py-multidict: updated to 4.6.1

4.6.1:
Bugfixes
- Fix PyPI link for GitHub Issues badge.

4.6.0:
Bugfixes
- Fix GC object tracking.
- Preserve the case of `istr` strings.
- Generate binary wheels for Python 3.8.

(adam)

py-pluggy: updated to 0.13.1

pluggy 0.13.1:

Trivial/Internal Changes
- Improved documentation, especially with regard to references.

(adam)

doc: Updated lang/php73 to 7.3.12

(taca)

lang/php73: update to 7.3.12

Update php73 package to 7.3.12.

21 Nov 2019, PHP 7.3.12

- Core:
  . Fixed bug #78658 (Memory corruption using Closure::bindTo). (Nikita)
  . Fixed bug #78656 (Parse errors classified as highest log-level). (Erik
    Lundin)
  . Fixed bug #78752 (Segfault if GC triggered while generator stack frame is
    being destroyed). (Nikita)
  . Fixed bug #78689 (Closure::fromCallable() doesn't handle
    [Closure, '__invoke']). (Nikita)

- COM:
  . Fixed bug #78694 (Appending to a variant array causes segfault). (cmb)

- Date:
  . Fixed bug #70153 (\DateInterval incorrectly unserialized). (Maksim Iakunin)
  . Fixed bug #78751 (Serialising DatePeriod converts DateTimeImmutable). (cmb)

- Iconv:
  . Fixed bug #78642 (Wrong libiconv version displayed). (gedas at martynas,
    cmb).

- OpCache:
  . Fixed bug #78654 (Incorrectly computed opcache checksum on files with
    non-ascii characters). (mhagstrand)
  . Fixed bug #78747 (OpCache corrupts custom extension result). (Nikita)

- OpenSSL:
  . Fixed bug #78775 (TLS issues from HTTP request affecting other encrypted
    connections). (Nikita)

- Reflection:
  . Fixed bug #78697 (ReflectionClass::ImplementsInterface - inaccurate error
    message with traits). (villfa)

- Sockets:
  . Fixed bug #78665 (Multicasting may leak memory). (cmb)

(taca)

doc: Updated lang/php72 to 7.2.25

(taca)

lang/php72: update to 7.2.25

Update php72 package to 7.2.25.

21 Nov 2019, PHP 7.2.25

- Core:
  . Fixed bug #78656 (Parse errors classified as highest log-level). (Erik
    Lundin)
  . Fixed bug #78752 (Segfault if GC triggered while generator stack frame is
    being destroyed). (Nikita)
  . Fixed bug #78689 (Closure::fromCallable() doesn't handle
    [Closure, '__invoke']). (Nikita)

- COM:
  . Fixed bug #78694 (Appending to a variant array causes segfault). (cmb)

- Date:
  . Fixed bug #70153 (\DateInterval incorrectly unserialized). (Maksim Iakunin)
  . Fixed bug #78751 (Serialising DatePeriod converts DateTimeImmutable). (cmb)

- Iconv:
  . Fixed bug #78642 (Wrong libiconv version displayed). (gedas at martynas,
    cmb).

- OpCache:
  . Fixed bug #78654 (Incorrectly computed opcache checksum on files with
    non-ascii characters). (mhagstrand)
  . Fixed bug #78747 (OpCache corrupts custom extension result). (Nikita)

- OpenSSL:
  . Fixed bug #78775 (TLS issues from HTTP request affecting other encrypted
    connections). (Nikita)

- Reflection:
  . Fixed bug #78697 (ReflectionClass::ImplementsInterface - inaccurate error
    message with traits). (villfa)

- Sockets:
  . Fixed bug #78665 (Multicasting may leak memory). (cmb)

(taca)

doc: Remove duplicate entry

(nia)

doc: Updated devel/libmowgli to 2.1.3

(nia)

libmowgli: Update to 2.1.3

Changes: 8+ years worth

(Not used by anything, currently a leaf package... chat/atheme uses
internal copy.)

(nia)

doc: Updated audio/xmp to 4.1.0

(nia)

xmp: Update to 4.1.0

Switch to native audio drivers for NetBSD and Solaris, which it has,
somehow.

4.1.0 (20160719):
- Requires libxmp 4.4
- Add option to force tracker emulation
- Add option to use simulated Amiga mixers
- Add option to set the maximum number of virtual channels
- Add command to switch between standard and classic mixers
- Add command to display current mixer type
- Fix default amplification factor
- Fix module-specific configuration file options
- Fix screen corruption when module uses more than 255 virtual
  channels (reported by Lionel Debroux)
- Remove option --offset-bug-emulation

4.0.11 (20160306):
- Mark surround channels in channel list
- Address errors reported by Coverity Scan

(nia)

doc: Updated audio/libxmp to 4.4.1

(nia)

libxmp: Update to 4.4.1

4.4.1 (20161012):
Fix issues reported by Saga Musix:
- fix MDL c5spd to preserve base periods
- fix MDL sample decoder loop with corrupted data
- fix MASI loader OPLH and PPAN subchunks parsing
Other changes:
- fix MacOS Tiger build issues (reported by Misty De Meo)
- fix sample loop corner case (reported by knight-ryu12)
- fix set pan effect in multichannel MODs (reported by Leilei)
- fix global volume on module loop (reported by Travis Evans)
- fix IT pan right value (by NoSuck)
- fix MASI effects based on OpenMPT PSM loader
- fix memory leak in XMs with 256 patterns
- fix anticlick when rendering only one sample
- fix anticlick in His Master's Noise instruments
- fix anticlick in MED synth instruments

4.4.0 (20160719):
Fix bugs caught in the OpenMPT test cases:
- fix XM arpeggio in FastTracker 2 compatible mode
- fix IT bidirectional loop sample length
- fix MOD vibrato and tremolo in Protracker compatible mode
Fix multichannel MOD issues reported by Leilei:
- fix XM replayer note delay and retrig quirk
- fix XM replayer channel pan
- fix MOD loader period to note conversion
Fix issues reported by Lionel Debroux:
- fix virtual channel deallocation error handling
- fix S3M global volume effect
- fix IT envelope reset on tone portamento
- fix IT voice leak caused by disabled envelope
- fix IT volume column tone portamento
- fix XM envelope position setting
- fix FT2 arpeggio+portamento quirk with finetunes
- fix mixer anticlick routines
- accept S3M modules with invalid effects
Fix issues reported by Saga Musix:
- fix 669 effects when no instrument number is specified
- fix 669 effects to be frequency-based
- fix 669 initial tempo
Other changes:
- fix S3M channel reset on sample end (reported by Alexander Null)
- fix Noisetracker MOD speed setting (reported by Tero Auvinen)
- fix IT loader DCA sanity check (reported by Paul Gomez Givera)
- fix IT envelope reset after offset with portamento
- fix bidirectional sample interpolation
- fix mixer resampling and tuning issues
- add Antti Lankila's Amiga 500 modeling mixer
- add support to filter effect E0 in Amiga mods
- add flags to configure player mode
- add option to set the maximum number of virtual channels
- add frequency-based "period" mode
- add support to IT sample sustain loop
- limit Oktalyzer modules to MOD note range
- remove broken synth chip and Adlib emulation suport
- code refactoring and cleanup

4.3.13 (20160417):
Fix bugs caught in the OpenMPT test cases:
- fix IT volume column fine volume slide with row delay
Other changes:
- fix MOD vs XM set finetune effect
- fix IT old instrument volume
- fix IT panbrello speed
- fix IT random pan variation left bias
- fix IT default pan in sample mode (reported by Hai Shalom)
- fix S3M set pan effect (reported by Hai Shalom and Johannes Schultz)
- code refactoring and cleanup

4.3.12 (20160305):
Fix bugs caught in the OpenMPT test cases:
- fix IT note off with instrument
- fix IT note recover after cut
- fix IT instrument without note after note cut event
- fix IT pan reset on new note instead of new instrument
- fix IT volume swing problems
- fix XM glissando effect
- fix Scream Tracker 3 period limits
- fix Scream Tracker 3 tremolo memory
Other changes:
- fix IT pattern break in hexadecimal (reported by StarFox008)
- fix S3M subsong detection (reported by knight-ryu12)
- fix S3M/IT special marker handling (reported by knight-ryu12)
- fix Galaxy Music System 4.0 song length (reported by AntonZab)
- fix tone portamento memory without note (reported by NoSuck)
- fix IT pan swing limits
- Add TrackerPacker v1 format converter
- Add TrackerPacker v2 format converter
- Add ProPacker 1.0 format converter

(nia)

doc: Updated archivers/innoextract to 1.8

(nia)

innoextract: Update to 1.8

innoextract 1.8 (2019-09-15)
- Added support for Inno Setup 6.0.0 installers
- Added support for pre-release Inno Setup 5.6.2 installers used by GOG
- Added support for two modified Inno Setup 5.5.7 variants
- Added support for Inno Setup 1.3.0 to 1.3.23
- Added support for My Inno Setup Extensions installers older than 3.0.6.1
- Added support for modified Inno Setup variants using an alternative setup loader magic
- Added support for using boost_{zlib,bzip2} when statically linking Boost
- Added support for automatically reading external setup.0 files
- Encoding for non-Unicode installers is now determined from the languages supported by the installer, overridable using the --codepage option
- Implemented parsing of GOG Galaxy architecture constraints
- The architecture-specific suffixes @32bit and @64bit are now used to disambiguate colliding files
- Fixed extracting files from slices larger than 2 GiB with 32-bit builds
- Fixed output path for files with absolute paths (canonicalization now strips all unsafe characters)
- Fixed output directory being created even when not extracting files
- Fixed a hang when using the --language option
- Improved checksum verification for files reconstructed from GOG Galaxy file parts
- Changed header parsing to select the first version without warnings and failing that the first without errors
- Changed filesystem and output encoding to WTF-8 (extended UTF-8) to represent broken UTF-16 data

(nia)

doc: Updated devel/libidn2 to 2.3.0

(nia)

libidn2: Update to 2.3.0

* Version 2.3.0 (released 2019-11-14)

** Mitre has assigned CVE-2019-12290 which was fixed by
  the roundtrip feature introduced in 2.2.0 (commit 241e8f48)

** Update the data tables from Unicode 6.3.0 to Unicode 11.0

** Turn _idn2_punycode_encode, _idn2_punycode_decode
  into compat symbols (Fixes #74)

(nia)

remove bsdtar as tool because it was reverted in src for some reason ...

(tnn)

Updated databases/py-mysqlclient, devel/py-test-mock

(adam)

py-test-mock: updated to 1.12.1

1.12.1:
* Fix error if ``mocker.patch`` is used in code where the source file
  is not available, for example stale ``.pyc`` files

(adam)

py-mysqlclient: updated to 1.4.6

What's new in 1.4.6
The cp1252 encoding is used when charset is "latin1".

(adam)

sysutils/bup: Resolve man tarball fetching

Define EXTRACT_SUFX explicitly, so that it is set when setting
SITES.*.

Thanks to tnn@ for explaining this and rillig@ for other hints.

(gdt)

sysutils/bup: Workarounds for dealing with haskell, github, github.mk

github.mk presumes that there is one distfile, but bup has two because
it uses pandoc which uses haskell.  Set variables that should result
in fetching both of them.  Because this does not work, I have put a
copy of the man tarball at MASTER_SITE_BACKUP.

(No PKGREVISION++ because if you had the distfiles before you'll get
the same binary package now.)

(gdt)

Mark as incompatible with Python 2.7

(adam)

onscripter: update to 20191116.

Upstream changes:

20191116
- Support Ponscripter's extension, reading archives from a patch directory.

(tsutsui)

ap2-python: Adjust optimization to be consistent with other Python packages

setup.py is invoked internally hardcoding `--optimize 2' that leads to PLIST
mismatches when Python 3 is used.  Substitute it to `--optimize 1' to be
consistent with other Python packages.

Thanks to <martin> for spotting this problem and testing this patch!

(leot)

more kde updates

(markd)

kde4: allow newer versions of more packages

(markd)

rocs: update to 19.08.3    qt5/kf5 version

(markd)

kturtle: update to 19.08.3    qt5/kf5 version

(markd)

ktouch: update to 19.08.3  qt5/kf5 version

(markd)

graphics: add kqtquickcharts

(markd)

kqtquickcharts: add version 19.08.3

QtQuick plugin to render beautiful and interactive charts.

(markd)

klettres: update to 19.08.3  qt5/kf5 version

(markd)

kiten: update to 19.08.3  qt5/kf5 version

(markd)

kig: update to 19.08.3    qt5/kf5 version

(markd)

kgeography: update to 19.08.3    qt5/kf5 version

(markd)

kbruch: update to 19.08.3    qt5/kf5 version

(markd)

kwordquiz: update to 19.08.3  qt5/kf5 version

(markd)

khangman: update to 19.08.3  qt5/kf5 version

(markd)

kanagram: update to 19.08.3    qt5/kf5 version

(markd)

misc: add kdeedu-data, libkeduvocdocument

(markd)

libkeduvocdocument: add version 19.08.3

libKEduVocDocument is a library for reading and writing vocabulary files
used by Parley, Kanagram, KHangman and KWordQuiz.

(markd)

kdeedu-data: add version 19.08.3

Common data for KDE Edu applications.

(markd)

doc: Updated net/bind911 to 9.11.13

(taca)

net/bind911: update to 9.11.13

Update bind911 to 9.11.3.  It includes fix for CVS-2019-6477.

--- 9.11.13 released ---

5315. [bug] Apply the inital RRSIG expiration spread fixed
to all dynamically created records in the zone
including NSEC3. Also fix the signature clusters
when the server has been offline for prolonged
period of times. [GL #1256]

5314. [func] Added a new statistics variable "tcp-highwater"
that reports the maximum number of simultaneous TCP
clients BIND has handled while running. [GL #1206]

5313. [bug] The default GeoIP2 database location did not match
the ARM.  'named -V' now reports the default
location. [GL #1301]

5310. [bug] TCP failures were affecting EDNS statistics. [GL #1059]

5309. [bug] "geoip-use-ecs yes;" was not working for GeoIP2.
[GL #1275]

5308. [bug] Don't log DNS_R_UNCHANGED from sync_secure_journal()
at ERROR level in receive_secure_serial(). [GL #1288]

5307. [bug] Fix hang when named-compilezone output is sent to pipe.
Thanks to Tony Finch. [GL !2481]

5306. [security] Set a limit on the number of concurrently served
pipelined TCP queries. (CVE-2019-6477) [GL #1264]

5302. [bug] Fix checking that "dnstap-output" is defined when
"dnstap" is specified in a view. [GL #1281]

5301. [bug] Detect partial prefixes / incomplete IPv4 address in
acls. [GL #1143]

(taca)

doc: Updated net/bind914 to 9.14.8

(taca)

net/bind914: update to 9.14.8

Update bind914 to 9.14.8.  It includes fix for CVS-2019-6477.

        --- 9.14.8 released ---

5315. [bug] Apply the inital RRSIG expiration spread fixed
to all dynamically created records in the zone
including NSEC3. Also fix the signature clusters
when the server has been offline for prolonged
period of times. [GL #1256]

5314. [func] Added a new statistics variable "tcp-highwater"
that reports the maximum number of simultaneous TCP
clients BIND has handled while running. [GL #1206]

5313. [bug] The default GeoIP2 database location did not match
the ARM.  'named -V' now reports the default
location. [GL #1301]

5310. [bug] TCP failures were affecting EDNS statistics. [GL #1059]

5308. [bug] Don't log DNS_R_UNCHANGED from sync_secure_journal()
at ERROR level in receive_secure_serial(). [GL #1288]

5307. [bug] Fix hang when named-compilezone output is sent to pipe.
Thanks to Tony Finch. [GL !2481]

5306. [security] Set a limit on the number of concurrently served
pipelined TCP queries. (CVE-2019-6477) [GL #1264]

5305. [bug] NSEC Aggressive Cache ("synth-from-dnssec") has been
disabled by default because it was found to have
a significant performance impact on the recursive
service. [GL #1265]

5304. [bug] "dnskey-sig-validity 0;" was not being accepted.
[GL #876]

5302. [bug] Fix checking that "dnstap-output" is defined when
"dnstap" is specified in a view. [GL #1281]

5301. [bug] Detect partial prefixes / incomplete IPv4 address in
acls. [GL #1143]

(taca)

palapeli: fix install of palapeli-collectionrc

(markd)

ksudoku: fix install of ksudokurc

(markd)

ksnakeduel: fix install of ksnakeduel.knsrc

(markd)

ksirk: fix install of ksirk.knsrc

(markd)

kigo: fix install of kigo*.knsrc

(markd)

kgoldrunner: fix install of kgoldrunner.knsrc

(markd)

kdiamond: fix install of kdiamond.knsrc

(markd)

kblocks: fix install of kblocks.knsrc

(markd)

katomic: fix install of katomic.knsrc

(markd)

step: fix install of xdg file

(markd)

cantor: fix installation of xdg files

(markd)

graphics/py-Pillow: Skip zlib header search

pkgsrc always provides zlib.h.

This makes py-Pillow build on Darwin.

(minskim)

compton: fix build w/ -D_FORTIFY_SOURCE=2

(tnn)

Some kde and related updates

(markd)

kde4: allow newer versions of some more packages

(markd)

kde-workspace4: add explicit dependency on cln now that qalculate doesn't

(markd)

step: update to 19.08.3  qt5/kf5 version

(markd)

kalgebra: update to 19.08.3  qt5/kf5 version

(markd)

cantor: update to 19.08.3  qt5/kf5 version

(markd)

math: remove qalculate-{bases,currency,units}

(markd)

qalculate-{bases,currency,units}: remove

last release 13 years ago. not part of current qalculate development.

(markd)

qalculate-gtk: remove old patches

(markd)

qalculate-gtk: update to 3.5.0

10 years worth of development.

(markd)

x11/enlightenment: fix typo in MESSAGE.NetBSD

(gutteridge)

qalculate: update to 3.5.0

10 years worth of development.

(markd)

qalculate*: change maintainer to pkgsc-users@NetBSD.org OKed adam@

(markd)

analitza: update to 19.08.3  qt5/kf5 version

(markd)

blinken: update to 19.08.3    qt5/kf5 version

(markd)

libgcroots: add support for netbsd/aarch64.

(maya)

Added misc/wandio; Updated net/libtrace

(adam)

libtrace: .. and the patch

(adam)

libtrace: updated to 4.0.10

libtrace 4.0.10:

New features
Added new API function (trace_get_errstr()) which will map a given libtrace error number to a printable error message.

Bug fixes
Fixed SIOCGSTAMP undeclared error when building against newer Linux kernels.
Fixed corruption bug when running multiple concurrent etsilive: input processes.

Improvements
Bumped TTL of nDAG multicast group joining messages to 4, so they can be routed outside of the immediate subnet (i.e. through the host when libtrace is run within a container).

libtrace 4.0.9:

Bug fixes
Fixed traceanon build error on systems that did not have libcrypto installed.
Fixed DPDK detection in configure when the DPDK package was installed on either Debian buster and Ubuntu disco.
Updated DPDK code to compile against more recent DPDK releases, such as 18.11.
Fixed segmentation fault when failing to open a DAG device.
Fixed issue where a pcapng packet that does not match any of our known data types ends up having an uninitialised data type.
Fix some compilation errors when using DPDK on FreeBSD (may still be linking problems if you have built DPDK using the ports tree, though).
Fix infinite decoding loop if libpacketdump sees an SCTP option with a length of zero.

libtrace 4.0.8:

New features
traceanon is now capable of anonymising RADIUS traffic within packet traces. The anonymisation will obfuscate the data within AVPs that can be considered 'sensitive', including user names, IP addresses and password hashes. Counter fields such as byte and packet counters are by default untouched, but traceanon can be configured to anonymise those as well if required.
traceanon can now be configured using a YAML configuration file, instead of CLI arguments. This change is due to the increased number of configuration options introduced by the RADIUS anonymisation feature. Instructions on how to write a configuration file can be found on the traceanon manpage, as well as on this wiki page.

Bug fixes
Fixed bug where ndag multicast sockets would bind to all addresses on an interface, rather than just the address of the multicast group.
Fixed segfault that can occur when pausing a trace input that has not been able to create its per packet processing threads for some reason.

libtrace 4.0.7:

New features
Added new API functions for exploring meta-data that is either attached to a specific packet or included in a trace as separate records (e.g. ERF provenance or pcap-ng meta-data). Many meta-data fields have a specific accessor function that can be called directly (e.g. trace_get_interface_fcslen()). You can also use trace_get_section() to get an array containing all meta-data items within a particular section, which will allow you to get access to any fields for which we have not implemented direct access functions.
Added new API functions to instant decoding all of the post-layer 2, pre-layer 3 headers in a packet so you can now easily explore any / all VLAN, MPLS, etc. headers in a packet without having to effectively re-implement trace_get_layer3() in your own code. See trace_get_layer2_headers() for more details.
Added support for both reading and writing TZSP sniffing streams.

Bug fixes
Fixed uninitialised bytes in message structure sent via trace_post_reporter -- thanks to Mark Weiman for fixing this.
Fixed build errors caused by attempting to #include pcap-int.h.
Fixed bug where a corrupt ERF record could cause a libtrace program to become un-haltable.
Fixed bug in error tracking when creating a fanout socket for the ring and int formats.
Fixed potential segfault when halting a libtrace program that was reading from a ring: input.
Fixed uninitialised mutex when copying a packet.

Improvements
Improved parallel performance by skipping some needless per-packet sanity checks.

libtrace 4.0.6:

New features
Added write support for pcapng: format.

Bug fixes
Fixed incorrect counting of input sources when using etsilive: for reading packets.
Fixed bug where trace_event() API was ignoring all received packets.
Fixed bug where tracereplay would segfault.
Fixed packet corruption bug in tracesplit when using the "jump to IP header" mode.
Fixed bug where we could end up trying to close a NULL pcap output.
Fixed build problems when building with dpdk enabled.
Fixed bug that was causing recvmmsg detection to fail at configure time.
Fixed bug where ETSI live sockets created later on are uninitialised.
Fixed memory leak when using BPF filters with ring: inputs.
Fixed a variety of potential crashes and buffer overflows revealed by Perry's fuzzing experiments

Improvements
Replaced numerous internal assertion checks with error return values instead, i.e. instead of a libtrace function assert failing and crashing your program, it will now return an error (or set the error status on the trace) and allow the user to deal with the error however they want.
Similarly, tidied up some of the error messaging to be clearer about what has gone wrong and added a variety of new error types.
Improved ring: read performance when used with the parallel API by reading multiple packets per function call.
Added option to report numbers of dropped and missing packets (cumulative) in tracertstats.
Ported traceends and tracetopends to use the parallel API.
Improvements to ndag packet reading performance.
libtrace 4.0.5:

Bug fixes
Fixed bug where clients would obtain an exclusive lock on an nDAG multicast group.
Fixed bogus payload length calculations on outgoing packets when the IP length field is filled in by the NIC prior to sending.
Fixed bug where any non-negative return value other than zero from a pstart callback would be treated as an error.
Fixed bug where packets that have been invalidated by a call to trace_ppause() are still treated as valid.
Fixed bug where parallel ring: inputs would assert fail when the input is halted.
Reduced likelihood of dropping packets on an ndag: input during initialisation phase.
Fixed build error for DPDK format due to missing header file.
Fix race condition that can occur when two threads attempt to call trace_create() or trace_create_dead() at the same time.

Improvements
Improved etsilive: decoding performance.
Avoid invalidating packets received via ring: following a pause until the trace is restarted.
Added caching for packet framing length.

libtrace 4.0.4:

NOTE: libwandio 4.0.0 is required to build this version of libtrace. Older versions of libwandio will not work.

New Features
Added trace_increment_packet_refcount() and trace_decrement_packet_refcount() functions to the parallel API. These functions can be used to track references to a libtrace packet across multiple threads, so that a shared packet can be released once all threads have finished with it. Packets where the reference count is decremented to zero are automatically released.
Add new built-in data structure: simple circular buffer.
Added new format for receiving and decoding packets encapsulated in the ETSI Lawful Intercept streaming format (requires libwandder).
Added support for decoding ETSI Lawful Intercept records to libpacketdump (requires libwandder).
Add trace_flush_output() API function to force a libtrace output to dump any buffered output to disk. Flushed files may still not be properly readable afterwards, but this will help give the appearance that the output file is growing in situations where the output rate is slow.

Bug Fixes
Fixed bug in ndag: which was causing the stream to be treated as inactive when there are buffered records available.
Fixed build errors caused by pthread_attr_setaffinity_np() being a glibc-only extension -- thanks to Tim Dawson for contributing this patch.
Fixed bug where uninitialised internal message queues were being destroyed -- thanks to EaseTheWorld for reporting this.
Fixed lack of error being returned when a user tries to change the number of perpkt threads on a paused trace.
Fixed problems in tracereplay caused by trying to replay packets with no contents (e.g. meta-data records).
Fix bug where packets received via a ring: interface were being released twice.
Fix rounding error in trace_event_trace() which would cause sleep intervals to be rounded down to zero.
Fix rounding error in pcapng_get_timespec() which would cause all packet timestamps to be truncated to the previous second.
Fix deadlock when calling trace_pstop() on a trace that has already been stopped.
Fix bug where two concurrent ring: inputs would be assigned to the same fanout group, causing the second input to fail to start.
Fixed errors in manpages for tracesplit, traceanon and tracemerge (regarding the correct names for the various compression methods) -- thanks to Hendrik Leppelsack for reporting this problem.
Fixed some uninitialised memory errors when valgrinding a parallel libtrace program.
Fixed potential buffer overruns in pcapng reading code.
Fixed bug that was preventing trace_pstop() from working as intended on pcapint:.
Fixed potential build errors relating to the absence (or not) of strndup(), strncasecmp() and snprintf().

Improvements
Updated DPDK support to be able to compile against DPDK 18.02.1
tracereplay is now able to reduce inter-packet gaps in the replayed stream by a user-specified speedup factor, so the trace can be replayed faster but with the same relative gaps between packets.
libtrace 4.0.3:

New Features
Added new API function: trace_get_perpkt_thread_id(), which allows callers to get the ID number of the packet processing thread that they are currently in.
Message Queue data structure API is now publicly exported.
Toeplitz Hash API is now publicly exported.
Added dpdkndag: capture format, which allows a libtrace program to capture and parse nDAG records that are intercepted on a DPDK-capable interface.
Moved trace_prepare_packet() into the external API.

Bug Fixes
Fixed bug where captures from GRE tunnel interfaces would fail due to unknown ARPHRD type.
Fixed problems when reading ERF provenance records from a DAG or ERF source -- thanks to Anthony Coddington at Endace for resolving this issue.
Fixed bug where nDAG packets could be corrupted if all of the receive buffers are full.
Fixed assertion failure when libwandio fails but does not set errno to a useful value -- thanks to Robert Zeh for patching this bug.
Fixed minor memory leak when a user does not provide a hash function when calling trace_set_hasher().
Fixed missing pthread_spinlock.h error that occurred whenever a user tried to include message_queue.h or ring_buffer.h.
Fixed bug where some key data structures were not initialised when doing DPDK output.
Fixed bug where DPDK memory buffers were too small to hold a full packet, causing payload to be truncated.
Fixed uninitialised write index in format_ndag, which could cause some nDAG captures to appear corrupt.

Improvements
Updated dag: format to use the 64 bit API -- this means that we can support capture on DAG streams that have large amounts of memory attached.
Improved nDAG performance by avoiding unnecessary calls to recvmmsg when there is no data available on the socket.
Improved nDAG performance by caching the byteswapped versions of some frequently accessed fields.
tracertstats will now handle SIGINT and SIGTERM signals cleanly.

libtrace 4.0.2:

New Features
Added ability to read pcapng trace files (and convert them into other formats).
Added input format for receiving and processing packets emitted by an nDAG multicaster.

Bug Fixes
Fixed bug that would cause the IPv6 fragment offset to be calculated incorrectly.
Fixed return value bug with pcap_write_packet().
Fixed bad assertion failure when halting parallel programs with SIGINT.
Fixed compilation issues caused by mismatched BPF presence macros when pcap-bpf.h is missing.
Fixed libpacketdump bug where it was reading past the end of captured IPv6 headers.
Fixed several issues in the libpacketdump parser for SCTP.
Fixed assertion failure in traceanon if the cryptopan key is too short.
Fixed compilation error with traceanon if libssl version >= 1.1.0.
Fix bug where the wrong parallel read function would be used in some specific configurations.
DPDK shared libraries are now correctly detected by the configure script.

libtrace 4.0.1:

New Features
DPDK support has been extended to cover the most recent stable release.
Added ability to parse SIT (IPv6 within IPv4) packets inside SLL.
Added trace_clear_statistics() API function.
Added support for IPv6 in PPP.
Added native support for bidirectional and balanced hashing to DPDK inputs.

Bug Fixes
Fixed bug where ring: and int: parallel inputs would not respond to trace_pstop() on older kernels.
Fixed bug where trace_interrupt() would not trigger on busy inputs (including files).
Fixed bug where DPDK inputs would cause the event API to hang.
Fixed bug where ring: and int: parallel formats could end up repeatedly polling.
Fixed performance issue with tracertstats when used on live formats.
Fixed bug where libtrace's default hasher was always sending packets to the same thread.
Fixed race conditions when using parallel API to read from a file format.
Fixed bug where the ordered combiner would appear to send packets to the reporter thread out of order, due to the packet ordering being based on a non-monotonic clock.
Fixed bug where trace_get_payload_from_gre() would not correctly parse PPTP GRE.

Improvements
Received packet counters are now valid for pcap inputs.
Improved performance by removing mutex from packet reading code.
Don't install extra header files directly into /usr/local/include; these are now installed into a libtrace-specific directory. This should resolve some namespace collision issues with some of our poorly-named header files.

libtrace 4.0.0:

New Features
New licensing -- Libtrace now uses the LGPL v3 rather than GPL v2, so it is now possible for people to link against libtrace without having to make their own code available under the GPL.
All new parallel API, written by Richard Sanger, that makes it easy to split packet processing tasks over multiple threads. If a capture format has support for native parallelism, e.g. DPDK, DAG streams, parallel libtrace will take advantage of these. The parallel API is contained and documented in "libtrace_parallel.h" -- include this header file to access the parallel API.
The previous single-threaded API is still supported, so all of your old libtrace programs should compile and run against libtrace 4 without modification.
Libwandio is no longer built in to libtrace and is now its own separate library. You can download libwandio from http://research.wand.net.nz/software/libwandio.php . Thanks to Alistair King for helping remove libwandio from libtrace.
New API function: trace_strip_packet(), which attempts to remove any VLAN, MPLS or other layer 2.5 headers from a captured packet.
Converted traceanon, tracertstats and tracestats tools to use the new parallel API.

Bug Fixes
Fixed bug where libpacketdump would print ICMP checksums in the wrong place.
Fixed inability to correctly parse ERF records that contained extension headers.
Fixed problem where traceanon wouldn't handle keyboard interrupts nicely.
Fixed memory leak if we fail to guess the format for an input trace (Thanks to Vincenzo Caruso for reporting this bug).
Fixed double free when destroying a DAG input.

Bugs squashed since the beta release:
Fixed bug that prevented multiple ring: or int: parallel inputs from being used on a single host concurrently.
Fixed memory leak when using a heavily filtered RT input.
Fixed bug where the ordered combiner would emit packets out of order.
Fixed bug where thread message queues were not being destroyed when the parent trace was destroyed.
Fixed race condition when modifying BPF headers on FreeBSD 9 systems.
Use default DPDK device driver thresholds instead of our previously hard-coded values.
Fixed potential infinite loop when parsing extended RadioTap headers.
Fixed bad decoding of RadioTap headers with extended presence.
Fixed bug where pausing a pcap: trace file would cause any resumption to return to the start of the file rather than resuming from where it left off.
Fixed segfault when destroying a packet associated with a trace has reached EOF.
Fixed memory management in trace_construct_packet (Thanks to Perry Lorier for submitting code to do this).
Fixed bug where pcap file descriptors were being leaked (Thanks to Tomas Konir for reporting this bug).
Fixed bug where trace_create_packet() would segfault if the system runs out of memory.

Improvements
Added BPF filtering option to traceanon.
Use libcrypto for traceanon IP address encryption rather than our own rijndael implementation. This adds a dependency on libcrypto, but should result in faster encryption operations.
Added a --jump option to tracesplit which can be used to strip any headers preceding the Nth layer 3 header; useful for decapsulating tunnelled IP traffic (Thanks to Perry Lorier for adding this feature).

(adam)

wandio: added version 4.2.2

WANDIO is a library for reading from, and writing to, files. Depending on
libraries available at compile time, WANDIO provides transparent
compression/decompression for the following formats:
- zlib (gzip)
- bzip2
- lzo (write-only)
- lzma
- zstd
- lz4
- Intel QAT (write-only)
- http (read-only)

WANDIO also improves IO performance by performing compression/decompression in
a separate thread (if pthreads are available).

(adam)

lang/rust: Fix install_name on Darwin

(minskim)

doc: Updated biology/gnome-chemistry-utils to 0.12.13nb30

(kamil)

gnome-chemistry-utils: Revbump for openbabel 3.0.0nb1

(kamil)

git-base: add NOT_PAX_MPROTECT_SAFE for bin/git

(adam)

doc: Updated biology/openbabel to 3.0.0nb1

(kamil)

openbabel: Fix pkg-config .pc file

Point to the proper includedir.

Bump PKGREVISION

(kamil)

Fix merge

(kamil)

doc: Updated biology/openbabel to 3.0.0

(kamil)

doc: Updated sysutils/mc to 4.8.23

(nia)

mc: Update to 4.8.23

Version 4.8.23

- Core

  * Modify "File exists" query dialog (#3935):
    * change layout
    * rename "Update" button to "If older"
    * add new "If smaller" button": overwrite file with smaller one
    * add "Don't overwrite with zero length file" checkbox
  * Speed up of large directory structures delete (#3958)
  * Support key binding for menu (#212)

- Editor

  * Expanded syntax highlighting rules (#3975):
    * expanded file name regexp for sh.syntax
    * use ini.syntax for systemd cofiguration files
  * Syntax updates:
    * shell (#3981)
    * ebuild (#3988)
    * RPM spec (#3991)

- Viewer

  * Quick one-off backwards search with N. New action SearchOppositeContinue for key bind (default is shift-n) (#3452)

- Misc

  * Code cleanup (#3955)
  * Use Geeqie (a fork of GQview) as main image viewer, fallback to GQview (#3962)
  * File highlighting updates (#3966)
    * .go, .s: highlight as source
    * .m4v: highlighting as media
  * New skins:
    * featured-plus: featured skin with alternative directory and file select/mark colors (#3973)

- Fixes

  * Compilation fail on AIX (#3960)
  * Incorrect file version sort (#3965, #3905)
  * Garbage in the hardlink error creation message window (#3990)
  * Cannot shell, or FTP, or SFTP link when the file panel is tree, or info, or quick view (#3948)
  * Failed gpm connect attempt ... for vc /dev/tty0 (#3208, #3614)
  * Incorrect include/editor order in mc.ext (#3965)
  * mcedit: incorrect C/C++ syntax highlighting in some cases (#3487)
  * Unknown type name 'sighandler_t' on Illumos (#3971)

(nia)

openbabel: Upgrade to 3.0.0

Upstream changelog
==================

Open Babel 3.0.0

@ghutchis ghutchis released this on 10 Oct - 29 commits to master since this release

This release represents a major update and is strongly recommended for all users.

It also removes deprecated components and breaks the API in a few places. For information on migrating from the previous version, please see:
https://open-babel.readthedocs.io/en/latest/UseTheLibrary/migration.html#migrating-to-3-0

We intend to move to semi-annual releases in Spring and Fall, with bug fix releases as needed.

A sample of major new features:

    Code for handling implicit hydrogens and kekulization has been entirely replaced. As well as being accurate, the new approach is much faster.
    Speed of reading and writing SMILES has been improved by more than 50-fold.
    Removal of the old 'babel' binary in favor of the newer 'obabel' command-line tool.
    New improved fragment-based 3D coordinate generation code as part of Google Summer of code 2018/2019. Significantly faster and more accurate: https://doi.org/10.1186/s13321-019-0372-5
    (Please cite J. Cheminf. (2019) v11, article 49 if you use the new 3D coordinate generation.)
    New API for handling reactions stored as molecules (e.g. Reaction InChI, etc.)
    New API for copying part of an OBMol as a substructure
    Support for Maestro file format, contributed by Patrick Lorton of Schrodinger

There are an incredible number of improvements, minor features and many bug fixes.

For a full list of changes and to download source packages (and eventually binaries)
https://open-babel.readthedocs.io/en/latest/ReleaseNotes/ob300.html
https://github.com/openbabel/openbabel/releases

Thanks to a cast of many for this release, particularly including Noel O'Boyle;
aandi, adalke (Andrew Dalke), adamjstewart (Adam J. Stewart), afonari (Alexandr Fonari), artoria2e5 (Mingye Wang), baoilleach (Noel O'Boyle), barrymoo (Barry Moore), bbucior (Ben Bucior), boryszef (Borys Szefczyk), camannguyen (An Nguyen), cmanion (Charles A. Manion), cowsandmilk (David Hall), cstein (Casper Steinmann), derekharmon (Derek Harmon), djhogan (Daniel Hogan), dkoes (David Koes), e-kwsm (Eisuke Kawashima), eloyfelix (Eloy Felix), fredrikw (Fredrik Wallner), ghutchis (Geoff Hutchison), hille721 (Christoph Hille), hseara (Hector Martinez-Seara), jasonychuang (Jason Huang), jeffjanes (Jeff Janes), johnmay (John Mayfield), katrinleinweber (Katrin Leinweber), keipertk (Kristopher Keipert), kyle-roberts-arzeda, langner (Karol M. Langner), lorton (Pat Lorton), mcs07 (Matt Swain), merkys (Andrius Merkys), mkrykunov, mmghahremanpour (Mohammad Ghahremanpour), mwojcikowski (Maciej Wojcikowski), n-yoshikawa (Naruki Yoshikawa), nakatamaho (Nakata Maho), nsoranzo (Nicola Soranzo
), oititov (Titov Oleg), orex (Kirill Okhotnikov), pbecherer (Paul Becherer), peawagon (Jen), philthiel (Philipp Thiel), psavery (Patrick Avery), rmeli (Rocco Meli), serval2412 (Julien Nabet), sunoru, susilehtola (Susi Lehtola), tgaudin (Theophile Gaudin), theavey (Thomas Heavey), timvdm (Tim Vandermeersch), torcolvin (Tor Colvin), wojdyr (Marcin Wojdyr), xomachine (Dmitriy Fomichev), yishutu (Yi-Shu Tu)

Open Babel 2.4.0 (2016-9-21)

This release represents a major update and should be a stable upgrade, strongly recommended for all users.

Note that this release deprecates the babel executable in favor of obabel. A future release will remove babel entirely. For information on the differences, please see the documentation.
New file formats

    DALTON output files (read only) and DALTON input files (read/write) (Casper Steinmann)
    JSON format used by ChemDoodle (read/write) (Matt Swain)
    JSON format used by PubChem (read/write) (Matt Swain)
    LPMD's atomic configuration file (read/write) (Joaquin Peralta)
    The format used by the CONTFF and POSFF files in MDFF (read/write) (Kirill Okhotnikov)
    ORCA output files (read only) and ORCA input files (write only) (Dagmar Lenk)
    ORCA-AICCM's extended XYZ format (read/write) (Dagmar Lenk)
    Painter format for custom 2D depictions (write only) (Noel O'Boyle)
    Siesta output files (read only) (Patrick Avery)
    Smiley parser for parsing SMILES according to the OpenSMILES specification (read only) (Tim Vandermeersch)
    STL 3D-printing format (write only) (Matt Harvey)
    Turbomole AOFORCE output (read only) (Mathias Laurin)
    A representation of the VDW surface as a point cloud (write only) (Matt Harvey)

New file format capabilities and options

    AutoDock PDBQT: Options to preserve hydrogens and/or atom names (Matt Harvey)
    CAR: Improved space group support in .car files (kartlee)
    CDXML: Read/write isotopes (Roger Sayle)
    CIF: Extract charges (Kirill Okhotnikov)
    CIF: Improved support for space-groups and symmetries (Alexandr Fonari)
    DL_Poly: Cell information is now read (Kirill Okhotnikov)
    Gaussian FCHK: Parse alpha and beta orbitals (Geoff Hutchison)
    Gaussian out: Extract true enthalpy of formation, quadrupole, polarizability tensor, electrostatic potential fitting points and potential values, and more (David van der Spoel)
    MDL Mol: Read in atom class information by default and optionally write it out (Roger Sayle)
    MDL Mol: Support added for ZBO, ZCH and HYD extensions (Matt Swain)
    MDL Mol: Implement the MDL valence model on reading (Roger Sayle)
    MDL SDF: Option to write out an ASCII depiction as a property (Noel O'Boyle)
    mmCIF: Improved mmCIF reading (Patrick Fuller)
    mmCIF: Support for atom occupancy and atom_type (Kirill Okhotnikov)
    Mol2: Option to read UCSF Dock scores (Maciej Wojcikowski)
    MOPAC: Read z-matrix data and parse (and prefer) ESP charges (Geoff Hutchison)
    NWChem: Support sequential calculations by optionally overwriting earlier ones (Dmitriy Fomichev)
    NWChem: Extract info on MEP(IRC), NEB and quadrupole moments (Dmitriy Fomichev)
    PDB: Read/write PDB insertion codes (Steffen Moller)
    PNG: Options to crop the margin, and control the background and bond colors (Fredrik Wallner)
    PQR: Use a stored atom radius (if present) in preference to the generic element radius (Zhixiong Zhao)
    PWSCF: Extend parsing of lattice vectors (David Lonie)
    PWSCF: Support newer versions, and the 'alat' term (Patrick Avery)
    SVG: Option to avoid addition of hydrogens to fill valence (Lee-Ping)
    SVG: Option to draw as ball-and-stick (Jean-Noel Avila)
    VASP: Vibration intensities are calculated (Christian Neiss, Mathias Laurin)
    VASP: Custom atom element sorting on writing (Kirill Okhotnikov)

Other new features and improvements

    2D layout: Improved the choice of which bonds to designate as hash/wedge bonds around a stereo center (Craig James)
    3D builder: Use bond length corrections based on bond order from Pyykko and Atsumi (http://dx.doi.org/10.1002/chem.200901472) (Geoff Hutchison)
    3D generation: "--gen3d", allow user to specify the desired speed/quality (Geoff Hutchison)
    Aromaticity: Improved detection (Geoff Hutchison)
    Canonicalisation: Changed behaviour for multi-molecule SMILES. Now each molecule is canonicalized individually and then sorted. (Geoff Hutchison/Tim Vandermeersch)
    Charge models: "--print" writes the partial charges to standard output after calculation (Geoff Hutchison)
    Conformations: Confab, the systematic conformation generator, has been incorporated into Open Babel (David Hall/Noel O'Boyle)
    Conformations: Initial support for ring rotamer sampling (Geoff Hutchison)
    Conformer searching: Performance improvement by avoiding gradient calculation and optimising the default parameters (Geoff Hutchison)
    EEM charge model: Extend to use additional params from http://dx.doi.org/10.1186/s13321-015-0107-1 (Tomas Racek)
    FillUnitCell operation: Improved behavior (Patrick Fuller)
    Find duplicates: The "--duplicate" option can now return duplicates instead of just removing them (Chris Morley)
    GAFF forcefield: Atom types updated to match Wang et al. J. Comp. Chem. 2004, 25, 1157 (Mohammad Ghahremanpour)
    New charge model: EQeq crystal charge equilibration method (a speed-optimized crystal-focused charge estimator, http://pubs.acs.org/doi/abs/10.1021/jz3008485) (David Lonie)
    New charge model: "fromfile" reads partial charges from a named file (Matt Harvey)
    New conversion operation: "changecell", for changing cell dimensions (Kirill Okhotnikov)
    New command-line utility: "obthermo", for extracting thermochemistry data from QM calculations (David van der Spoel)
    New fingerprint: ECFP (Geoff Hutchison/Noel O'Boyle/Roger Sayle)
    OBConversion: Improvements and API changes to deal with a long-standing memory leak (David Koes)
    OBAtom::IsHBondAcceptor(): Definition updated to take into account the atom environment (Stefano Forli)
    Performance: Faster ring-finding algorithm (Roger Sayle)
    Performance: Faster fingerprint similarity calculations if compiled with -DOPTIMIZE_NATIVE=ON (Noel O'Boyle/Jeff Janes)
    SMARTS matching: The "-s" option now accepts an integer specifying the number of matches required (Chris Morley)
    UFF: Update to use traditional Rappe angle potential (Geoff Hutchison)

Language bindings

    Bindings: Support compiling only the bindings against system libopenbabel (Reinis Danne)
    Java bindings: Add example Scala program using the Java bindings (Reinis Danne)
    New bindings: PHP (Maciej Wojcikowski)
    PHP bindings: BaPHPel, a simplified interface (Maciej Wojcikowski)
    Python bindings: Add 3D depiction support for Jupyter notebook (Patrick Fuller)
    Python bindings, Pybel: calccharges() and convertdbonds() added (Patrick Fuller, Bjorn Gruning)
    Python bindings, Pybel: compress output if filename ends with .gz (Maciej Wojcikowski)
    Python bindings, Pybel: Residue support (Maciej Wojcikowski)

Development/Build/Install Improvements

    Version control: move to git and GitHub from subversion and SourceForge
    Continuous integration: Travis for Linux builds and Appveyor for Windows builds (David Lonie and Noel O'Boyle)
    Python installer: Improvements to the Python setup.py installer and "pip install openbabel" (David Hall, Matt Swain, Joshua Swamidass)
    Compilation speedup: Speed up compilation by combining the tests (Noel O'Boyle)
    MacOSX: Support compiling with libc++ on MacOSX (Matt Swain)

Cast of contributors

Alexandr Fonari, Anders Steen Christensen, Andreas Kempe, arkose, Benoit Leblanc, Bjorn Gruning, Casper Steinmann, Chris Morley, Christoph Willing, Craig James, Dagmar Lenk, David Hall, David Koes, David Lonie, David van der Spoel, Dmitriy Fomichev, Fulvio Ciriaco, Fredrik Wallner, Geoff Hutchison, Heiko Becker, Itay Zandbank, Jean-Noel Avila, Jeff Janes, Joaquin Peralta, Joshua Swamidass, Julien Nabet, Karol Langner, Karthik Rajagopalan, Katsuhiko Nishimra, Kevin Horan, Kirill Okhotnikov, Lee-Ping, Matt Harvey, Maciej Wojcikowski, Marcus Hanwell, Mathias Laurin, Matt Swain, Mohamad Mohebifar, Mohammad Ghahremanpour, Noel O'Boyle, Patrick Avery, Patrick Fuller, Paul van Maaren, Peng Bai, Philipp Thiel, Reinis Danne, Roger Sayle, Ronald Cohen, Scott McKechnie, Stefano Forli, Steve Roughley, Steffen Moeller, Tim Vandermeersch, Tomas Racek, Tomas Trnka, Tor Colvin, Torsten Sachse, Yi-Shu Tu, Zhixiong Zhao

(kamil)

Updated www/nginx-devel, www/nghttp2

(adam)

nghttp2: updated to 1.40.0

nghttp2 v1.40.0
lib: Add nghttp2_check_authority as public API (GH-1413)
lib: Fix the bug that stream is closed with wrong error code (GH-1408)
lib: Faster huffman encoding and decoding (GH-1405)
build: Avoid filename collision of static and dynamic lib (Patch from William A Rowe Jr) (GH-1394)
build: Add new flag ENABLE_STATIC_CRT for Windows (Patch from William A Rowe Jr) (GH-1393)
build: cmake: Support building nghttpx with systemd (Patch from Andrew Penkrat) (GH-1377)
third-party: Update neverbleed to fix memory leak
nghttpx: Fix bug that mruby is incorrectly shared between backends (GH-1392)
nghttpx: Reconnect h1 backend if it lost connection before sending headers
nghttpx: Returns 408 if backend timed out before sending headers
nghttpx: Fix request stall (GH-1378)

(adam)

nginx-devel: updated to 1.17.6

Changes with nginx 1.17.6:

*) Feature: the $proxy_protocol_server_addr and
  $proxy_protocol_server_port variables.

*) Feature: the "limit_conn_dry_run" directive.

*) Feature: the $limit_req_status and $limit_conn_status variables.

(adam)

(graphics/digikam)  Correction on DIST_SUBDIR to be matched with distinfo

(mef)

(graphics/digikam) Trying to fix checksum error. Regen distinfo, set DIST_SUBDIR

Checked at
  https://download.kde.org/stable/digikam/6.4.0/
and put it at ftp.netbsd.org

(mef)