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Port details
pbcopper Core C++ library for Pacific Biosciences tools
0.4.1_4 biology Deleted on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout Version of this port present on the latest quarterly branch.
Broken BROKEN: fails to build
Deprecated DEPRECATED: Broken for more than 6 months
Expired This port expired on: 2020-08-26
Ignore IGNORE: is marked as broken: fails to build
There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-04-23 16:24:07
Last Update: 2020-08-27 11:25:47
SVN Revision: 546333
License: BSD3CLAUSE
Description:
Homepage    cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ SVNWeb
pkg-plist: as obtained via: make generate-plist
Expand this list (85 items)
Collapse this list.
  1. @ldconfig
  2. /usr/local/share/licenses/pbcopper-0.4.1_4/catalog.mk
  3. /usr/local/share/licenses/pbcopper-0.4.1_4/LICENSE
  4. /usr/local/share/licenses/pbcopper-0.4.1_4/BSD3CLAUSE
  5. include/pbcopper/PbcopperConfig.h
  6. include/pbcopper/PbcopperMakeUnique.h
  7. include/pbcopper/align/Seed.h
  8. include/pbcopper/align/Seeds.h
  9. include/pbcopper/align/internal/Seed-inl.h
  10. include/pbcopper/align/internal/Seeds-inl.h
  11. include/pbcopper/cli/CLI.h
  12. include/pbcopper/cli/HelpPrinter.h
  13. include/pbcopper/cli/Interface.h
  14. include/pbcopper/cli/Option.h
  15. include/pbcopper/cli/OptionFlags.h
  16. include/pbcopper/cli/Parser.h
  17. include/pbcopper/cli/PositionalArg.h
  18. include/pbcopper/cli/Results.h
  19. include/pbcopper/cli/SingleDashMode.h
  20. include/pbcopper/cli/VersionPrinter.h
  21. include/pbcopper/cli/internal/Option-inl.h
  22. include/pbcopper/cli/toolcontract/Config.h
  23. include/pbcopper/cli/toolcontract/Driver.h
  24. include/pbcopper/cli/toolcontract/InputFileType.h
  25. include/pbcopper/cli/toolcontract/JsonPrinter.h
  26. include/pbcopper/cli/toolcontract/OutputFileType.h
  27. include/pbcopper/cli/toolcontract/ResolvedToolContract.h
  28. include/pbcopper/cli/toolcontract/ResourceType.h
  29. include/pbcopper/cli/toolcontract/Task.h
  30. include/pbcopper/cli/toolcontract/TaskType.h
  31. include/pbcopper/cli/toolcontract/internal/Driver-inl.h
  32. include/pbcopper/cli/toolcontract/internal/InputFileType-inl.h
  33. include/pbcopper/cli/toolcontract/internal/OutputFileType-inl.h
  34. include/pbcopper/cli/toolcontract/internal/Task-inl.h
  35. include/pbcopper/data/CCSTag.h
  36. include/pbcopper/data/Cigar.h
  37. include/pbcopper/data/CigarOperation.h
  38. include/pbcopper/data/Interval.h
  39. include/pbcopper/data/MovieName.h
  40. include/pbcopper/data/Position.h
  41. include/pbcopper/data/RSMovieName.h
  42. include/pbcopper/data/RSReadName.h
  43. include/pbcopper/data/ReadName.h
  44. include/pbcopper/data/Zmw.h
  45. include/pbcopper/data/internal/CigarOperation-inl.h
  46. include/pbcopper/data/internal/Interval-inl.h
  47. include/pbcopper/data/internal/MovieName-inl.h
  48. include/pbcopper/data/internal/RSMovieName-inl.h
  49. include/pbcopper/data/internal/ReadNameBase-inl.h
  50. include/pbcopper/data/internal/ReadNameBase.h
  51. include/pbcopper/json/JSON.h
  52. include/pbcopper/json/internal/json.hpp
  53. include/pbcopper/logging/Logging.h
  54. include/pbcopper/logging/internal/Logging-inl.h
  55. include/pbcopper/parallel/FireAndForget.h
  56. include/pbcopper/parallel/WorkQueue.h
  57. include/pbcopper/qgram/Index.h
  58. include/pbcopper/qgram/IndexHit.h
  59. include/pbcopper/qgram/IndexHits.h
  60. include/pbcopper/qgram/internal/Hashing-inl.h
  61. include/pbcopper/qgram/internal/Index-inl.h
  62. include/pbcopper/stream/Stream.h
  63. include/pbcopper/utility/CallbackTimer.h
  64. include/pbcopper/utility/EnumClassHash.h
  65. include/pbcopper/utility/FileUtils.h
  66. include/pbcopper/utility/MoveAppend.h
  67. include/pbcopper/utility/PbcopperVersion.h
  68. include/pbcopper/utility/SafeSubtract.h
  69. include/pbcopper/utility/Stopwatch.h
  70. include/pbcopper/utility/StringUtils.h
  71. include/pbcopper/utility/SystemInfo.h
  72. include/pbcopper/utility/Unused.h
  73. include/pbcopper/utility/internal/CallbackTimer-inl.h
  74. include/pbcopper/utility/internal/FileUtils-inl.h
  75. include/pbcopper/utility/internal/Stopwatch-inl.h
  76. include/pbcopper/utility/internal/StringUtils-inl.h
  77. include/pbcopper/utility/internal/SystemInfo-inl.h
  78. lib/libpbcopper.so
  79. lib/libpbcopper.so.0
  80. lib/libpbcopper.so.0.4
  81. lib/libpbcopper.so.0.4.1
  82. libdata/pkgconfig/pbcopper.pc
  83. @owner
  84. @group
  85. @mode
Collapse this list.
Dependency lines:
  • pbcopper>0:biology/pbcopper
No installation instructions:
This port has been deleted.
PKGNAME: pbcopper
Flavors: there is no flavor information for this port.
distinfo:

Packages (timestamps in pop-ups are UTC):
pbcopper
ABIlatestquarterly
FreeBSD:11:aarch64g20180413_1pkg-fallout
FreeBSD:11:amd64pkg-falloutpkg-fallout
FreeBSD:11:armv6pkg-falloutpkg-fallout
FreeBSD:11:i386pkg-falloutpkg-fallout
FreeBSD:11:mipspkg-falloutpkg-fallout
FreeBSD:11:mips64pkg-falloutpkg-fallout
FreeBSD:12:aarch64g20180413_1pkg-fallout
FreeBSD:12:amd64pkg-falloutpkg-fallout
FreeBSD:12:armv6g20180413_1pkg-fallout
FreeBSD:12:armv7g20180413_1pkg-fallout
FreeBSD:12:i386pkg-falloutpkg-fallout
FreeBSD:12:mipspkg-falloutpkg-fallout
FreeBSD:12:mips64pkg-falloutpkg-fallout
FreeBSD:12:powerpc64pkg-falloutpkg-fallout
FreeBSD:13:aarch64pkg-falloutpkg-fallout
FreeBSD:13:amd64pkg-falloutpkg-fallout
FreeBSD:13:armv6pkg-falloutpkg-fallout
FreeBSD:13:armv7pkg-falloutpkg-fallout
FreeBSD:13:i386pkg-falloutpkg-fallout
FreeBSD:13:mipspkg-falloutpkg-fallout
FreeBSD:13:mips64pkg-falloutpkg-fallout
FreeBSD:13:powerpc64pkg-falloutpkg-fallout
FreeBSD:13:riscv64pkg-falloutpkg-fallout
FreeBSD:14:aarch64pkg-falloutpkg-fallout
FreeBSD:14:amd64pkg-falloutpkg-fallout
FreeBSD:14:armv6pkg-falloutpkg-fallout
FreeBSD:14:armv7pkg-falloutpkg-fallout
FreeBSD:14:i386pkg-falloutpkg-fallout
FreeBSD:14:mipspkg-falloutpkg-fallout
FreeBSD:14:mips64pkg-falloutpkg-fallout
FreeBSD:14:powerpc64pkg-falloutpkg-fallout
FreeBSD:14:riscv64pkg-falloutpkg-fallout
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. meson : devel/meson
  2. ninja : devel/ninja
Library dependencies:
  1. libboost_regex.so : devel/boost-libs
NOTE: dependencies for deleted ports are notoriously suspect
This port is required by:
for Libraries

Deleted ports which required this port:

Expand this list of 1 deleted port
  1. biology/unanimity*
  2. Collapse this list of deleted ports.
* - deleted ports are only shown under the This port is required by section. It was harder to do for the Required section. Perhaps later...

Configuration Options:
Options name:

USES:

FreshPorts was unable to extract/find any pkg message

Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/PacificBiosciences/pbcopper/tar.gz/0.4.1?dummy=/
Collapse this list.
Port Moves
  • port deleted on 2020-08-27
    REASON: Has expired: Broken for more than 6 months

Number of commits found: 14

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
0.4.1_4
27 Aug 2020 11:25:47
Revision:546333Original commit files touched by this commit
rene search for other commits by this committer
Remove expired ports:

2020-08-26 audio/timidity++-tcltk: Broken for more than 6 months
2020-08-26 biology/pbcopper: Broken for more than 6 months
2020-08-26 devel/ace: Broken for more than 6 months
2020-08-26 devel/bin86: Broken for more than 6 months
2020-08-26 devel/erlang-oserl: Broken for more than 6 months
2020-08-20 emulators/qemu40: Please consider using qemu or qemu41
2020-08-26 games/linux-darwinia-demo: Broken for more than 6 months
2020-08-26 games/linux-defcon: Broken for more than 6 months
2020-08-26 games/linux-uplink-demo: Broken for more than 6 months
2020-08-26 games/xevil: Broken for more than 6 months
2020-08-26 games/xminesweep: Broken for more than 6 months
2020-08-26 graphics/backfract: Broken for more than 6 months
2020-08-26 japanese/kanjipad: Broken for more than 6 months
(Only the first 15 lines of the commit message are shown above View all of this commit message)
0.4.1_4
26 Jul 2020 07:32:00
Revision:543440Original commit files touched by this commit
antoine search for other commits by this committer
Deprecate ports broken for more than 6 months
0.4.1_4
10 Mar 2020 14:17:19
Revision:528170Original commit files touched by this commit
antoine search for other commits by this committer
Mark BROKEN: fails to build

../include/pbcopper/json/internal/json.hpp:1229:9: error: static_assert failed
due to requirement 'sizeof(nlohmann::basic_json<std::map, std::vector,
std::__1::basic_string<char>, bool, long, unsigned long, double, std::allocator,
adl_serializer>) == 0' "could not find from_json() method in T's namespace"
        static_assert(sizeof(BasicJsonType) == 0,
        ^             ~~~~~~~~~~~~~~~~~~~~~~~~~~

Reported by:	pkg-fallout
0.4.1_4
11 Dec 2019 17:53:49
Revision:519824Original commit files touched by this commit
jbeich search for other commits by this committer
devel/boost-*: update to 1.72.0

Changes:	http://www.boost.org/users/history/version_1_72_0.html
PR:		241449
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D22136
0.4.1_3
24 Nov 2019 15:53:01
Revision:518334Original commit files touched by this commit
jwb search for other commits by this committer
biology/unanimity and dependencies: Flag as no longer open source

PacBio now provides unanimity only as a binary package through bioconda.
See https://github.com/PacificBiosciences/ccs.
0.4.1_3
19 Aug 2019 15:35:28
Revision:509290Original commit files touched by this commit
jbeich search for other commits by this committer
devel/boost-*: update to 1.71.0

Changes:	http://www.boost.org/users/history/version_1_71_0.html
PR:		238827
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D20774
0.4.1_2
26 Jul 2019 20:46:57
Revision:507372Original commit files touched by this commit
gerald search for other commits by this committer
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
0.4.1_1
12 Apr 2019 06:36:31
Revision:498698Original commit files touched by this commit
jbeich search for other commits by this committer
devel/boost-*: update to 1.70.0

Changes:	http://www.boost.org/users/history/version_1_70_0.html
PR:		235956
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D19303
0.4.1
19 Feb 2019 22:20:11
Revision:493397Original commit files touched by this commit
jwb search for other commits by this committer
biology/pbcopper: Upgrade to 0.4.1 release

In preparation for biology/unanimity upgrade
g20180413_3
12 Dec 2018 01:35:36
Revision:487272Original commit files touched by this commit
gerald search for other commits by this committer
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
g20180413_2
12 Dec 2018 00:15:50
Revision:487266Original commit files touched by this commit
jbeich search for other commits by this committer
devel/boost-*: update to 1.69.0

Changes:	http://www.boost.org/users/history/version_1_69_0.html
PR:		232525
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D17645
g20180413_1
18 Sep 2018 08:14:23
Revision:479990Original commit files touched by this commit
linimon search for other commits by this committer
More precisely specify USES=compiler to fix build on gcc-based
platforms such as powerpc64.

Tested on powerpc64, amd64.

Approved by:	portmgr (tier-2 blanket)
g20180413_1
09 Aug 2018 06:58:31
Revision:476723Original commit files touched by this commit
jbeich search for other commits by this committer
devel/boost-*: update to 1.68.0

- Switch to C++14 for libboost_system to support C++14 consumers

Changes:	http://www.boost.org/users/history/version_1_68_0.html
PR:		229569
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D16165
g20180413
23 Apr 2018 16:23:53
Revision:468101Original commit files touched by this commit
jwb search for other commits by this committer
biology/pbcopper: Core C++ library for Pacific Biosciences tools

Approved by:    jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D15171

Number of commits found: 14