diff options
| -rw-r--r-- | sci-chemistry/gopenmol/ChangeLog | 6 | ||||
| -rw-r--r-- | sci-chemistry/gopenmol/gopenmol-3.00-r1.ebuild | 66 | ||||
| -rw-r--r-- | sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild | 4 | ||||
| -rw-r--r-- | sci-chemistry/molmol/ChangeLog | 6 | ||||
| -rw-r--r-- | sci-chemistry/molmol/molmol-2k_p2-r1.ebuild | 69 | ||||
| -rw-r--r-- | sci-chemistry/molmol/molmol-2k_p2-r2.ebuild | 4 | ||||
| -rw-r--r-- | sci-chemistry/molmol/molmol-2k_p2.ebuild | 4 | ||||
| -rw-r--r-- | sci-chemistry/molscript/ChangeLog | 6 | ||||
| -rw-r--r-- | sci-chemistry/molscript/molscript-2.1.2-r1.ebuild | 4 | ||||
| -rw-r--r-- | sci-chemistry/molscript/molscript-2.1.2.ebuild | 62 | ||||
| -rw-r--r-- | sci-chemistry/mosflm/Manifest | 14 |
11 files changed, 31 insertions, 214 deletions
diff --git a/sci-chemistry/gopenmol/ChangeLog b/sci-chemistry/gopenmol/ChangeLog index df2db237a534..71a80b0005fa 100644 --- a/sci-chemistry/gopenmol/ChangeLog +++ b/sci-chemistry/gopenmol/ChangeLog @@ -1,6 +1,10 @@ # ChangeLog for sci-chemistry/gopenmol # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/gopenmol/ChangeLog,v 1.10 2010/09/16 17:25:29 scarabeus Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/gopenmol/ChangeLog,v 1.11 2010/11/08 17:12:40 xarthisius Exp $ + + 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> + -gopenmol-3.00-r1.ebuild, gopenmol-3.00-r2.ebuild: + media-libs/jpeg -> virtual/jpeg. Drop old. 16 Sep 2010; Tomáš Chvátal <scarabeus@gentoo.org> gopenmol-3.00-r1.ebuild, gopenmol-3.00-r2.ebuild: diff --git a/sci-chemistry/gopenmol/gopenmol-3.00-r1.ebuild b/sci-chemistry/gopenmol/gopenmol-3.00-r1.ebuild deleted file mode 100644 index 69f7181be76d..000000000000 --- a/sci-chemistry/gopenmol/gopenmol-3.00-r1.ebuild +++ /dev/null @@ -1,66 +0,0 @@ -# Copyright 1999-2010 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/gopenmol/gopenmol-3.00-r1.ebuild,v 1.3 2010/09/16 17:25:29 scarabeus Exp $ - -inherit eutils - -DESCRIPTION="gOpenMol is a tool for the visualization and analysis of molecular structures" -HOMEPAGE="http://www.csc.fi/gopenmol" -SRC_URI="${HOMEPAGE}/distribute/${P}-linux.tar.gz" -LICENSE="as-is" -SLOT="0" -KEYWORDS="~x86" -IUSE="" - -RDEPEND="=dev-lang/tcl-8.4* - =dev-lang/tk-8.4* - dev-tcltk/bwidget - virtual/opengl - media-libs/freeglut - media-libs/jpeg - dev-lang/python - x11-libs/libXmu - x11-libs/libICE - x11-libs/libXau - x11-libs/libXdmcp - x11-libs/libXi - x11-libs/libXxf86vm" - -DEPEND="${RDEPEND}" - -S="${WORKDIR}/gOpenMol-${PV}/src" - -src_unpack() { - unpack ${A} - epatch ${FILESDIR}/${PV}-include-config-for-plugins.patch -} - -src_compile() { - econf || die "./configure failed" - - emake || die "emake failed" - - # Plugins are not built by default - cd ${S}/plugins - emake || die "emake plugins failed" - - # Utilities are not built by default - cd ${S}/utility - emake || die "emake utility failed" -} - -src_install() { - einstall || die "einstall failed" - - cd ${S}/plugins - einstall || die "einstall plugins failed" - - cd ${S}/utility - einstall || die "einstall utility failed" - - dosed /usr/bin/rungOpenMol -} - -pkg_postinst() { - einfo "Run gOpenMol using the rungOpenMol script." -} diff --git a/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild b/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild index 7a5891fca0aa..8f6c2adaa258 100644 --- a/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild +++ b/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild,v 1.3 2010/09/16 17:25:29 scarabeus Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/gopenmol/gopenmol-3.00-r2.ebuild,v 1.4 2010/11/08 17:12:40 xarthisius Exp $ EAPI="3" @@ -20,7 +20,7 @@ IUSE="" RDEPEND=" =dev-lang/tk-8.4* dev-tcltk/bwidget - media-libs/jpeg + virtual/jpeg media-libs/freeglut virtual/opengl x11-libs/libICE diff --git a/sci-chemistry/molmol/ChangeLog b/sci-chemistry/molmol/ChangeLog index f16dd2c96a55..fe87d721cced 100644 --- a/sci-chemistry/molmol/ChangeLog +++ b/sci-chemistry/molmol/ChangeLog @@ -1,6 +1,10 @@ # ChangeLog for sci-chemistry/molmol # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/ChangeLog,v 1.22 2010/10/10 21:26:18 ulm Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/ChangeLog,v 1.23 2010/11/08 17:14:25 xarthisius Exp $ + + 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> molmol-2k_p2.ebuild, + -molmol-2k_p2-r1.ebuild, molmol-2k_p2-r2.ebuild: + media-libs/jpeg -> virtual/jpeg. Drop old. 10 Oct 2010; Ulrich Mueller <ulm@gentoo.org> molmol-2k_p2.ebuild, molmol-2k_p2-r1.ebuild, molmol-2k_p2-r2.ebuild: diff --git a/sci-chemistry/molmol/molmol-2k_p2-r1.ebuild b/sci-chemistry/molmol/molmol-2k_p2-r1.ebuild deleted file mode 100644 index 466295c71bc3..000000000000 --- a/sci-chemistry/molmol/molmol-2k_p2-r1.ebuild +++ /dev/null @@ -1,69 +0,0 @@ -# Copyright 1999-2010 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/molmol-2k_p2-r1.ebuild,v 1.2 2010/10/10 21:26:18 ulm Exp $ - -EAPI="3" - -inherit eutils toolchain-funcs multilib - -MY_PV="${PV/_p/.}.0" -MY_P="${PN}-${MY_PV}" - -DESCRIPTION="Publication-quality molecular visualization package" -HOMEPAGE="http://hugin.ethz.ch/wuthrich/software/molmol/index.html" -SRC_URI="ftp://ftp.mol.biol.ethz.ch/software/MOLMOL/unix-gzip/${MY_P}-src.tar.gz - ftp://ftp.mol.biol.ethz.ch/software/MOLMOL/unix-gzip/${MY_P}-doc.tar.gz" -LICENSE="molmol" -SLOT="0" -KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux" -IUSE="" -DEPEND=">=x11-libs/openmotif-2.3:0 - x11-libs/libXpm - media-libs/mesa[motif] - media-libs/jpeg - media-libs/tiff - media-libs/libpng - sys-libs/zlib" -# Run-time dependencies, same as DEPEND if RDEPEND isn't defined: -#RDEPEND="" -# Yeah, the gz's aren't in a subdir. -S=${WORKDIR} - -MMDIR="/usr/$(get_libdir)/molmol" - -src_prepare() { - # Patch from http://pjf.net/science/molmol.html, where src.rpm is provided - epatch ${FILESDIR}/pjf_RH9_molmol2k2.diff - - ln -s makedef.lnx ${S}/makedef - - # 1) The Korn shell is only taken by default because the Bourne shell - # on DEC systems cannot handle the script. - # We don't want this needless dependency. - # 2) Fix up MOLMOLHOME, which determines the directory the binary's in. - sed -i \ - -e "s:/bin/ksh:${EPREFIX}/bin/sh:" \ - -e "s:^MOLMOLHOME.*:MOLMOLHOME=${EPREFIX}/${MMDIR}:" \ - ${S}/molmol - # 1) Set CFLAGS. - # 2) Set compiler. - sed -i \ - -e "s:^MCFLAGS.*:MCFLAGS = ${CFLAGS}:" \ - -e "s:^CC.*:CC = $(tc-getCC):" \ - ${S}/makedef -} - -src_compile() { - emake -j1 || die "emake failed" -} - -src_install() { - dobin molmol || die - - exeinto ${MMDIR} - newexe src/main/molmol molmol.lnx || die - insinto ${MMDIR} - doins -r auxil help macros man setup tips || die - - dodoc HISTORY README || die -} diff --git a/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild b/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild index b452ba1cf3fc..033b8fc00d15 100644 --- a/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild +++ b/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild,v 1.3 2010/10/10 21:26:18 ulm Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/molmol-2k_p2-r2.ebuild,v 1.4 2010/11/08 17:14:25 xarthisius Exp $ EAPI="3" @@ -19,7 +19,7 @@ KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux" IUSE="" DEPEND=" media-libs/mesa[motif] - media-libs/jpeg + virtual/jpeg media-libs/tiff media-libs/libpng sys-libs/zlib diff --git a/sci-chemistry/molmol/molmol-2k_p2.ebuild b/sci-chemistry/molmol/molmol-2k_p2.ebuild index d02336b4ac1f..04c810b36ccc 100644 --- a/sci-chemistry/molmol/molmol-2k_p2.ebuild +++ b/sci-chemistry/molmol/molmol-2k_p2.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/molmol-2k_p2.ebuild,v 1.14 2010/10/10 21:26:18 ulm Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molmol/molmol-2k_p2.ebuild,v 1.15 2010/11/08 17:14:25 xarthisius Exp $ EAPI="2" @@ -20,7 +20,7 @@ IUSE="" DEPEND=">=x11-libs/openmotif-2.3:0 x11-libs/libXpm media-libs/mesa[motif] - media-libs/jpeg + virtual/jpeg media-libs/tiff media-libs/libpng sys-libs/zlib" diff --git a/sci-chemistry/molscript/ChangeLog b/sci-chemistry/molscript/ChangeLog index 8440432f5853..1c0aa5f044b9 100644 --- a/sci-chemistry/molscript/ChangeLog +++ b/sci-chemistry/molscript/ChangeLog @@ -1,6 +1,10 @@ # ChangeLog for sci-chemistry/molscript # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molscript/ChangeLog,v 1.11 2010/09/16 17:27:22 scarabeus Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molscript/ChangeLog,v 1.12 2010/11/08 17:16:15 xarthisius Exp $ + + 08 Nov 2010; Kacper Kowalik <xarthisius@gentoo.org> + -molscript-2.1.2.ebuild, molscript-2.1.2-r1.ebuild: + media-libs/jpeg -> virtual/jpeg. Drop old. 16 Sep 2010; Tomáš Chvátal <scarabeus@gentoo.org> molscript-2.1.2.ebuild, molscript-2.1.2-r1.ebuild: diff --git a/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild b/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild index 94301616f13d..f6592f9bd59d 100644 --- a/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild +++ b/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild,v 1.4 2010/09/16 17:27:21 scarabeus Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molscript/molscript-2.1.2-r1.ebuild,v 1.5 2010/11/08 17:16:15 xarthisius Exp $ EAPI="3" @@ -17,7 +17,7 @@ RESTRICT="fetch" IUSE="" DEPEND=" - media-libs/jpeg + virtual/jpeg media-libs/libpng media-libs/gd media-libs/freeglut diff --git a/sci-chemistry/molscript/molscript-2.1.2.ebuild b/sci-chemistry/molscript/molscript-2.1.2.ebuild deleted file mode 100644 index 06b6b578e816..000000000000 --- a/sci-chemistry/molscript/molscript-2.1.2.ebuild +++ /dev/null @@ -1,62 +0,0 @@ -# Copyright 1999-2010 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/molscript/molscript-2.1.2.ebuild,v 1.6 2010/09/16 17:27:21 scarabeus Exp $ - -inherit toolchain-funcs eutils - -DESCRIPTION="Display molecular 3D structures, such as proteins, in both schematic and detailed representations." -HOMEPAGE="http://www.avatar.se/molscript/" -SRC_URI="${P}.tar.gz" -LICENSE="glut molscript" -SLOT="0" -KEYWORDS="~amd64 ~ppc x86" -RESTRICT="fetch" -IUSE="" -DEPEND="media-libs/jpeg - media-libs/libpng - media-libs/gd - media-libs/freeglut - || ( x11-libs/libXmu - x11-libs/libXext - x11-libs/libX11 )" -RDEPEND="${DEPEND}" - -pkg_nofetch() { - elog "Please visit ${HOMEPAGE}" - elog "and get ${A}." - elog "Place it in ${DISTDIR}" -} - -src_unpack() { - unpack ${A} - epatch ${FILESDIR}/fix-makefile-shared.patch - - # Provide glutbitmap.h, because freeglut doesn't have it - cp ${FILESDIR}/glutbitmap.h ${S}/clib/ - - # Stop an incredibly hacky include - sed -i -e 's:<../lib/glut/glutbitmap.h>:"glutbitmap.h":g' \ - ${S}/clib/ogl_bitmap_character.c -} - -src_compile() { - # Prefix of programs it links with - export FREEWAREDIR="/usr" - - ln -s Makefile.complete Makefile - - # Honor CC and CFLAGS from environment; - # unfortunately a bash bug prevents us from doing typeset and - # assignment on the same line. - typeset -a args - args=( CC="$(tc-getCC)" \ - COPT="${CFLAGS}" ) - - emake "${args[@]}" || die "emake failed" -} - -src_install() { - exeinto /usr/bin - doexe molscript molauto - dohtml ${S}/doc/*.html -} diff --git a/sci-chemistry/mosflm/Manifest b/sci-chemistry/mosflm/Manifest index d99d1dbc3895..d19fac9968f5 100644 --- a/sci-chemistry/mosflm/Manifest +++ b/sci-chemistry/mosflm/Manifest @@ -4,13 +4,15 @@ Hash: SHA1 AUX 7.0.6-Makefile.patch 352 RMD160 69fd182574615b90bbeb1b633885006051e81683 SHA1 f2964f48bb4bf89880fe47f0af1bff090c59092e SHA256 d5b62b78ab3b89d36fad10e31cd5e5e8087d5dc4976ad03ef1995bea08e27ac7 AUX 7.0.6-parallel.patch 654 RMD160 f28cdb670c3ecfcc4ec194dd44136182fbf9cf7f SHA1 bf6742b58d6e9ce67e76f38e81aeb64f88fae729 SHA256 c821e031a039502364c4ae151fd64886a6a33153e5c746d55838a99050d18c60 DIST mosflm706.tgz 3468405 RMD160 fb0b7e51ed9845d4d17aa804cb1424e5aa0f24b8 SHA1 f9a771c3991c7ad3125a7e39d5c59b3049784f4f SHA256 5e26a49fd37749a14e7a1d1e867c1c0333db3bbcc01376fb7a516d4a67b1ebb0 -EBUILD mosflm-7.0.6-r2.ebuild 1785 RMD160 7ccadd5942e3ceb23511dcec284754aad22a6d6c SHA1 d4c5863c0cf5698fac531c81a425ec3917b4b207 SHA256 0fee3a7ccef8d1aba32d5d6d3d3d4c8487c1a6de56e1800c70613f2e1429c3fc -MISC ChangeLog 803 RMD160 4899363b271eeb8f74363d9ef885e9af097f062e SHA1 e0da497284caa497e1704ad447da3a87190c47b3 SHA256 b1d63a9b012ffed28ac5d1313d3668a1a573585a0d3d7375be6223cd9fbb7d53 +EBUILD mosflm-7.0.6-r2.ebuild 1788 RMD160 37a9bbe26fc29413ba56db0f0533323f8c9791fb SHA1 4026e63f4ace0e572973cb084a7400d49f1ab200 SHA256 8fcf28724d17b0cacd0eb13fa0c93efe6cdbc31f921821cd478dbecc955d1919 +MISC ChangeLog 924 RMD160 c33279d96fc94d899fee53b21ce3829c3be6301b SHA1 1c9938580169e410847576728974750a05991bdf SHA256 12f6efbc838997d78adb3d98882bd9866bd33dbe380be4e2610185559d751cac MISC metadata.xml 216 RMD160 04a6fc4e2160b439296b52aa97d5b7d83af75508 SHA1 9561c9e6eada6aac9b503407917900529ce703e9 SHA256 24f5c205c2655ef27138c8aa087701626f5b4c666229c9ef7fe814e63ea2e776 -----BEGIN PGP SIGNATURE----- -Version: GnuPG v2.0.15 (GNU/Linux) +Version: GnuPG v2.0.16 (GNU/Linux) -iEYEARECAAYFAkwXisYACgkQgAnW8HDreRZVWQCglWjgZlSyl1+57A30lwSckN9C -qKIAoL/DNzBCDNjDIhEhjLhrR6WqnfyS -=KfXL +iJwEAQECAAYFAkzYMMEACgkQIiMqcbOVdxRtMwP/VCeooNNNNUxsqBkTlYLHtACo +11w6yZCDRJp1BrCW1uCiZaCGg9uA7zcYbfvC4e6w27NcHrRJrxLpMSI9/UV6e1ov +iJHEus31EA4CNAUOd+WQhRYPWge1f/PRrsLyQjvMiFYrO419KX8sWjQqaLi2p8Ho +1AJHK3ymIfcjV0X2xVE= +=oCgL -----END PGP SIGNATURE----- |