ncbi-blast+_2.8.1-1_i386.deb


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Description

ncbi-blast+ - next generation suite of BLAST sequence search tools

Property Value
Distribution Debian 10 (Buster)
Repository Debian Main i386
Package filename ncbi-blast+_2.8.1-1_i386.deb
Package name ncbi-blast+
Package version 2.8.1
Package release 1
Package architecture i386
Package type deb
Category field::biology field::biology:bioinformatics implemented-in::c++ interface::commandline role::program science use::analysing works-with::biological-sequence
Homepage http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 11.16 MB
Installed size 44.74 MB
The Basic Local Alignment Search Tool (BLAST) is the most widely
used sequence similarity tool. There are versions of BLAST that
compare protein queries to protein databases, nucleotide queries
to nucleotide databases, as well as versions that translate nucleotide
queries or databases in all six frames and compare to protein databases
or queries.
PSI-BLAST produces a position-specific-scoring-matrix (PSSM) starting
with a protein query, and then uses that PSSM to perform further searches.
It is also possible to compare a protein or nucleotide query to a
database of PSSM’s.
The NCBI supports a BLAST web page at blast.ncbi.nlm.nih.gov as well as
a network service.

Alternatives

Package Version Architecture Repository
ncbi-blast+_2.8.1-1_amd64.deb 2.8.1 amd64 Debian Main
ncbi-blast+ - - -

Requires

Name Value
libbz2-1.0 -
libc6 >= 2.28
libgcc1 >= 1:7
libgomp1 >= 4.9
liblmdb0 >= 0.9.7
libmbedcrypto3 >= 2.13
libmbedtls12 >= 2.13
libpcre3 -
libstdc++6 >= 5.2
ncbi-data -
perl:any -
python -
zlib1g >= 1:1.2.11.dfsg

Download

Type URL
Mirror ftp.br.debian.org
Binary Package ncbi-blast+_2.8.1-1_i386.deb
Source Package ncbi-blast+

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install ncbi-blast+ deb package:
    # sudo apt-get install ncbi-blast+

Files

Path
/usr/bin/blast_formatter
/usr/bin/blastdb_aliastool
/usr/bin/blastdb_convert
/usr/bin/blastdbcheck
/usr/bin/blastdbcmd
/usr/bin/blastdbcp
/usr/bin/blastn
/usr/bin/blastp
/usr/bin/blastx
/usr/bin/convert2blastmask
/usr/bin/deltablast
/usr/bin/dustmasker
/usr/bin/gene_info_reader
/usr/bin/get_species_taxids.sh
/usr/bin/legacy_blast
/usr/bin/makeblastdb
/usr/bin/makembindex
/usr/bin/makeprofiledb
/usr/bin/psiblast
/usr/bin/rpsblast+
/usr/bin/rpstblastn
/usr/bin/seedtop+
/usr/bin/segmasker
/usr/bin/seqdb_perf
/usr/bin/tblastn
/usr/bin/tblastx
/usr/bin/update_blastdb
/usr/bin/windowmasker
/usr/bin/windowmasker_2.2.22_adapter
/usr/lib/ncbi-blast+/libalign_format.so
/usr/lib/ncbi-blast+/libbiblio.so
/usr/lib/ncbi-blast+/libblast.so
/usr/lib/ncbi-blast+/libblast_services.so
/usr/lib/ncbi-blast+/libblastdb.so
/usr/lib/ncbi-blast+/libblastdb_format.so
/usr/lib/ncbi-blast+/libblastinput.so
/usr/lib/ncbi-blast+/libblastxml.so
/usr/lib/ncbi-blast+/libblastxml2.so
/usr/lib/ncbi-blast+/libcomposition_adjustment.so
/usr/lib/ncbi-blast+/libcreaders.so
/usr/lib/ncbi-blast+/libgbseq.so
/usr/lib/ncbi-blast+/libgene_info.so
/usr/lib/ncbi-blast+/libgeneral.so
/usr/lib/ncbi-blast+/libgenome_collection.so
/usr/lib/ncbi-blast+/libid1.so
/usr/lib/ncbi-blast+/libid2.so
/usr/lib/ncbi-blast+/libmedlars.so
/usr/lib/ncbi-blast+/libmedline.so
/usr/lib/ncbi-blast+/libmla.so
/usr/lib/ncbi-blast+/libmlacli.so
/usr/lib/ncbi-blast+/libncbi_xloader_blastdb.so
/usr/lib/ncbi-blast+/libncbi_xloader_blastdb_rmt.so
/usr/lib/ncbi-blast+/libncbi_xloader_genbank.so
/usr/lib/ncbi-blast+/libncbi_xreader.so
/usr/lib/ncbi-blast+/libncbi_xreader_cache.so
/usr/lib/ncbi-blast+/libncbi_xreader_id1.so
/usr/lib/ncbi-blast+/libncbi_xreader_id2.so
/usr/lib/ncbi-blast+/libpub.so
/usr/lib/ncbi-blast+/libpubmed.so
/usr/lib/ncbi-blast+/libscoremat.so
/usr/lib/ncbi-blast+/libseq.so
/usr/lib/ncbi-blast+/libseqcode.so
/usr/lib/ncbi-blast+/libseqdb.so
/usr/lib/ncbi-blast+/libseqedit.so
/usr/lib/ncbi-blast+/libseqmasks_io.so
/usr/lib/ncbi-blast+/libseqset.so
/usr/lib/ncbi-blast+/libseqsplit.so
/usr/lib/ncbi-blast+/libsequtil.so
/usr/lib/ncbi-blast+/libsubmit.so
/usr/lib/ncbi-blast+/libtables.so
/usr/lib/ncbi-blast+/libtaxon1.so
/usr/lib/ncbi-blast+/libtaxon3.so
/usr/lib/ncbi-blast+/libvalid.so
/usr/lib/ncbi-blast+/libwritedb.so
/usr/lib/ncbi-blast+/libxalgoblastdbindex.so
/usr/lib/ncbi-blast+/libxalgodustmask.so
/usr/lib/ncbi-blast+/libxalgosegmask.so
/usr/lib/ncbi-blast+/libxalgowinmask.so
/usr/lib/ncbi-blast+/libxalnmgr.so
/usr/lib/ncbi-blast+/libxblast.so
/usr/lib/ncbi-blast+/libxblastformat.so
/usr/lib/ncbi-blast+/libxcgi.so
/usr/lib/ncbi-blast+/libxcleanup.so
/usr/lib/ncbi-blast+/libxcompress.so
/usr/lib/ncbi-blast+/libxconnect.so
/usr/lib/ncbi-blast+/libxformat.so
/usr/lib/ncbi-blast+/libxhtml.so
/usr/lib/ncbi-blast+/libxncbi.so
/usr/lib/ncbi-blast+/libxnetblast.so
/usr/lib/ncbi-blast+/libxnetblastcli.so
/usr/lib/ncbi-blast+/libxobjedit.so
/usr/lib/ncbi-blast+/libxobjmgr.so
/usr/lib/ncbi-blast+/libxobjread.so
/usr/lib/ncbi-blast+/libxobjutil.so
/usr/lib/ncbi-blast+/libxregexp.so
/usr/lib/ncbi-blast+/libxser.so
/usr/lib/ncbi-blast+/libxutil.so
/usr/share/doc/ncbi-blast+/README.Debian
/usr/share/doc/ncbi-blast+/changelog.Debian.gz
/usr/share/doc/ncbi-blast+/copyright
/usr/share/doc/ncbi-blast+/examples/test.fa
/usr/share/doc/ncbi-blast+/examples/testdatabase.fa
/usr/share/man/man1/ncbi-blast+.1.gz

Changelog

2019-02-03 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.8.1-1) unstable; urgency=medium
* New upstream release.
* debian/compat: Advance to Debhelper 11.
* debian/control:
- Build-Depend on liblmdb-dev.
- Split B-Ds other than Debhelper out to Build-Depends-Arch.
- Advance Debhelper requirement to 11~.
- Standards-Version: 4.3.0 (already compliant).
- Rules-Requires-Root: no.
* debian/patches: Formally update for new release.
- Retire support_boost_1_67 (already applied upstream).
- Update patches that apply with offsets or outright fuzz, or need
full-fledged porting.
* debian/patches/fix_lib_deps: Link xcleanup against $(OBJEDIT_LIBS).
* debian/patches/system_mbedtls_only (new): Omit convenience mbed TLS
copy, which is dead weight and yielded a Lintian error.
* debian/rules: Also skip (dh_auto)_configure when building only
architecture-independent binary packages.
2018-12-12 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.7.1-2) unstable; urgency=medium
[ David Miguel Susano Pinto ]
* d/control: fix Vcs-* links to point to salsa
[ Aaron M. Ucko ]
* d/control: Standards-Version: 4.2.1 (already compliant).
* d/patches/support_boost_1_67: New patch to extend Boost support
(used for uninstalled tests) through at least version 1.67, per
upstream (https://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/c%2B%2B)
revisions 79910, 79926, 79928, and 79929.  (Closes: #916000.)
2018-02-10 - Olivier Sallou <osallou@debian.org>
ncbi-blast+ (2.7.1-1) unstable; urgency=medium
* New upstream release
d/patches: update patch for new release
d/control:
go to standards 4.1.3
add mbedtls dependency
2017-01-15 - Olivier Sallou <osallou@debian.org>
ncbi-blast+ (2.6.0-1) unstable; urgency=medium
* New upstream release 
2016-12-14 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.5.0-4) unstable; urgency=medium
* New optionally_keep_sequence patch to hang on to sequence data even if
-parse_deflines recognized a non-local ID, on the condition that the
environment variable BLAST_ALWAYS_KEEP_SEQUENCE (or configuration
parameter [BLAST] always_keep_sequence) is set to a "true" value
(English-only, case-insensitive true, t, yes, y, or 1).  (Closes: #792510.)
2016-12-07 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.5.0-3) unstable; urgency=medium
* New suppress_gnutls_version_check patch to prevent bailing when the
exact compile-time and runtime GNU TLS versions differ; trust dpkg to
disallow combinations that are actually incompatible.
* debian/rules: If configure fails (as has been happening on alpha),
present (BUILD/status/)config.log before bailing.
2016-12-05 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.5.0-2) unstable; urgency=medium
* debian/patches/fix_lib_deps: Patch Makefile.blast_macros.mk to add blast
to BLAST_LIBS to clear up link errors that could otherwise occur.
* debian/control: B-D on libgnutls28-dev to enable HTTPS support.
* Fully take blast2 over from ncbi-tools6, whose implementation has retired.
2016-12-01 - Olivier Sallou <osallou@debian.org>
ncbi-blast+ (2.5.0-1) unstable; urgency=medium
* New upstream release 
2016-08-05 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.4.0-3) unstable; urgency=medium
* debian/rules:
- Properly build (but don't install) run_with_lock. (Closes: #833538.)
- Comment out nostrip check, which yielded a useless dbgsym package.
* Reinstate and refresh the hurd_fixes patch, which mostly still applies.
(Closes: #833539.)
* Add a new support_x32 patch to avoid picking up wrong inline assembly.
(Closes: #833541.)
2016-08-04 - Aaron M. Ucko <ucko@debian.org>
ncbi-blast+ (2.4.0-2) unstable; urgency=medium
* Import upstream patch for remaining Boost compatibility issues
as debian/patches/support_recent_boost.  (Closes: #833451.)
* debian/rules: Automatically determine which libraries are needed.
(The hand-maintained blacklist was incomplete.)

See Also

Package Description
ncbi-data_6.1.20170106+dfsg1-0+deb10u2_all.deb Platform-independent data for the NCBI toolkit
ncbi-entrez-direct_10.9.20190219+ds-1+b10_i386.deb NCBI Entrez utilities on the command line
ncbi-epcr_2.3.12-1-7_i386.deb Tool to test a DNA sequence for the presence of sequence tagged sites
ncbi-rrna-data_6.1.20170106+dfsg1-0+deb10u2_all.deb large rRNA BLAST databases distributed with the NCBI toolkit
ncbi-seg_0.0.20000620-5_i386.deb tool to mask segments of low compositional complexity in amino acid sequences
ncbi-tools-bin_6.1.20170106+dfsg1-0+deb10u2_i386.deb NCBI libraries for biology applications (text-based utilities)
ncbi-tools-x11_6.1.20170106+dfsg1-0+deb10u2_i386.deb NCBI libraries for biology applications (X-based utilities)
ncc_2.8-2.1+b1_i386.deb C source code analyzer
ncdt_2.1-4_i386.deb Display directory tree
ncdu_1.13-1+b1_i386.deb ncurses disk usage viewer
ncftp_3.2.5-2.1_i386.deb User-friendly and well-featured FTP client
ncl-ncarg_6.5.0-2_i386.deb NCAR Command Language and NCAR graphics
ncl-tools_2.1.21+git20180827.c71b264-2_i386.deb tools to deal with NEXUS files
ncmpc-lyrics_0.33-2_all.deb ncurses-based audio player (lyrics plugins)
ncmpc_0.33-2+b10_i386.deb ncurses-based audio player
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