gentoo resync : 06.04.2022

4 files changed, 0 insertions, 58 deletions

diff --git a/sci-chemistry/mm-align/Manifest b/sci-chemistry/mm-align/Manifest
deleted file mode 100644
index 86393b5285e8..000000000000
--- a/sci-chemistry/mm-align/Manifest
+++ /dev/null
@@ -1,4 +0,0 @@
-AUX CMakeLists.txt 142 BLAKE2B 43a1c754ff92fa7b11a2cbe8616626b97dfe12b2ada84f6fe9882bc0386df6ead6b00aaff897f958001e0ac2fded9fe87b3d9e7da559cc3b6c0ff2d79c66e921 SHA512 edeaeed165d8b89edaf0f8e1e50870c61fa1446e3b8febb367451cf93d160679e042131256e3a5d52406a4f1731f94414550cacb8dc023246dbda12c6586a00c
-DIST MM-align-20120321.tar.xz 20072 BLAKE2B be53cff43b220c9c44bbd600e4e2870e3987da25744a4bf3da0bc8cf7bc2619c93839e27327d23b5ef3bfbf9aca86b865717c48eb5d91a9da7b977909fb3bc39 SHA512 193c3b16b2d9fb0aaacf18b203fcf0240de7b11b4c0ce99fc571c277aa6e624b7b8b4df625e34433a5dec4349bb5bf6ae0368609c1738337923cf3b4d06428bc
-EBUILD mm-align-20120321.ebuild 512 BLAKE2B c59652bc65df34ce0a26f8781b4794bf26a55838a66a27e93a36d2091b2f0668043a56cb5899c09e85c017ae23ef0d8db02d672c47cf47db5ab8bfdfeeb122ce SHA512 0da84f046c7aaa3023a0512397f09b298a5d99ea8623126aa1a4c2a18e3fc9b93eab635253a424e149013d39c47e1ab608edb68b540edb40fc3db7e055fdded8
-MISC metadata.xml 1451 BLAKE2B 9f5071f4eb82f5a49b9b3dd690c4105f8b56b80fda035544f864ff3062ac5fdf4d6b2c16a2e42eacc3bf4cbc64b3ad27d090ffd635506ce3789556fb7e023284 SHA512 908da672d7cf091949b7f1120764a3ea93a67b48edd2e391e66d4ca1d5ce39a25acecdee723a0444c680b4e835e197197cef56e85e1bd6018999df1bc330d797
diff --git a/sci-chemistry/mm-align/files/CMakeLists.txt b/sci-chemistry/mm-align/files/CMakeLists.txt
deleted file mode 100644
index 635ffdd67418..000000000000
--- a/sci-chemistry/mm-align/files/CMakeLists.txt
+++ /dev/null
@@ -1,5 +0,0 @@
-cmake_minimum_required (VERSION 2.6)
-project (MM-align Fortran)
-add_executable(MMalign MM-align.f)
-
-install (TARGETS MMalign DESTINATION bin)
diff --git a/sci-chemistry/mm-align/metadata.xml b/sci-chemistry/mm-align/metadata.xml
deleted file mode 100644
index 03c48e987ffb..000000000000
--- a/sci-chemistry/mm-align/metadata.xml
+++ /dev/null
@@ -1,26 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-  <maintainer type="project">
-    <email>sci-chemistry@gentoo.org</email>
-    <name>Gentoo Chemistry Project</name>
-  </maintainer>
-  <longdescription>
-MM-align is an algorithm for structurally aligning multiple-chain 
-protein-protein complexes. The algorithm is built on a heuristic 
-iteration of a modified Needleman-Wunsch dynamic programming (DP) 
-algorithm, with the alignment score specified by the inter-complex residue 
-distances. The multiple chains in each complex are first joined, in every 
-possible order, and then simultaneously aligned with cross-chain alignments 
-prevented. The alignments of interface residues are enhanced by an 
-interface-specific weighting factor. An optimal alignment between two complexes,
-as well as the overall TM-score, will be reported for each comparison.
-What is the difference between TM-align and MM-align? TM-align is for aligning 
-monomer protein structures while MM-align is designed for aligning 
-multiple-chain protein complex structures. Although one can still use TM-align 
-to align protein complexes after manually joining the chains, this will lead 
-to suboptimal alignments with unphysical cross alignments. Therefore, the 
-best result will be obtained if one uses TM-align to monomer structures and 
-MM-align for multimer structures.
-</longdescription>
-</pkgmetadata>
diff --git a/sci-chemistry/mm-align/mm-align-20120321.ebuild b/sci-chemistry/mm-align/mm-align-20120321.ebuild
deleted file mode 100644
index d2b42fe2547e..000000000000
--- a/sci-chemistry/mm-align/mm-align-20120321.ebuild
+++ /dev/null
@@ -1,23 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit cmake-utils fortran-2
-
-DESCRIPTION="Protein Complex Structural Alignment"
-HOMEPAGE="http://zhanglab.ccmb.med.umich.edu/MM-align/"
-SRC_URI="https://dev.gentoo.org/~jlec/distfiles/MM-align-${PV}.tar.xz"
-
-SLOT="0"
-LICENSE="tm-align"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE=""
-
-S="${WORKDIR}"
-
-src_prepare() {
-	cp "${FILESDIR}"/CMakeLists.txt . || die
-
-	cmake-utils_src_prepare
-}