sci-biology / t-coffee

A multiple sequence alignment package

Official package sites : ·

T-Coffee is a multiple sequence alignment package. Given a set of sequences (Proteins or DNA), T-Coffee generates a multiple sequence alignment. Version 2.00 and higher can mix sequences and structures. T-Coffee allows the combination of a collection of multiple/pairwise, global or local alignments into a single model. It also allows to estimate the level of consistency of each position within the new alignment with the rest of the alignments.

v11.00-r3 :: 0 :: gentoo

~amd64 ~amd64-linux ~ppc ~ppc64 ~x86 ~x86-linux

sci-biology / clustalw : General purpose multiple alignment program for DNA and proteins

sci-chemistry / tm-align : Quick & Accurate Structural Alignment

sci-chemistry / theseus : Maximum likelihood superpositioning and analysis of macromolecular structures

sci-biology/t-coffee-11.00-r2 does not respect LDFLAGS
sci-biology/t-coffee-11.00-r3 fails to compile: dp_lib/evaluate_dirichlet.c:543:8: error: 'lgamma_r' is missing exception
sci-biology/t-coffee-11.00-r3 - io_lib/io_func.c: error: cannot convert std::nullptr_t to int in return
sci-biology/t-coffee-11.00-r3 - io_lib/tree_util.c: error: invalid operands of types long unsigned int and std::nullptr_t to binar
sci-biology/t-coffee-11.00-r3 - [clang] util_lib/util_make_tree.c: error: ISO C++17 does not allow register
Repository mirror & CI · gentoo
Merge updates from master
Eli Schwartz · gentoo
sci-biology/t-coffee: mark as LTO-unsafe, strict-aliasing unsafe
Closes: Signed-off-by: Eli Schwartz <> Signed-off-by: Sam James <>
Repository mirror & CI · gentoo
Merge updates from master
David Seifert · gentoo
sci-biology/t-coffee: update EAPI 6 -> 8
Signed-off-by: David Seifert <>
David Seifert · gentoo
sci-biology/t-coffee: Remove old
Package-Manager: Portage-2.3.19, Repoman-2.3.6
David Seifert · gentoo
sci-biology/t-coffee: Fix building with GCC 7
Closes: Package-Manager: Portage-2.3.19, Repoman-2.3.6
Robin H. Johnson · gentoo
Drop $Id$ per council decision in bug #611234.
Signed-off-by: Robin H. Johnson <>
Justin Lecher · gentoo
sci-biology/t-coffee: Import fix for CVE-2015-8621
Gentoo-Bug: Package-Manager: portage-2.2.26 Signed-off-by: Justin Lecher <>
Robin H. Johnson · gentoo
proj/gentoo: Initial commit
This commit represents a new era for Gentoo: Storing the gentoo-x86 tree in Git, as converted from CVS. This commit is the start of the NEW history. Any historical data is intended to be grafted onto this point. Creation process: 1. Take final CVS checkout snapshot 2. Remove ALL ChangeLog* files 3. Transform all Manifests to thin 4. Remove empty Manifests 5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$ 5.1. Do not touch files with -kb/-ko keyword flags. Signed-off-by: Robin H. Johnson <> X-Thanks: Alec Warner <> - did the GSoC 2006 migration tests X-Thanks: Robin H. Johnson <> - infra guy, herding this project X-Thanks: Nguyen Thai Ngoc Duy <> - Former Gentoo developer, wrote Git features for the migration X-Thanks: Brian Harring <> - wrote much python to improve cvs2svn X-Thanks: Rich Freeman <> - validation scripts X-Thanks: Patrick Lauer <> - Gentoo dev, running new 2014 work in migration X-Thanks: Michał Górny <> - scripts, QA, nagging X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed