pkgsrc-WIP-changes by thread

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• starfighter: update to starfighter-2.3.1, Yorick Hardy
• trac-plugins-Paste: temporarely added egg files to, Matthias Petermann
• trac-plugins-Paste: imported svn version compatibl, Matthias Petermann
• enlightenment-current: version bump to 0.24.2, kikadf
• py-conan: Updated to 1.27.1., Aleksej Lebedev
• kibana: Add CVE-2020-7016, CVE-2020-7017 to TODO, Travis Paul
• changed spell mistake in DESCR and some addition, jaypatelani
• wip/gdm: Builds and runs successfully on NetBSD 9., Dan Cîrnaț
• lightdm: Add missing Xsession file, Frédéric Fauberteau
• hashcat: updated to 6.1.1, Adam Ciarciński
• auto-admin: Check for xz-devel on RHEL systems to , Jason Bacon
• terminology: version bump to 1.8.0, kikadf
• ad2vcf: Flush stdout after announcing chromosome t, Jason Bacon
• ad2vcf: Move normal info output to stdout, Jason Bacon
• wip/cool-old-term-git: Remove. Replaced by wip/coo, Paul Ripke
• chromium: add patch for build failure on NetBSD 9., Benny Siegert
• wip/gnome-settings-daemon: Fix LD path, Dan Cîrnaț
• wip/gdm: Fix PLIST, Dan Cîrnaț
• wip/gdm: Fix dbus config file location, Dan Cîrnaț
• Bareos is now part of the pkgsrc distribution., Frank Kardel
• tordev: update to 0.4.4.3., Thomas Klausner
• htslib: Make patch set more pallatable to upstream, Jason Bacon
• pkg-dev: pkg-mkpatch: Automatically preserve pkgsr, Jason Bacon
• compat32_lcms2: Drop MTAINTAINERship, Greg Troxel
• sgmltools-lite: Drop MAINTAINERship, Greg Troxel
• gpsbabel: Remove; pkgsrc is newer, Greg Troxel
• trac: Drop git plugin from Makefile, MAINTAINER cl, Greg Troxel
• trac-plugins-GitPlugin: Remove, Greg Troxel
• trac: Add TODO to leave a hint why this is here, Greg Troxel
• trac: Sync with pkgsrc, Greg Troxel
• htslib: Disable building test programs via MAKE_EN, Jason Bacon
• htslib: Upgrade to latest upstream commit, Jason Bacon
• wip/gnome-desktop3: Requires recent gsettings-desk, Dan Cîrnaț
• fix directory creation permissions update maintain, Frank Kardel
• Update to the latest beta channel release, Ryo ONODERA
• ad2vcf: Disable PHRED filtering to speed up samtoo, Jason Bacon
• biolibc: Minor clean up, Jason Bacon
• *: move API depends next to include, Thomas Klausner
• spcm: job-top: Fix parsing of host list, Jason Bacon
• spcm: Clean up SUBSTs, Jason Bacon
• spcm: Update to latest commit and fix CentOS build, Jason Bacon
• lightdm: Fix blk3.mk, Frédéric Fauberteau
• ad2vcf: Filter and collect stats on MAPQ and PHRED, Jason Bacon
• vcf2hap: Updates for changes to biolibc API, Jason Bacon
• trac: added missing dependency to textproc/py-jinj, Matthias Petermann
• py-virtualenv20: Update to 20.0.28, Iku Iwasa
• New package for go115 (Go 1.15 RC 1)., Benny Siegert
• htslib: Restore package rudely deleted by someone , Jason Bacon
• +go115, Benny Siegert
• Remove wip/go/go-module.mk., Benny Siegert
• biolibc: Add support for PHRED score filtering and, Jason Bacon
• vcf-split: Update for changes in biolibc API, Jason Bacon
• samtools: Use wip htslib dep, Jason Bacon
• Revert "samtools: switch to htslib in biology/", Thomas Klausner
• htslib: remove, used for updating biology/htslib, Thomas Klausner
• Revert "htslib: remove, used for updating biology/, Thomas Klausner
• samtools: switch to htslib in biology/, Thomas Klausner
• htslib: removed, moved to base, Adam Ciarciński
• zim: Updated to 0.73.1 and added commit message fo, Matthias Petermann
• trac-plugins-AuthOpenId: Reset MAINTAINER, Greg Troxel
• Remove FrankenWM: imported into main, pin
• kallisto: Use committed libaec, Jason Bacon
• kallisto: Add rationale for MAKE_JOBS_SAFE, Jason Bacon
• kallisto: Make sure hdf5 support is on. Default j, Jason Bacon
• samtools,bcftools: Use ${TOOLS_PATH.bash} in test , Jason Bacon
• pkg-dev: pkg-check: Add -Wall to pkglint, Jason Bacon
• htslib: Use proper path in bl3, Jason Bacon
• samtools,bcftools: State htslib version requiremen, Jason Bacon
• ncspot: progress to next error, Thomas Klausner
• htslib: Import bl3 fix from pkgsrc, Jason Bacon
• Removed TODO as it is solved by Thomas@, Jay Patel
• kallisto: Disable make jobs, Jason Bacon
• samtools: Remove obsolete REPLACE_PYTHON, add REPL, Jason Bacon
• samtools,bcftools: Use SUBST to properly patch tes, Jason Bacon
• packmol: Remove extraneous languages, Jason Bacon
• trac-plugins-AuthOpenIdD: Update HOMEPAGE and note, Greg Troxel
• Correct typo in Makefile, pin
• pkglint/pkg_developer cleanup, Frank Kardel
• Import ncspot, pin
• Add FrankenWM 1.0.22, packaged by pin, Maya Rashish
• bareos: clean up some pkglint, add a TODO, Thomas Klausner
• vault: Update to 1.5.0, Iku Iwasa
• iosevka-*: Update to 3.3.1, Iku Iwasa
• py-identify: Update to 1.4.25, Iku Iwasa
• lightdm: Update to 1.30.0, Frédéric Fauberteau
• lightdm-gtk-greeter: Update to 2.0.8, Frédéric Fauberteau
• ad2vcf: Update to latest commit, Jason Bacon
• biolibc: Fix phred score handling, Jason Bacon
• kallisto: Clean up Makefile, Jason Bacon
  • <Possible follow-ups>
  • kallisto: Clean up Makefile, Jason Bacon
• kallisto: Rebundle htslib, Jason Bacon
• kallisto: Work on 0.46.1 upgrade, Jason Bacon
• bcftools: Clean up Makefile, verify bmake test, Jason Bacon
• samtools: Remove wip reference, Jason Bacon
• samtools: Add reported version fix, Jason Bacon
• Add -if to autoreconf to ensure clean build, Jason Bacon
• update DESCR normalize relative package paths, Frank Kardel
• trac: Added commit message for pkgsrc, Matthias Petermann
• switch to .tar.gz distribution file, Frank Kardel
• htslib,samtools,bcftools: Remove cruft from Makefi, Jason Bacon
• mk/blas.bl3: Avoid conflict with wip/blas.bl3, Dr. Thomas Orgis
• samtools: More intuitive Makefile organization, Jason Bacon
• bcftools: Clean up Makefile, Jason Bacon
• htslib: More intuitive Makefile organization, Jason Bacon
• samtools: Add -if to autoreconf to ensure a clean , Jason Bacon
• samtools: Clean up Makefile, Jason Bacon
  • <Possible follow-ups>
  • samtools: Clean up Makefile, Jason W. Bacon
• clean up for pkglint remove unnecessary distinfo f, Frank Kardel
• mackerel-agent-plugin: update to v0.61.0, Susumu Miwa
• mackerel-agent: update to v0.68.1, Susumu Miwa
• widelands: Import update to Build 21, Michael Baeuerle
• cool-retro-term: Clean up all the pkglint warnings, Paul Ripke
• cool-retro-term: Import cool-retro-term-1.1.1 as w, Paul Ripke
• mruby: Add reference to CVE-2020-15866, Leonardo Taccari
• htslib: Simplify shebang fixes, Jason Bacon
• bcftools: Remove useless post-install mv, Jason Bacon
• bcftools: Upgrade to 1.10.2 and clean up, Jason Bacon
• bcftools: /bash to bash in error messages, Jason Bacon
• samtools: Patch Makefile to respect pkgsrc env, ad, Jason Bacon
• htslib: Add bash for test target, Jason Bacon
• htslib: Patch to work with latest libcurl, Jason Bacon
• mk/blas.buildlink3.mk: Minor comment clarification, Jason Bacon
• ad2vcf: Buffer every SAM read so that sam_buff_che, Jason Bacon
• biolibc: Update to latest commit, Jason Bacon
• emacs-git: fix PLIST for upstream changes, Thomas Klausner
• trac: Import trac-1.4.2 as wip/trac, Matthias Petermann
• chapel: Import chapel-1.22.1 as wip/chapel, Jason High
• nsnake: reset MAINTAINER to pkgsrc-users@., Frederic Cambus
• lumina-1.6.0: update PLIST with translations, pin
• wip/zenity: Remove gtk2 dependency, Dan Cîrnaț
• Added icinga2 and icingaweb2, Edgar Fuß
• Add p5-ODF-lpOD, Edgar Fuß
• collectd: Update to 5.11.00, Edgar Fuß
• collectd: add multimeter and ted plugins, Edgar Fuß
• collectd: rename patches in preparation for 5.11.0, Edgar Fuß
• collectd/collectd-*: rework library handling, Edgar Fuß
• collectd-redis: also build write_redis, cleanup, Edgar Fuß
• collectd: adapt to newer versions of librdkafka, Edgar Fuß
• collectd: remove obsolete ltdl args, Edgar Fuß
• collectd: PKG_SUGGESTED_OPTIONS=, not +=, Edgar Fuß
• Import collectd and friends from sysutils, Edgar Fuß
• collectd: fix typo, Edgar Fuß
• collectd: add various collectd-foo plugin packages, Edgar Fuß
• collectd: --with-libpython, not --with-python, Edgar Fuß
• collectd: Implement NFS plugin for NetBSD, Edgar Fuß
• collectd: correct disk plugin implementation for N, Edgar Fuß
• collectd-curl: add ascent plugin, Edgar Fuß
• collectd: build more plugins per default, Edgar Fuß
• collectd: fix tokyotyrant and libupsclient detecti, Edgar Fuß
• collectd: correct incorrect $< usage, Edgar Fuß
• collectd: correct --with-libFOO options, Edgar Fuß
• collectd: add debug option, Edgar Fuß
• collectd: added more DISABLED_LIBS, Edgar Fuß
• Re-wrote collectd references from sysutils to wip, Edgar Fuß
• collectd seems to be MAKE_JOBS_SAFE, Edgar Fuß
• wireshark2: Add README, Michael Baeuerle
• wireshark2: Update to 2.6.18, Michael Baeuerle
• widelands: Add tool dependency for pkg-config, Michael Baeuerle
• lumina-1.6.0: minor changes, pin
• widelands: Add missing word in proposed commit mes, Michael Baeuerle
• light: reset MAINTAINER to pkgsrc-users@., Frederic Cambus
• flnews-devel: Update to 0.18pre27, Michael Baeuerle
• mruby: reset MAINTAINER to pkgsrc-users@., Frederic Cambus
• bstone: update to bstone-1.2.8, Yorick Hardy
• ags: update to ags-3.5.0.25, Yorick Hardy
• starfighter: update to starfighter-2.3, Yorick Hardy
• PLIST, nia
• Add crystal., nia
• blas and lapack: Minor clean-up, Jason Bacon
• openblas: Add version.mk for consistency with Netl, Jason Bacon
• openblas*: Fix pkglint issues, Jason Bacon
• lapack and friends: Update Netlib version in bl3s, Jason Bacon
• lapack and friends: Set GITHUB_PROJECT to fix fetc, Jason Bacon
• twintk: Add terminfo/t/truecolor, Jason Bacon
• auto-admin: auto-pkg-latest: Revert to http, Jason Bacon
• auto-admin: auto-pkg-latest: Use https for repo ur, Jason Bacon
• ape: Use /usr/bin/env octave, remove extraneous la, Jason Bacon
• gnunet: PLIST for experimental, nikita
• gnunet: PLIST update for 0.13.0, nikita
• gnunet: Update to 0.13.0, nikita
• gnunet: revert commit in conf, nikita
• consul: Update to 1.8.0, Iku Iwasa
• gopass: Update to 1.9.2, Iku Iwasa
• py-virtualenv20: Update to 20.0.27, Iku Iwasa
• wayland-protocols: Remove old wip/wayland-protocol, Denys Nykula
• bluez-alsa: Update wip/bluez-alsa to 2.1.0, Denys Nykula
• weston: Update wip/weston to 8.0.0, Denys Nykula
• libinput: Update wip/libinput to 1.15.6, Denys Nykula
• libevdev: Update wip/libevdev to 1.9.1, Denys Nykula
• bluez: Update wip/bluez to 5.54, Denys Nykula
• mtdev: Update wip/mtdev to 1.1.6, Denys Nykula
• udev: Fix nbsed subst, Denys Nykula
• disable local compile flag, Frank Kardel
• openblas: remove redundant SUBST and patches work,, Dr. Thomas Orgis
• sfeed_curses: Remove, imported in pkgsrc as news/s, Leonardo Taccari
• sfeed_curses-git: Improve description, Leonardo Taccari
• sfeed_curses: Improve description, Leonardo Taccari
• sfeed_curses: Bump PKGVERSION_NOREV to follow upst, Leonardo Taccari
• sfeed_curses: Update to 0.8, Leonardo Taccari
• Update to 19.2.8 fix a buffer underun in core/src/, Frank Kardel