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 Open-Source ultimaker ultimaker (Ultimaker) / debian-backup Project
A certifiably-awesome open-source package repository curated by Ultimaker, hosted by Cloudsmith.
Note: Packages in this repository are licensed as GNU General Public License v3.0 or later (dependencies may be licensed differently).

Debian logo tree-puzzle  5.2-11

One-liner (summary)

Reconstruction of phylogenetic trees by maximum likelihood

Description

TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment.

License

Unknown

Size

121.2 KB

Downloads

0

Status  Completed
Checksum (MD5) 7c96f2bee330d96aceccc4bdf6053e61
Checksum (SHA-1) f2abb37236284213007e29222a8916ce56f375d1
Checksum (SHA-256) 850b665677331051a804a7e981f62f0e14ba268b80ed7fd6ccf790d9175cc6ae
Checksum (SHA-512) 2c00c6ca6d32a6d943d91147c307c5794255a9fe7589ad9425642a2c65678d577d…
GPG Signature
GPG Fingerprint c0a114330029b468b1146f70c334efcb2c4f9be3
Distribution debian/buster - Debian - 10 (Buster)
Storage Region  Dublin, Ireland
Type  Binary (contains binaries and binary artifacts)
Uploaded At 5 months, 3 weeks ago
Uploaded By alex-borro
Slug Id tree-puzzle_52-11_armhfdeb-e8zv
Unique Id HF8ZhKH0gNo9
Version (Raw) 5.2-11
Version (Parsed)
  • Major: 5
  • Minor: 2
  • Pre (Str): (empty)
  • Pre (Num Array): 11
  • Type: SemVer (Compat)
  extended metadata
Homepage http://www.tree-puzzle.de
Installed Size 241.0 KB
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority optional
Section science
pkg tree-puzzle_5.2-11_armhf.deb 0
121.2 KB
md5 sha1 sha256 sha512
Package Contents (tree-puzzle_5.2-11_armhf.deb)
Loading...

This package has 20 files/directories.

Dependencies

5

Checksum (md5)

ba61f66d1acd75c31b1f904e5d3421b8

Depends
libc6 >=2.7
Depends
libsprng2
Recommends
tree-puzzle-doc
Suggests
phylip
Suggests
treetool
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|This version of 'tree-puzzle' @ Cloudsmith|
.. |This version of 'tree-puzzle' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/5.2-11/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true
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image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/5.2-11/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/5.2-11/a=armhf;xc=main;d=debian%252Fbuster;t=binary/",title="This version of 'tree-puzzle' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/5.2-11/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/5.2-11/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'tree-puzzle' @ Cloudsmith" /></a>

rendered as: This version of 'tree-puzzle' @ Cloudsmith

To embed the badge for the latest package version, use the following:

[![Latest version of 'tree-puzzle' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/)
|Latest version of 'tree-puzzle' @ Cloudsmith|
.. |Latest version of 'tree-puzzle' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/",title="Latest version of 'tree-puzzle' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/tree-puzzle/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true" alt="Latest version of 'tree-puzzle' @ Cloudsmith" /></a>

rendered as: Latest version of 'tree-puzzle' @ Cloudsmith

These instructions assume you have setup the repository first (or read it).

To install/use tree-puzzle @ version 5.2-11 ...

To install packages, you can quickly setup the repository automatically (recommended):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E bash

If you need to force a specific distribution, release/version, architecture, or component (if supported), you can also do that (e.g. if your system is compatible but not identical):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E distro=debian codename=buster arch=ARCH component=COMPONENT bash

or ... you can manually configure it yourself before installing packages:

apt-get install -y debian-keyring  # debian only
apt-get install -y debian-archive-keyring  # debian only
apt-get install -y apt-transport-https
# For Debian Stretch, Ubuntu 16.04 and later
keyring_location=/usr/share/keyrings/ultimaker-debian-backup-archive-keyring.gpg
# For Debian Jessie, Ubuntu 15.10 and earlier
keyring_location=/etc/apt/trusted.gpg.d/ultimaker-debian-backup.gpg
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/gpg.C334EFCB2C4F9BE3.key' |  gpg --dearmor >> ${keyring_location}
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/config.deb.txt?distro=debian&codename=buster&component=main' > /etc/apt/sources.list.d/ultimaker-debian-backup.list
sudo chmod 644 ${keyring_location}
sudo chmod 644 /etc/apt/sources.list.d/ultimaker-debian-backup.list
apt-get update
sudo apt-get install tree-puzzle=5.2-11
Warning: Note that this package is for Debian 10 (Buster) / armhf and may only work for that configuration.
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