefile headers and positions name and surname within

Approved by:	eadler, rm (mentors)
862c06b489
Niclas Zeising (zeising) · 3.4.0
The FreeBSD x11 team proudly presents an zeising, kwm, miwi, bapt, eadler production:

Xorg 7.7

Starring:
xserver 1.12.4 (new xorg only)
Mesa 8.0.4, including libGL, libGLU and dri (new xorg only)
libX11 1.5.0
libxcb 1.9
libdrm 2.4.42 (new xorg only)
freeglut 2.8.1
Also starring:
Updates to drivers and other libraries and utilities

Additional notes:
Change pkgconf to be a build dependency.
Add a new USE_XORG, xcb, to depend on libxcb and update all ports to use
this.
Trim makefile headers.
Take maintanership of x11/xcb-proto, ok'd by ashish.
If you are running WITH_NEW_XORG=, you need to rebuild all installed
drivers, see UPDATING for more information.
Various fixes to make ports compile.

PR:		ports/177942
Exp-run by:	miwi
Approved by:	portmgr (miwi)

Thanks to all who helped testing!
92ea0d614b
Marcus von Appen (mva) · 3.4.0
- Convert USE_ICONV=yes to USES=iconv - Change USE_GNOME=pkgconfig|gnomehack to USES=pathfix|pkgconfig and   USE_GETTEXT=yes to USES=gettext while here
95e7081976
Alex Kozlov (ak) · 3.4.0
- Convert USE_GETTEXT to USES (part 1)

Approved by:	portmgr (bapt)
08c99f3ad5
Max Brazhnikov (makc) · 3.4.0
- convert USE_CMAKE to USES - while here clean up some ports from CMAKE_VERBOSE, which is intended   for users

Approved by:	portmgr (miwi)
ffd97a0193
Martin Wilke (miwi) · 3.4.0
- Update to 3.4.0

PR:		175601
Submitted by:	maintainer
54b425dd8a
Pawel Pekala (pawel) · 3.3.0
- Update to version 3.3.0 [1] - Add missing deps - Mark MAKE_JOBS_UNSAFE - tab -> space in WWW: line

PR:		ports/174397 [1]
Submitted by:	Veniamin Gvozdikov <g.veniamin@googlemail.com> (maintainer)
e52c4d8479
Martin Wilke (miwi) · 3.1.0_1
- Convert USE_QT_VER=4 and QT_COMPONETS to USE_QT4

Review by:	bapt, David Naylor (kde team)
9c2f65e395
Dirk Meyer (dinoex) · 3.1.0_1
- update png to 1.5.10
2b74a89bc8