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Port details on branch 2022Q2
ngs-sdk Tools and libraries for using data in the INSDC Sequence Read Archives
3.0.1 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 3.0.1Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-06-10 23:58:19
Last Update: 2024-02-02 21:33:37
Commit Hash: 076c40f
License: PD
WWW:
https://github.com/ncbi/ngs
Description:
NGS is a new, domain-specific API for accessing reads, alignments and pileups produced from Next Generation Sequencing. The API itself is independent from any particular back-end implementation, and supports use of multiple back-ends simultaneously. It also provides a library for building new back-end "engines". The engine for accessing SRA data is contained within the sister repository ncbi-vdb. The API is currently expressed in C++, Java and Python languages. The design makes it possible to maintain a high degree of similarity between the code in one language and code in another - especially between C++ and Java.
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 (107 items)
Collapse this list.
  1. @ldconfig
  2. /usr/local/share/licenses/ngs-sdk-3.0.1/catalog.mk
  3. /usr/local/share/licenses/ngs-sdk-3.0.1/LICENSE
  4. /usr/local/share/licenses/ngs-sdk-3.0.1/PD
  5. include/ngs/Alignment.hpp
  6. include/ngs/AlignmentIterator.hpp
  7. include/ngs/ErrorMsg.hpp
  8. include/ngs/Fragment.hpp
  9. include/ngs/FragmentIterator.hpp
  10. include/ngs/Package.hpp
  11. include/ngs/Pileup.hpp
  12. include/ngs/PileupEvent.hpp
  13. include/ngs/PileupEventIterator.hpp
  14. include/ngs/PileupIterator.hpp
  15. include/ngs/Read.hpp
  16. include/ngs/ReadCollection.hpp
  17. include/ngs/ReadGroup.hpp
  18. include/ngs/ReadGroupIterator.hpp
  19. include/ngs/ReadIterator.hpp
  20. include/ngs/Reference.hpp
  21. include/ngs/ReferenceIterator.hpp
  22. include/ngs/ReferenceSequence.hpp
  23. include/ngs/Statistics.hpp
  24. include/ngs/StringRef.hpp
  25. include/ngs/adapter/AlignmentItf.hpp
  26. include/ngs/adapter/ErrorMsg.hpp
  27. include/ngs/adapter/FragmentItf.hpp
  28. include/ngs/adapter/PileupEventItf.hpp
  29. include/ngs/adapter/PileupItf.hpp
  30. include/ngs/adapter/ReadCollectionItf.hpp
  31. include/ngs/adapter/ReadGroupItf.hpp
  32. include/ngs/adapter/ReadItf.hpp
  33. include/ngs/adapter/Refcount.hpp
  34. include/ngs/adapter/ReferenceItf.hpp
  35. include/ngs/adapter/ReferenceSequenceItf.hpp
  36. include/ngs/adapter/StatisticsItf.hpp
  37. include/ngs/adapter/StringItf.hpp
  38. include/ngs/adapter/defs.h
  39. include/ngs/inl/Alignment.hpp
  40. include/ngs/inl/AlignmentIterator.hpp
  41. include/ngs/inl/Fragment.hpp
  42. include/ngs/inl/FragmentIterator.hpp
  43. include/ngs/inl/Package.hpp
  44. include/ngs/inl/Pileup.hpp
  45. include/ngs/inl/PileupEvent.hpp
  46. include/ngs/inl/PileupEventIterator.hpp
  47. include/ngs/inl/PileupIterator.hpp
  48. include/ngs/inl/Read.hpp
  49. include/ngs/inl/ReadCollection.hpp
  50. include/ngs/inl/ReadGroup.hpp
  51. include/ngs/inl/ReadGroupIterator.hpp
  52. include/ngs/inl/ReadIterator.hpp
  53. include/ngs/inl/Reference.hpp
  54. include/ngs/inl/ReferenceIterator.hpp
  55. include/ngs/inl/ReferenceSequence.hpp
  56. include/ngs/inl/Statistics.hpp
  57. include/ngs/inl/StringRef.hpp
  58. include/ngs/itf/AlignmentItf.h
  59. include/ngs/itf/AlignmentItf.hpp
  60. include/ngs/itf/ErrBlock.h
  61. include/ngs/itf/ErrBlock.hpp
  62. include/ngs/itf/ErrorMsg.hpp
  63. include/ngs/itf/FragmentItf.h
  64. include/ngs/itf/FragmentItf.hpp
  65. include/ngs/itf/PackageItf.hpp
  66. include/ngs/itf/PileupEventItf.h
  67. include/ngs/itf/PileupEventItf.hpp
  68. include/ngs/itf/PileupItf.h
  69. include/ngs/itf/PileupItf.hpp
  70. include/ngs/itf/ReadCollectionItf.h
  71. include/ngs/itf/ReadCollectionItf.hpp
  72. include/ngs/itf/ReadGroupItf.h
  73. include/ngs/itf/ReadGroupItf.hpp
  74. include/ngs/itf/ReadItf.h
  75. include/ngs/itf/ReadItf.hpp
  76. include/ngs/itf/Refcount.h
  77. include/ngs/itf/Refcount.hpp
  78. include/ngs/itf/ReferenceItf.h
  79. include/ngs/itf/ReferenceItf.hpp
  80. include/ngs/itf/ReferenceSequenceItf.h
  81. include/ngs/itf/ReferenceSequenceItf.hpp
  82. include/ngs/itf/StatisticsItf.h
  83. include/ngs/itf/StatisticsItf.hpp
  84. include/ngs/itf/StringItf.h
  85. include/ngs/itf/StringItf.hpp
  86. include/ngs/itf/VTable.h
  87. include/ngs/itf/VTable.hpp
  88. include/ngs/itf/defs.h
  89. include/ngs/unix/amd64
  90. include/ngs/unix/arm64/atomic32.h
  91. include/ngs/unix/fat86/atomic32.h
  92. include/ngs/unix/i386/atomic32.h
  93. include/ngs/unix/x86_64/atomic32.h
  94. lib/libngs-adapt-c++-static.a
  95. lib/libngs-adapt-c++.a
  96. lib/libngs-adapt-c++.a.2
  97. lib/libngs-adapt-c++.a.2.11.2
  98. lib/libngs-c++-static.a
  99. lib/libngs-c++.a
  100. lib/libngs-c++.a.2
  101. lib/libngs-c++.a.2.11.2
  102. lib/libngs-sdk.so
  103. lib/libngs-sdk.so.2
  104. lib/libngs-sdk.so.2.11.2
  105. @owner
  106. @group
  107. @mode
Collapse this list.
Dependency lines:
  • ngs-sdk>0:biology/ngs-sdk
To install the port:
cd /usr/ports/biology/ngs-sdk/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/ngs-sdk
  • pkg install ngs-sdk
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: ngs-sdk
Flavors: there is no flavor information for this port.
NOT_FOR_ARCHS: powerpc powerpc64 powerpc64le
distinfo:
TIMESTAMP = 1687816957 SHA256 (ncbi-ngs-3.0.1_GH0.tar.gz) = 0c326aa1744a689c67d2ee7ef8097ec962fdc1529ddbfd63eb0987a23e76d48e SIZE (ncbi-ngs-3.0.1_GH0.tar.gz) = 1101663
Packages (timestamps in pop-ups are UTC):
ngs-sdk
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest-3.0.1--3.0.1---
FreeBSD:13:quarterly-3.0.1--3.0.1---
FreeBSD:14:latest-3.0.1--3.0.1---
FreeBSD:14:quarterly-3.0.1--3.0.1---
FreeBSD:15:latest-3.0.1n/a-n/a---
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. gmake>=4.3 : devel/gmake
  2. perl5>=5.36<5.37 : lang/perl5.36
There are no ports dependent upon this port
Configuration Options:
No options to configure
Options name:
biology_ngs-sdk
USES:
compiler:c++11-lang gmake perl5
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/ncbi/ngs/tar.gz/3.0.1?dummy=/
Collapse this list.

There are no commits on branch 2022Q2 for this port
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