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Port details on branch 2022Q3
ncbi-toolkit NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
2017.01.06_9 biology on this many watch lists=2 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 2017.01.06_8Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2000-10-29 10:56:24
Last Update: 2024-01-12 15:11:29
Commit Hash: d432922
People watching this port, also watch:: zip, pcre, desktop-file-utils, xorg-fonts-miscbitmaps, libIDL
License: not specified in port
WWW:
https://www.ncbi.nlm.nih.gov/IEB/ToolBox/MainPage/index.html
Description:
The NCBI (National Center for Biotechnology Information) development toolkit, containing various libraries needed by NCBI applications, as well as a software suite containing, amongst other things, NCBI BLAST 2.0. From the README: The NCBI Software Development Toolkit was developed for the production and distribution of GenBank, Entrez, BLAST, and related services by NCBI. We make it freely available to the public without restriction to facilitate the use of NCBI by the scientific community. However, please understand that while we feel we have done a high quality job, this is not commercial software. The documentation lags considerably behind the software and we must make any changes required by our data production needs. Nontheless, many people have found it a useful and stable basis for a number of tools and applications.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (824 items)
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  1. bin/Nentrez
  2. bin/Psequin
  3. bin/asn2ff
  4. bin/asn2gb
  5. bin/asn2idx
  6. bin/asn2xml
  7. bin/asndhuff
  8. bin/asntool
  9. bin/blastcl3
  10. bin/cdscan
  11. bin/checksub
  12. bin/ddv
  13. bin/debruijn
  14. bin/demo_regexp
  15. bin/demo_regexp_grep
  16. bin/dosimple
  17. bin/entrcmd
  18. bin/entrez2
  19. bin/errhdr
  20. bin/fa2htgs
  21. bin/findspl
  22. bin/gene2xml
  23. bin/getmesh
  24. bin/getpub
  25. bin/gil2bin
  26. bin/idfetch
  27. bin/indexpub
  28. bin/makeset
  29. bin/ncbisort
  30. bin/sbtedit
  31. bin/seqtest
  32. bin/tbl2asn
  33. bin/test_regexp
  34. bin/testcore
  35. bin/testobj
  36. bin/testval
  37. bin/udv
  38. bin/vecscreen
  39. include/ncbi/FSpCompat.h
  40. include/ncbi/FullPath.h
  41. include/ncbi/MoreCarbonAccessors.h
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  44. include/ncbi/Optimization.h
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  822. @owner
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Collapse this list.
Dependency lines:
  • ncbi-toolkit>0:biology/ncbi-toolkit
Conflicts:
CONFLICTS_INSTALL:
  • fhist
Conflicts Matches:
There are no Conflicts Matches for this port. This is usually an error.
To install the port:
cd /usr/ports/biology/ncbi-toolkit/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/ncbi-toolkit
  • pkg install ncbi-toolkit
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: ncbi-toolkit
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1538934016 SHA256 (ncbi-toolkit-2017.01.06/ncbi.tar.gz) = 4b88aaad8f953b1b50bc7d06f3a5920f0d589d2c9a26c709199f8347905f5867 SIZE (ncbi-toolkit-2017.01.06/ncbi.tar.gz) = 155731358

Packages (timestamps in pop-ups are UTC):
ncbi-toolkit
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest2017.01.06_92017.01.06_92017.01.06_62017.01.06_92017.01.06_9---
FreeBSD:13:quarterly2017.01.06_82017.01.06_8-2017.01.06_82017.01.06_82017.01.06_82017.01.06_82017.01.06_8
FreeBSD:14:latest2017.01.06_92017.01.06_92017.01.06_72017.01.06_92017.01.06_92017.01.06_7-2017.01.06_7
FreeBSD:14:quarterly2017.01.06_82017.01.06_8-2017.01.06_82017.01.06_82017.01.06_82017.01.06_82017.01.06_8
FreeBSD:15:latest2017.01.06_92017.01.06_9n/a2017.01.06_9n/a2017.01.06_92017.01.06_92017.01.06_9
FreeBSD:15:quarterly--n/a-n/a---
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. gettext-runtime>=0.22_1 : devel/gettext-runtime
  2. x11.pc : x11/libX11
  3. xau.pc : x11/libXau
  4. xext.pc : x11/libXext
  5. xft.pc : x11-fonts/libXft
  6. xmu.pc : x11-toolkits/libXmu
  7. xrender.pc : x11/libXrender
  8. xt.pc : x11-toolkits/libXt
  9. xpm.pc : x11/libXpm
Runtime dependencies:
  1. x11.pc : x11/libX11
  2. xau.pc : x11/libXau
  3. xext.pc : x11/libXext
  4. xft.pc : x11-fonts/libXft
  5. xmu.pc : x11-toolkits/libXmu
  6. xrender.pc : x11/libXrender
  7. xt.pc : x11-toolkits/libXt
  8. xpm.pc : x11/libXpm
Library dependencies:
  1. libfontconfig.so : x11-fonts/fontconfig
  2. libgmp.so : math/gmp
  3. libgnutls.so : security/gnutls
  4. libhogweed.so : security/nettle
  5. libidn2.so : dns/libidn2
  6. libnettle.so : security/nettle
  7. libp11-kit.so : security/p11-kit
  8. libpng.so : graphics/png
  9. libtasn1.so : security/libtasn1
  10. libtspi.so : security/trousers
  11. libunistring.so : devel/libunistring
  12. libintl.so : devel/gettext-runtime
  13. libjpeg.so : graphics/jpeg-turbo
  14. libXm.so.4 : x11-toolkits/open-motif
This port is required by:
for Build

Deleted ports which required this port:

Expand this list of 1 deleted port
  1. biology/njplot*
  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:
===> The following configuration options are available for ncbi-toolkit-2017.01.06_9: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings
Options name:
biology_ncbi-toolkit
USES:
gettext-runtime iconv jpeg motif xorg
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. ftp://ftp.ncbi.nlm.nih.gov/toolbox/ncbi_tools/old/20170106/
Collapse this list.

There are no commits on branch 2022Q3 for this port