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 <robbat2@gentoo.org>
X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests
X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project
X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration
X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn
X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts
X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration
X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed

1 files changed, 24 insertions, 0 deletions

diff --git a/sci-chemistry/tm-align/metadata.xml b/sci-chemistry/tm-align/metadata.xml
new file mode 100644
index 000000000000..1e724495b8e2
--- /dev/null
+++ b/sci-chemistry/tm-align/metadata.xml
@@ -0,0 +1,24 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-chemistry</herd>
+  <maintainer>
+    <email>jlec@gentoo.org</email>
+  </maintainer>
+  <longdescription>
+TM-align is a computer algorithm for protein structure alignment using dynamic 
+programming and TM-score rotation matrix. An optimal alignment between two 
+proteins, as well as the TM-score, will be reported for each comparison. The 
+value of TM-score lies in (0,1]. In general, a comparison of TM-score smaller
+0.2 indicates that there is no similarity between two structures; a TM-score 
+greater 0.5 means the structures share the same fold.
+
+What is the difference between TM-score and TM-align? The TM-score program 
+is to compare two models based on their given and known residue equivalency. 
+It is usually NOT applied to compare two proteins of different sequences. The 
+TM-align is a structural alignment program for comparing two proteins whose 
+sequences can be different. The TM-align will first find the best equivalent 
+residues of two proteins based on the structure similarity and then output a 
+TM-score. The TM-score values in both programs have the same definition.
+</longdescription>
+</pkgmetadata>