Created attachment 292185 [details] metadata for admb package Citing http://admb-project.org: "The ADMB(Automatic Differentiation Model Builder) software suite is an environment for non-linear statistical modeling enabling rapid model development, numerical stability, fast and efficient computation, and high accuracy parameter estimates. ADModel Builder is a high level language built around the AUTODIF Library, a C++ language extension which transparently implements reverse mode automatic differentiation. A closely related software package, ADMB-RE, implements random effects in non-linear models" There is also an R package R2admb hosted at sourceforge, here: https://r-forge.r-project.org/projects/r2admb/
# Copyright 2011 Hugo Mildenberger <Hugo.Mildenberger@web.de> # Distributed under the terms of the GNU General Public License v2 EAPI=4 DESCRIPTION="ADMB (Automatic Differentiation Model Builder) software suite" LICENSE="BSD-4" HOMEPAGE="http://admb-project.org" SRC_URI="http://admb-project.googlecode.com/files/${P}.zip" SLOT="0" IUSE="doc examples" KEYWORDS="~amd64 ~x86" DEPENDS="sys-devel/flex" inherit eutils src_prepare() { # Force regeneration of tpl2rem.c from tpl2rem.lex rm -f "${S}/src/df1b2-separable/tpl2rem.c" # Force regeneration of tpl2cpp.c from tpl2cpp.lex rm -f "${S}/src/src/nh99/tpl2cpp.c" epatch "${FILESDIR}/${P}-enable64-respect-cxxflags-configure-home.patch" epatch "${FILESDIR}/${P}-respect-cxxflags.patch" epatch "${FILESDIR}/${P}-fix-cp-scripts-g++.patch" epatch "${FILESDIR}/${P}-tpl2rem-use-configured-home.patch" epatch "${FILESDIR}/${P}-optg32-rh8-laplace-mak-add-tpl2rem-dep.patch" epatch "${FILESDIR}/${P}-nh99-optg32-rh8-laplace-mak-add-tpl2cpp-dep.patch" epatch "${FILESDIR}/${P}-fix-parallel-make.patch" epatch "${FILESDIR}/${P}-tpl2cpp-fix-segv-on-temp-open-fail.patch" # Reduce the enormous amount of warnings to increase awareness to # possibly important ones. This patch isn't strictly necessary. epatch "${FILESDIR}/${P}-fix-g++-warnings.patch" # Amended copies of original files: get rid of the need to set ADMB_HOME EPATCH_OPTS="-p2" epatch "${FILESDIR}/${P}-admb-show-configured-home.patch" epatch "${FILESDIR}/${P}-adlink-use-configured-home.patch" epatch "${FILESDIR}/${P}-adcomp-use-configured-home.patch" cd "${S}/scripts/configure" && make # make runs autoconf here } src_test() { # Try to emulate the verify target until there is a real test suite cp -a "${S}/examples/" "${T}/examples.work" || die chmod a+x "${S}/build/unix/unix/bin/admb" || die chmod a+x "${S}/build/unix/unix/bin/adlink" || die chmod a+x "${S}/build/unix/unix/bin/adcomp" || die # Use just the programs and scripts just build # CXXFLAGS and LDFLAGS confuse tpl2cpp and tpl2rem ADMB_HOME="${S}/build/unix/unix" \ PATH="${S}/build/unix/unix/bin:${PATH}" \ make CXXFLAGS="" LDFLAGS="" -C "${T}/examples.work"\ -f "${S}/scripts/g++/Makefile" all } src_install() { # ADMB Makefiles should be rewritten to respect configured directories dobin build/unix/unix/bin/admb\ build/unix/unix/bin/adcomp\ build/unix/unix/bin/adlink\ build/unix/unix/bin/tpl2cpp\ build/unix/unix/bin/tpl2rem # As long as ADM_HOME is there, includes are expected in datadir insinto /usr/share/${PN}/include doins build/unix/unix/include/* # As long as ADM_HOME is there, libraries are expected in datadir insinto /usr/share/${PN}/lib doins build/unix/unix/lib/* # Actually, these are sed templates insinto /usr/share/${PN}/bin for template in sedcmd sedcmd2 sedcmd3 seddf1b2 seddf1b3\ seddf1b4 sedf1b2a sedf1b2c sedf1b2d sedflex; do doins build/unix/unix/bin/${template}; done # Examples could reside in doc. But then the contents of the many # directories would get compressed recursively, which would be very # discouraging use examples && insinto /usr/share/${PN}\ && doins -r build/unix/unix/examples # Todo: there is so much lovingly written LaTeX documentation. use doc && dodoc build/unix/unix/LICENSE\ && dodoc build/unix/unix/README.txt\ && dodoc docs/manuals/admb-re/ADMBprim.pdf }
Created attachment 292187 [details] admb 10.1 patch 1 .. 12 tar archive, containing admb-10.1-adcomp-use-configured-home.patch admb-10.1-adlink-use-configured-home.patch admb-10.1-admb-show-configured-home.patch admb-10.1-enable64-respect-cxxflags-configure-home.patch admb-10.1-fix-cp-scripts-g++.patch admb-10.1-fix-g++-warnings.patch admb-10.1-fix-parallel-make.patch admb-10.1-nh99-optg32-rh8-laplace-mak-add-tpl2cpp-dep.patch admb-10.1-optg32-rh8-laplace-mak-add-tpl2rem-dep.patch admb-10.1-respect-cxxflags.patch admb-10.1-tpl2cpp-fix-segv-on-temp-open-fail.patch admb-10.1-tpl2rem-use-configured-home.patch
