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Port details
ncbi-vdb NCBI's virtualized back-end for accessing Sequence Read Archive
2.11.0_1 biology 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 2.11.0_1Version of this port present on the latest quarterly branch.
Maintainer: mzaki@niid.go.jp search for ports maintained by this maintainer
Port Added: 2021-04-12 09:30:06
Last Update: 2021-04-26 14:17:32
Commit Hash: bc9e901
License: PD
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (39 items)
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  1. @ldconfig
  2. /usr/local/share/licenses/ncbi-vdb-2.11.0_1/catalog.mk
  3. /usr/local/share/licenses/ncbi-vdb-2.11.0_1/LICENSE
  4. /usr/local/share/licenses/ncbi-vdb-2.11.0_1/PD
  5. include/ncbi-vdb/NGS.hpp
  6. lib/libkdf5-static.a
  7. lib/libkdf5.a
  8. lib/libkdf5.a.2
  9. lib/libkdf5.a.2.11.0
  10. lib/libkdf5.so
  11. lib/libkdf5.so.2
  12. lib/libkdf5.so.2.11.0
  13. lib/libncbi-ngs-c++-static.a
  14. lib/libncbi-ngs-c++.a
  15. lib/libncbi-ngs-c++.a.2
  16. lib/libncbi-ngs-c++.a.2.11.0
  17. lib/libncbi-ngs-static.a
  18. lib/libncbi-ngs.a
  19. lib/libncbi-ngs.a.2
  20. lib/libncbi-ngs.a.2.11.0
  21. lib/libncbi-vdb-static.a
  22. lib/libncbi-vdb.a
  23. lib/libncbi-vdb.a.2
  24. lib/libncbi-vdb.a.2.11.0
  25. lib/libncbi-vdb.so
  26. lib/libncbi-vdb.so.2
  27. lib/libncbi-vdb.so.2.11.0
  28. lib/libncbi-wvdb-static.a
  29. lib/libncbi-wvdb.a
  30. lib/libncbi-wvdb.a.2
  31. lib/libncbi-wvdb.a.2.11.0
  32. lib/libncbi-wvdb.so
  33. lib/libncbi-wvdb.so.2
  34. lib/libncbi-wvdb.so.2.11.0
  35. lib/ncbi/certs.kfg
  36. lib/ncbi/default.kfg
  37. @owner
  38. @group
  39. @mode
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Dependency lines:
  • For RUN/BUILD depends:
    • ncbi-vdb>0:biology/ncbi-vdb
  • For LIB depends:
    • libkdf5.so:biology/ncbi-vdb
    • libncbi-vdb.so:biology/ncbi-vdb
    • libncbi-wvdb.so:biology/ncbi-vdb
To install the port: cd /usr/ports/biology/ncbi-vdb/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/ncbi-vdb
  • pkg install ncbi-vdb
PKGNAME: ncbi-vdb
Flavors: there is no flavor information for this port.
ONLY_FOR_ARCHS: amd64 i386
distinfo:
Packages (timestamps in pop-ups are UTC):
ncbi-vdb
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd642.11.0_12.11.0_1
FreeBSD:11:armv6--
FreeBSD:11:i3862.11.0_12.11.0_1
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64--
FreeBSD:12:amd642.11.0_12.11.0_1
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i3862.11.0_12.11.0_1
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64--
FreeBSD:13:aarch64--
FreeBSD:13:amd642.11.0_12.11.0_1
FreeBSD:13:armv6--
FreeBSD:13:armv7--
FreeBSD:13:i3862.11.0_12.11.0_1
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64--
FreeBSD:14:aarch64--
FreeBSD:14:amd642.11.0_1-
FreeBSD:14:armv6--
FreeBSD:14:armv7--
FreeBSD:14:i3862.11.0_1-
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc64--
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. bash : shells/bash
  2. libepoll-shim>0 : devel/libepoll-shim
  3. gmake>=4.3 : devel/gmake
  4. perl5>=5.32.r0<5.33 : lang/perl5.32
Library dependencies:
  1. libxml2.so : textproc/libxml2
  2. libhdf5.so : science/hdf5
  3. libmbedtls.so : security/mbedtls
There are no ports dependent upon this port

Configuration Options:
Options name:

USES:

Master Sites:
Expand this list (1 items)
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  1. https://codeload.github.com/ncbi/ncbi-vdb/tar.gz/2.11.0?dummy=/
Collapse this list.

Number of commits found: 3

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
26 Apr 2021 14:17:32
 files touched by this commit commit hash:bc9e901a170f2015b41f1a0c4b23c17436d0e432  2.11.0_1
jbeich search for other commits by this committer
devel/libepoll-shim: update to 0.0.20210418

Changes:	https://github.com/jiixyj/epoll-shim/compare/v0.0.20210322...v0.0.20210418
Reported by:	portscout
Approved by:	manu
Differential Revision:	https://reviews.freebsd.org/D29822
12 Apr 2021 18:03:14
 files touched by this commit commit hash:353678f54b5fcc1821077ab3f84fe389a1ef2b9b  2.11.0_1
yuri search for other commits by this committer
biology/ncbi-vdb: Restore static libs installed with symlinks as shared libs are
usually installed

Symlinks like this libxx.a->libxx.a.N.N.N first looked broken but it turned out
that this is intentional.

PR:		223273
12 Apr 2021 09:29:42
 files touched by this commit commit hash:d55fba431adf6bc61c3553dd91625a4b16115cf6  2.11.0
yuri search for other commits by this committer
New port: biology/ncbi-vdb: NCBI's virtualized back-end for accessing Sequence
Read Archive

PR:		223273
Submitted by:	Motomichi Matsuzaki <mzaki@niid.go.jp> (original version)

Number of commits found: 3