sci-biology/mammoth: Remove last-rited pkg, #612738

diff --git a/licenses/mammoth b/licenses/mammoth
deleted file mode 100644 (file)
index 27ba453..0000000
--- a/licenses/mammoth
+++ /dev/null
@@ -1,20 +0,0 @@
-                                 ---------------------
-                                    LICENSE AGREEMENT
-                                 ---------------------
-The  MAMMOTH  user  automatically  accepts  the following terms when using the program:
-
-(1)  Report errors,  bugs  or modificarions  in the program to main author, Angel R Ortiz, e-mail: aro@cbm.uam.es
-
-(2)  Do  not  redistribute  the  program  and/or its modifications. Interested  users  should  contact  directly to the author in order to obtain a copy of the program.
-
-(3)  This license is for  scientific non-profit and  non-commercial use only.  Any other  use of this software for other purposes, alone or  integrated  into other software,  requires the prior consent of the author.
-
-(4)  The authors do not assume any responsibility for  the licensed software and its use. The author will not assume any liability
-for  damages  occurring  through  the  use   of  the  licensed software;  does not guarantee the  suitability of the licensed software for  any  application;  and does not provide support.
-
-(5)  Acknowledge the use of the program in scientific publications:
-
-     Ortiz AR, Strauss CE, Olmea O.
-     MAMMOTH (Matching molecular models obtained from theory)
-     An automated method for model comparison.
-     Protein Sci. 2002 Nov;11(11):2606-21.             

diff --git a/profiles/package.mask b/profiles/package.mask
index ad287dfb688f835d4cea5de38d26e57c58d41fa6..461b2386c88bbd4c3db1e55b34a6056667054ece 100644 (file)
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -504,15 +504,6 @@ dev-libs/cyrus-imap-dev
 # dependencies. To be removed in 30 days.
 x11-terms/rxvt
 
-# Michał Górny <mgorny@gentoo.org> (15 May 2017)
-# These packages lack modern digests and are fetch-restricted, so we can
-# not update them. Some of them have additional issues.
-# Removal in 30 days.
-#
-# sci-biology/mammoth - #612738, not touched since 2015, added in 2007,
-# not bumped since; homepage gone
-sci-biology/mammoth
-
 # Bernard Cafarelli <voyageur@gentoo.org> (8 May 2017)
 # Coordinated conversion to wxGTK:3.0-gtk3
 # Drop mask after migration of existing wxGTK:3.0 users

diff --git a/sci-biology/mammoth/Manifest b/sci-biology/mammoth/Manifest
deleted file mode 100644 (file)
index 584405e..0000000
--- a/sci-biology/mammoth/Manifest
+++ /dev/null
@@ -1 +0,0 @@
-DIST mammoth-1.0-src.tgz 319617 SHA256 7a21bc47db4a47cc5ebeeb4c46761a79eece0a802104a3d6189f388a03e59de2

diff --git a/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch b/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch
deleted file mode 100644 (file)
index 63bf9f2..0000000
--- a/sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch
+++ /dev/null
@@ -1,21 +0,0 @@
-http://gcc.gnu.org/onlinedocs/gcc-4.2.2/gfortran/SYSTEM.html#SYSTEM
-
-This intrinsic is provided in both subroutine and function forms; 
-however, only one form can be used in any given program unit.
-
---- src/6apply_rot_tras.f.orig 2007-12-10 00:51:35.000000000 -0800
-+++ src/6apply_rot_tras.f      2007-12-10 00:55:07.000000000 -0800
-@@ -47,11 +47,11 @@
-       endif
- 
- 
--      call system ('echo $PWD > junk1')
-+      i = system ('echo $PWD > junk1')
-       open(unit=21,file='junk1')
-       read(21,'(a340)', end=7) path
-  7    close(21)
--      call system ('rm -f junk1')
-+      i = system ('rm -f junk1')
- 
- c      write(6,*)'my path is ', path
- c      write(6,*)tras1,tras2,tras3,

diff --git a/sci-biology/mammoth/mammoth-1.0-r1.ebuild b/sci-biology/mammoth/mammoth-1.0-r1.ebuild
deleted file mode 100644 (file)
index 3ec4507..0000000
--- a/sci-biology/mammoth/mammoth-1.0-r1.ebuild
+++ /dev/null
@@ -1,42 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit autotools eutils fortran-2 flag-o-matic toolchain-funcs
-
-MY_P="${P}-src"
-
-DESCRIPTION="MAtching Molecular Models Obtained from THeory"
-HOMEPAGE="https://ub.cbm.uam.es/software/software.php"
-SRC_URI="${MY_P}.tgz"
-
-LICENSE="mammoth"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE=""
-
-RESTRICT="fetch"
-
-S=${WORKDIR}/${MY_P}
-
-pkg_nofetch() {
-       einfo "Download the source code for MAMMOTH from"
-       einfo "${HOMEPAGE}"
-       einfo "and place it in ${DISTDIR}"
-}
-
-src_prepare() {
-       # Broken with gfortran without this patch
-       epatch "${FILESDIR}"/${PV}-consistent-system-intrinsic.patch
-
-       case $(tc-getFC) in
-               g77)            append-fflags -ffixed-line-length-none ;;
-               gfortran)       append-fflags -ffixed-line-length-none ;;
-       esac
-
-       # It comes with a custom-modified configure for some reason,
-       # which forces you to pass in the Fortran compiler as a parameter.
-       # Let's do the standard stuff instead.
-       eautoreconf
-}

diff --git a/sci-biology/mammoth/metadata.xml b/sci-biology/mammoth/metadata.xml
deleted file mode 100644 (file)
index 959160f..0000000
--- a/sci-biology/mammoth/metadata.xml
+++ /dev/null
@@ -1,8 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-  <maintainer type="project">
-    <email>sci-biology@gentoo.org</email>
-    <name>Gentoo Biology Project</name>
-  </maintainer>
-</pkgmetadata>