fastdnaml_1.2.2-14_i386.deb


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Description

fastdnaml - Tool for construction of phylogenetic trees of DNA sequences

Property Value
Distribution Debian 10 (Buster)
Repository Debian Main i386
Package filename fastdnaml_1.2.2-14_i386.deb
Package name fastdnaml
Package version 1.2.2
Package release 14
Package architecture i386
Package type deb
Category field::biology field::biology:bioinformatics implemented-in::c interface::commandline role::program science scope::utility use::analysing use::comparing works-with-format::TODO works-with-format::plaintext works-with::TODO
Homepage ftp://ftp.bio.indiana.edu/molbio/evolve/fastdnaml/fastDNAml.html
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 61.34 KB
Installed size 241.00 KB
fastDNAml is a program derived from Joseph Felsenstein's version 3.3 DNAML
(part of his PHYLIP package).  Users should consult the documentation for
DNAML before using this program.
fastDNAml is an attempt to solve the same problem as DNAML, but to do so
faster and using less memory, so that larger trees and/or more bootstrap
replicates become tractable.  Much of fastDNAml is merely a recoding of the
PHYLIP 3.3 DNAML program from PASCAL to C.
Note that the homepage of this program is not available any more and so
this program will probably not see any further updates.

Alternatives

Package Version Architecture Repository
fastdnaml_1.2.2-14_amd64.deb 1.2.2 amd64 Debian Main
fastdnaml - - -

Requires

Name Value
libc6 >= 2.7

Download

Type URL
Mirror ftp.br.debian.org
Binary Package fastdnaml_1.2.2-14_i386.deb
Source Package fastdnaml

Install Howto

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

Files

Path
/usr/bin/fastDNAml
/usr/bin/fastDNAml-util
/usr/lib/fastdnaml/bin/ae2dnaml
/usr/lib/fastdnaml/bin/bootstrap
/usr/lib/fastdnaml/bin/categories
/usr/lib/fastdnaml/bin/categories_file
/usr/lib/fastdnaml/bin/checkpoint_summary
/usr/lib/fastdnaml/bin/clean_checkpoints
/usr/lib/fastdnaml/bin/clean_jumbles
/usr/lib/fastdnaml/bin/dnaml_progress
/usr/lib/fastdnaml/bin/fastDNAml_boot
/usr/lib/fastdnaml/bin/fastDNAml_loop
/usr/lib/fastdnaml/bin/frequencies
/usr/lib/fastdnaml/bin/global
/usr/lib/fastdnaml/bin/iterate_rates
/usr/lib/fastdnaml/bin/jumble
/usr/lib/fastdnaml/bin/min_info
/usr/lib/fastdnaml/bin/n_categories
/usr/lib/fastdnaml/bin/n_files
/usr/lib/fastdnaml/bin/out.PID
/usr/lib/fastdnaml/bin/outgroup
/usr/lib/fastdnaml/bin/printdata
/usr/lib/fastdnaml/bin/quickadd
/usr/lib/fastdnaml/bin/restart
/usr/lib/fastdnaml/bin/scores
/usr/lib/fastdnaml/bin/transition
/usr/lib/fastdnaml/bin/treefile
/usr/lib/fastdnaml/bin/treefile2prolog
/usr/lib/fastdnaml/bin/trees2NEXUS
/usr/lib/fastdnaml/bin/trees2prolog
/usr/lib/fastdnaml/bin/userlengths
/usr/lib/fastdnaml/bin/usertree
/usr/lib/fastdnaml/bin/usertrees
/usr/lib/fastdnaml/bin/weights
/usr/lib/fastdnaml/bin/weights_categories
/usr/share/doc-base/fastdnaml
/usr/share/doc-base/fastdnaml-scripts
/usr/share/doc/fastdnaml/README.Debian
/usr/share/doc/fastdnaml/README.test
/usr/share/doc/fastdnaml/changelog.Debian.gz
/usr/share/doc/fastdnaml/copyright
/usr/share/doc/fastdnaml/fastDNAml_doc_1.2.txt
/usr/share/doc/fastdnaml/fastDNAml_scripts.txt.gz
/usr/share/doc/fastdnaml/examples/test5.out
/usr/share/doc/fastdnaml/examples/test5.phy
/usr/share/doc/fastdnaml/examples/test5B.out
/usr/share/doc/fastdnaml/examples/test5B.phy
/usr/share/doc/fastdnaml/examples/test5C.out
/usr/share/doc/fastdnaml/examples/test5C.phy
/usr/share/doc/fastdnaml/examples/test5GRT.out
/usr/share/doc/fastdnaml/examples/test5GRT.phy
/usr/share/doc/fastdnaml/examples/test5I.out
/usr/share/doc/fastdnaml/examples/test5I.phy
/usr/share/doc/fastdnaml/examples/test5I2.out
/usr/share/doc/fastdnaml/examples/test5I2.phy
/usr/share/doc/fastdnaml/examples/test5J.out
/usr/share/doc/fastdnaml/examples/test5J.phy
/usr/share/doc/fastdnaml/examples/test5R.out
/usr/share/doc/fastdnaml/examples/test5R.phy
/usr/share/doc/fastdnaml/examples/test5TF.out
/usr/share/doc/fastdnaml/examples/test5TF.phy
/usr/share/doc/fastdnaml/examples/test5U.out.gz
/usr/share/doc/fastdnaml/examples/test5U.phy
/usr/share/doc/fastdnaml/examples/test5W.out
/usr/share/doc/fastdnaml/examples/test5W.phy
/usr/share/doc/fastdnaml/examples/test5WC.out
/usr/share/doc/fastdnaml/examples/test5WC.phy
/usr/share/doc/fastdnaml/examples/tests/Makefile
/usr/share/doc/fastdnaml/examples/tests/control
/usr/share/doc/fastdnaml/examples/tests/fastdnaml.data
/usr/share/fastdnaml/fastdnaml_help
/usr/share/man/man1/fastDNAml-util.1.gz
/usr/share/man/man1/fastDNAml.1.gz
/usr/share/menu/fastdnaml

Changelog

2019-05-11 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-14) unstable; urgency=medium
[ Jelmer Vernooń≥ ]
* Use secure copyright file specification URI.
* Trim trailing whitespace.
[ Andreas Tille ]
* Do not hard code cc
Closes: #928790
* Standards-Version: 4.3.0
2018-07-09 - Liubov Chuprikova <chuprikovalv@gmail.com>
fastdnaml (1.2.2-13) unstable; urgency=medium
* Team upload
[ Andreas Tille ]
* Add registry entry
[ Liubov Chuprikova ]
* Add autopkgtest
Closes: #890787
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.5
* debhelper 11
* Add a call to dh_clean
2017-09-27 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-12) unstable; urgency=medium
* Add README.source that program is not available upstream any more
* Fake watch file
* Moved packaging to Git
* debhelper 10
* Standards-Version: 4.1.0 (no changes needed)
* hardening
2016-01-09 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-11) unstable; urgency=low
* debian/upstream/metadata: Add citation information
* cme fix dpkg-control
* debhelper 9
* DEP5
* add fake debian/watch
* propagate hardening options
2011-12-06 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-10) unstable; urgency=low
* debian/control:
- Use ftp download site as homepage
- Fixed Vcs fields
- Standards-Version: 3.9.2 (no changes needed)
- Do not Build-Depend cdbs, quilt any more
* Debhelper 8 (control + compat)
* debian/source/format: 3.0 (quilt)
* removed debian/README.source which becomes superfluous by using
source format 3.0 (quilt)
* Use Debian menu instead of desktop files to not confuse Gnome users
Closes: #639996
2009-09-04 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-9) unstable; urgency=low
* Debhelper 7
* Standards-Version 3.8.3 (added README.source)
* Added notice about missing upstream homepage in long description
* debian/patches/Makefile.patch: Inject this file as patch rather
than injecting it into the source directory
* debian/fastDNAml-util: Moved this file to the debian directory
rather than injecting it into the source directory
* debian/rules: removed dh_desktop call
2008-07-06 - Charles Plessy <plessy@debian.org>
fastdnaml (1.2.2-8) unstable; urgency=low
* Changed the doc-base section according to the new policy.
* debian/control:
- Added myself to the uploaders field.
- Removed the [Biology] tag from the short description.
* debian/patches/{fast*,Makefile.diff,tests.patch} shipped some plain files
as patches. I created the files properly and deleted the corresopnding
patches.
* Annotated debian/patches/scripts.patch according to Debian-Med's policy.
* Corrected a link in debian/fastDNAml.1.
2008-02-18 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-7) unstable; urgency=low
* Homepage of project vanished, used archive.org as homepage tag
* Removed XB-Tag which is not used
* debian/rules: Do not auto generate debian/control, removed
debian/control.in
* Standards-Version: 3.7.3 (no changes needed)
* Switched to quilt
* Group maintenance
- Maintainer: Debian-Med Packaging Team
<debian-med-packaging@lists.alioth.debian.org>
- DM-Upload-Allowed: yes
- Uploaders: Andreas Tille <tille@debian.org>
- Vcs-Browser, Vcs-Svn
* Removed encoding tag from desktop file
2006-09-09 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-6) unstable; urgency=low
* Switched to cdbs
* Standards-Version: 3.7.2 (no changes necessary)
* Setting DebTags
* Added desktop file
2003-04-26 - Andreas Tille <tille@debian.org>
fastdnaml (1.2.2-5) unstable; urgency=low
* The "I'm against war" release
Mankind must put an end to war before war puts an end to mankind.
-- John F. Kennedy
* Standards-Version: 3.5.9
* Use debian/compat for debhelper compatibility
* Changed compile option from -g to -Wall
* Added documentation to doc-base
* Fixed typo in scripts/iterate_rates

See Also

Package Description
fastforward_0.51-6_i386.deb handles qmail forwarding according to a cdb database
fastjar_0.98-6+b1_i386.deb Jar creation utility
fastjet-doc_3.0.6+dfsg-3_all.deb Documentation of FastJet
fastjet-examples_3.0.6+dfsg-3_all.deb Example source files of FastJet
fastlink-doc_4.1P-fix100+dfsg-2_all.deb Some papers about fastlink
fastlink_4.1P-fix100+dfsg-2_i386.deb faster version of pedigree programs of Linkage
fastml_3.1-4_i386.deb maximum likelihood ancestral amino-acid sequence reconstruction
fastnetmon_1.1.3+dfsg-8.1_i386.deb fast DDoS analyzer with sflow/netflow/mirror support (community edition)
fastp_0.19.6+dfsg-1_i386.deb Ultra-fast all-in-one FASTQ preprocessor
fastqc_0.11.8+dfsg-2_all.deb quality control for high throughput sequence data
fastqtl-doc_2.184+dfsg-6_all.deb QTL mapper in cis for molecular phenotypes - documentation
fasttree_2.1.10-2_i386.deb phylogenetic trees from alignments of nucleotide or protein sequences
fastx-toolkit_0.0.14-6_i386.deb FASTQ/A short nucleotide reads pre-processing tools
fatattr_1.0.1-14_i386.deb Utility to control attributes on a FAT filesystem
fatcat_1.0.5-1_i386.deb FAT filesystem explore, extract, repair, and forensic tool
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