diff options
| -rw-r--r-- | licenses/mammoth | 20 | ||||
| -rw-r--r-- | profiles/package.mask | 9 | ||||
| -rw-r--r-- | sci-biology/mammoth/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/mammoth/files/1.0-consistent-system-intrinsic.patch | 21 | ||||
| -rw-r--r-- | sci-biology/mammoth/mammoth-1.0-r1.ebuild | 42 | ||||
| -rw-r--r-- | sci-biology/mammoth/metadata.xml | 8 |
6 files changed, 0 insertions, 101 deletions
diff --git a/licenses/mammoth b/licenses/mammoth deleted file mode 100644 index 27ba4536d2d4..000000000000 --- 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 ad287dfb688f..461b2386c88b 100644 --- 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 index 584405eb5350..000000000000 --- 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 index 63bf9f246750..000000000000 --- 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 $PWD > junk1') - open(unit=21,file='junk1') - read(21,'(a340)', end=7) path - 7 close(21) -- call system ('rm -f junk1') -+ i = system ('rm -f junk1') - - c write(6,*)'my path is ', path - c write(6,*)tras1,tras2,tras3, diff --git a/sci-biology/mammoth/mammoth-1.0-r1.ebuild b/sci-biology/mammoth/mammoth-1.0-r1.ebuild deleted file mode 100644 index 3ec450753773..000000000000 --- a/sci-biology/mammoth/mammoth-1.0-r1.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2017 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 - -inherit autotools eutils fortran-2 flag-o-matic toolchain-funcs - -MY_P="${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 index 959160fe46b1..000000000000 --- 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> |