sci-physics/mbdyn: new package

Package-Manager: Portage-3.0.26, Repoman-3.0.3
Signed-off-by: Alessandro Barbieri <lssndrbarbieri@gmail.com>

sci-physics/mbdyn/Manifest

@@ -0,0 +1 @@
+DIST mbdyn-ae57618c4e7b030b59707b8c156a6e2a94a6efd0.tar.bz2 3949822 BLAKE2B 26d27d16173f8f615973c51f7877c87f2e4aef414b9253afacbf6bcc37a5e4b995f4b9de044ed557a9a46d49ed2012e30d253cc6b5f0a1d47cd2cb3d95ca9c77 SHA512 01337f5653300847a2ccf7c332109d1052549d7ba189319630029a9dd8e7a08e06c12b1071d3eea05fafecb393793561b656ad8744d0a3754850a100e8029190

sci-physics/mbdyn/files/mbdyn-octave-no-global-install.patch

@@ -0,0 +1,11 @@
+--- a/utils/Makefile.am	2021-09-05 14:28:23.674273509 +0200
++++ b/utils/Makefile.am	2021-09-05 14:28:56.501524237 +0200
+@@ -336,7 +336,7 @@
+ 	@printf "Octave package file \"%s\" created\n" $(PKG_FILE)
+ 
+ install-exec-local-oct: $(PKG_FILE)
+-	@$(OCTAVE_CLI) -qfHW --eval "pkg install -global $<"
++	@$(OCTAVE_CLI) -qfHW --eval "pkg install -local $<"
+ 	@printf "package \"%s\" installed\n" $(PKG_NAME)
+ else
+ install-exec-local-oct:

sci-physics/mbdyn/files/mbdyn-respect-libtool.patch

@@ -0,0 +1,14 @@
+--- a/configure.ac
++++ b/configure.ac
+@@ -1653,9 +1653,9 @@
+ 		AC_DEFINE(HAVE_LTDL_H,1,[define if you have <ltdl.h>])
+ 		AC_CHECK_LIB(ltdl, lt_dlinit,[have_lt_dlinit=yes],[have_lt_dlinit=no])
+ 		if test $have_lt_dlinit = "yes" ; then
+-			eval `libtool --tag=CC --config|grep '^wl='`
++			eval `$LIBTOOL --tag=CC --config|grep '^wl='`
+ 			LIBS="$LIBS -lltdl"
+-			EXPORT_DYNAMIC_FLAG_SPEC=`(./libtool --config; echo eval echo \\$export_dynamic_flag_spec) | sh`
++			EXPORT_DYNAMIC_FLAG_SPEC=`($LIBTOOL --config; echo eval echo \\$export_dynamic_flag_spec) | sh`
+ 			have_runtime_loading=yes
+ 			MODULE_LOADPATH=$libexecdir
+ 		fi

sci-physics/mbdyn/mbdyn-1.7.3_p20210925.ebuild

@@ -0,0 +1,301 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+COMMIT="ae57618c4e7b030b59707b8c156a6e2a94a6efd0"
+MYP="${PN}-${COMMIT}"
+PYTHON_COMPAT=( python3_{8..10} )
+
+inherit autotools fortran-2 pam python-single-r1
+
+DESCRIPTION="A general purpose Multibody Dynamics analysis software"
+HOMEPAGE="https://www.mbdyn.org"
+SRC_URI="https://public.gitlab.polimi.it/DAER/mbdyn/-/archive/${COMMIT}/${MYP}.tar.bz2"
+S="${WORKDIR}/${MYP}"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64"
+#	mbdyn-module-FMU # needs fmi-library
+#	mbdyn-module-aerodyn # needs aerodyn
+#	mbdyn-module-cudatest # needs cuda
+IUSE_MBDYN_MODULE="
+	mbdyn-module-asynchronous_machine
+	mbdyn-module-autodiff_test
+	mbdyn-module-ballbearing_contact
+	mbdyn-module-bullet
+	mbdyn-module-charm
+	mbdyn-module-constlaw-f90
+	mbdyn-module-constlaw-f95
+	mbdyn-module-constlaw
+	mbdyn-module-cont-contact
+	mbdyn-module-controller
+	mbdyn-module-convtest
+	mbdyn-module-cyclocopter
+	mbdyn-module-damper-gandhi
+	mbdyn-module-damper-graall
+	mbdyn-module-damper-hydraulic
+	mbdyn-module-damper
+	mbdyn-module-diff
+	mbdyn-module-dot
+	mbdyn-module-drive-test
+	mbdyn-module-drive
+	mbdyn-module-dummy
+	mbdyn-module-eu2phi
+	mbdyn-module-fab-electric
+	mbdyn-module-fab-motion
+	mbdyn-module-fab-sbearings
+	mbdyn-module-fabricate
+	mbdyn-module-flightgear
+	mbdyn-module-friction
+	mbdyn-module-friction3
+	mbdyn-module-hfelem
+	mbdyn-module-hid
+	mbdyn-module-hunt-crossley
+	mbdyn-module-hydrodynamic_plain_bearing
+	mbdyn-module-hydrodynamic_plain_bearing2
+	mbdyn-module-imu
+	mbdyn-module-indvel
+	mbdyn-module-inline_friction
+	mbdyn-module-inplane_friction
+	mbdyn-module-journal_bearing
+	mbdyn-module-leapmotion
+	mbdyn-module-loadinc
+	mbdyn-module-marble
+	mbdyn-module-md
+	mbdyn-module-mds
+	mbdyn-module-minmaxdrive
+	mbdyn-module-multi_step_drive
+	mbdyn-module-muscles
+	mbdyn-module-namespace
+	mbdyn-module-nodedistdrive
+	mbdyn-module-nonsmooth-node
+	mbdyn-module-ns
+	mbdyn-module-octave
+	mbdyn-module-randdrive
+	mbdyn-module-rollercoaster
+	mbdyn-module-rotor-loose-coupling
+	mbdyn-module-scalarfunc
+	mbdyn-module-switch_drive
+	mbdyn-module-tclpgin
+	mbdyn-module-template
+	mbdyn-module-template2
+	mbdyn-module-triangular_contact
+	mbdyn-module-udunits
+	mbdyn-module-uni_in_plane
+	mbdyn-module-wheel2
+	mbdyn-module-wheel4
+"
+IUSE="${IUSE_MBDYN_MODULE//_/-} ann arpack autodiff blender boost bullet chaco crypt
+debug eig ginac jdqz +mbc metis mpi multithread-naive netcdf octave openblas
+pam pastix pmpi python qrupdate rt sasl schur sparse superlu taucs tests threads
+udunits +y12"
+
+#	dev-libs/blitz
+RDEPEND="
+	dev-libs/libltdl
+	virtual/blas
+	virtual/lapack
+
+	ann? ( sci-libs/ann )
+	arpack? ( sci-libs/arpack )
+	blender? ( media-gfx/blender:= )
+	boost? ( dev-libs/boost )
+	bullet? ( sci-physics/bullet )
+	chaco? ( sci-mathematics/chaco )
+	crypt? ( virtual/libcrypt )
+	ginac? ( sci-mathematics/ginac )
+	jdqz? ( sci-libs/jdqz )
+	mbdyn-module-damper? ( sci-libs/gsl )
+	mpi? ( virtual/mpi[cxx] )
+	metis? ( sci-libs/metis )
+	netcdf? ( sci-libs/netcdf-cxx:* )
+	octave? ( sci-mathematics/octave )
+	openblas? ( sci-libs/openblas )
+	pam? ( sys-libs/pam )
+	pastix? ( sci-libs/pastix )
+	python? (
+		${PYTHON_DEPS}
+		$(python_gen_cond_dep 'dev-python/numpy[${PYTHON_USEDEP}]')
+	)
+	qrupdate? ( sci-libs/qrupdate )
+	sasl? ( dev-libs/cyrus-sasl )
+	sparse? (
+		sci-libs/klu
+		sci-libs/umfpack
+	)
+	superlu? ( sci-libs/superlu_mt )
+	taucs? ( sci-libs/taucs )
+	threads? ( dev-libs/libatomic_ops )
+	udunits? ( sci-libs/udunits )
+"
+#	rtai? ( sys-libs/rtai )
+DEPEND="
+	${RDEPEND}
+	blender? ( sys-apps/pkgcore )
+"
+BDEPEND="python? ( dev-lang/swig )"
+
+PATCHES=(
+	"${FILESDIR}/${PN}-octave-no-global-install.patch"
+)
+#	"${FILESDIR}/${PN}-respect-libtool.patch"
+REQUIRED_USE="
+	mbdyn-module-bullet? ( bullet )
+	mbdyn-module-octave? ( octave )
+	mbdyn-module-udunits? ( udunits )
+	mbdyn-module-wheel4? ( ginac )
+	multithread-naive? ( threads )
+	pmpi? ( mpi )
+	python? ( ${PYTHON_REQUIRED_USE} )
+	schur? (
+		|| ( chaco metis )
+		mpi
+	)
+"
+#	?? ( rt rtai )
+
+pkg_setup() {
+	fortran-2_pkg_setup
+}
+
+src_prepare() {
+	default
+	eautoreconf
+	#from bootstrap.sh
+	if test -d contrib ; then
+		for i in `find contrib -name 'bootstrap.sh'` ; do
+			dir=`echo "${i}" | sed "s/\(.*\)\/bootstrap\.sh/\1/"`
+			pushd "${dir}" || die
+			eautoreconf
+			popd || die
+		done
+	fi
+}
+
+src_configure() {
+	python_setup
+#	append-cxxflags "-I/usr/include/openmpi/ompi/mpi/cxx/"
+	local myconf=(
+		--disable-static
+		--disable-Werror
+		--enable-runtime-loading
+		--with-lapack
+		--without-charm
+		--without-g2c
+		--without-goto
+		--without-harwell
+		--without-pardiso
+		--without-rtai
+		--without-static-modules
+		--without-strumpack
+		--without-wsmp
+
+		$(use_enable autodiff)
+		$(use_enable crypt)
+		$(use_enable debug)
+		$(use_enable eig)
+		$(use_enable mbc)
+		$(use_enable multithread-naive)
+		$(use_enable netcdf)
+		$(use_enable octave)
+		$(use_enable octave octave-utils)
+		$(use_enable python)
+		$(use_enable schur)
+		$(use_enable tests install_test_progs)
+		$(use_enable threads multithread)
+
+		$(use_with ann)
+		$(use_with arpack)
+		$(use_with boost)
+		$(use_with bullet)
+		$(use_with ginac)
+		$(use_with jdqz)
+		$(use_with metis)
+		$(use_with openblas)
+		$(use_with pam)
+		$(use_with pastix)
+		$(use_with qrupdate)
+		$(use_with rt)
+		$(use_with sasl sasl2)
+		$(use_with sparse klu)
+		$(use_with sparse suitesparseqr)
+		$(use_with sparse umfpack)
+		$(use_with superlu)
+		$(use_with taucs)
+		$(use_with threads)
+		$(use_with y12)
+	)
+
+	if ( use autodiff && use sparse ); then
+		myconf+=( "--enable-sparse-autodiff" )
+	else
+		myconf+=( "--disable-sparse-autodiff" )
+	fi
+	if ( use debug && use mpi ); then
+		myconf+=( "--enable-debug-mpi" )
+	else
+		myconf+=( "--disable-debug-mpi" )
+	fi
+	if use mpi; then
+		if use pmpi; then
+			myconf+=( "--with-mpi=pmpi" )
+		else
+			myconf+=( "--with-mpi" )
+		fi
+	else
+		myconf+=( "--without-mpi" )
+	fi
+
+	declare -A mbdynmodules
+	for m in ${IUSE_MBDYN_MODULE} ; do
+		mbdynmodules[${m//_/-}]="${m/mbdyn-module-/}"
+	done
+
+	local usemodules=""
+	for u in ${IUSE_MBDYN_MODULE//_/-} ; do
+		use ${u} && usemodules+=" ${mbdynmodules[${u}]}"
+	done
+
+	# remove leading whitespace characters
+	usemodules="${usemodules#"${usemodules%%[![:space:]]*}"}"
+
+	myconf+=( "--with-module=\"${usemodules}\"" )
+
+	econf "${myconf[@]}"
+}
+
+src_install() {
+	mkdir -p "${HOME}/octave" || die
+#	octave --exec "pkg prefix ${T}" || die
+	emake DESTDIR="${D}" install
+
+	if use blender; then
+		local blenderslots="$(pquery -I media-gfx/blender --one-attr slot)"
+		local blenderscriptdir
+		for i in $blenderslots ; do
+			blenderscriptdir="/usr/share/blender/${i}/scripts/"
+			insinto "${blenderscriptdir}"
+			doins -r contrib/blenderandmbdyn
+		done
+	fi
+
+	if use python; then
+		local site="${D}/$(python_get_sitedir)"
+		mkdir -p "${site}" || die
+		mv "${D}/usr/libexec/mbpy" "${site}" || die
+	fi
+
+	use pam && dopamd etc/pam.d/mbdyn
+
+	mkdir -p "${D}/usr/share/octave/mbdyn" || die
+	mv "${D}"/usr/share/octave/*.m "${D}/usr/share/octave/mbdyn" || die
+
+	if use octave; then
+		insinto "/usr/share/octave/mbdyn"
+		doins -r contrib/MLS/.
+	fi
+
+	find "${D}" -name '*.la' -delete || die
+}

sci-physics/mbdyn/metadata.xml

@@ -0,0 +1,113 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+	<maintainer type="person">
+		<email>lssndrbarbieri@gmail.com</email>
+		<name>Alessandro Barbieri</name>
+	</maintainer>
+	<upstream>
+		<bugs-to>https://public.gitlab.polimi.it/DAER/mbdyn/-/issues</bugs-to>
+	</upstream>
+	<use>
+		<flag name="ann">With ANN<pkg>sci-libs/ann</pkg> support</flag>
+		<flag name="arpack">With <pkg>sci-libs/arpack</pkg> math library</flag>
+		<flag name="autodiff">Enable automatic differentiation in order to compute the Jacobian matrix</flag>
+		<flag name="blender">Install <pkg>media-gfx/blender</pkg> plugins</flag>
+		<flag name="boost">With <pkg>dev-libs/boost</pkg> support</flag>
+		<flag name="bullet">With <pkg>sci-physics/bullet</pkg> support</flag>
+		<flag name="chaco">With <pkg>sci-mathematics/chaco</pkg> model partitioning support</flag>
+		<flag name="crypt">Enable crypt</flag>
+		<flag name="eig">Enable direct eigensolution</flag>
+		<flag name="ginac">With <pkg>sci-mathematics/ginac</pkg> support</flag>
+		<flag name="jdqz">With <pkg>sci-libs/jdqz</pkg> math library</flag>
+		<flag name="mbc">Enable MBC - multibody communication library</flag>
+		<!--<flag name="mbdyn-module-FMU">This is a module to import and cosimulation of FMUs, developed using FMI standards, for MBDyn</flag>-->
+		<!--<flag name="mbdyn-module-aerodyn">This is MBDyn's module for the wind-turbine aerodynamics library AeroDyn</flag>-->
+		<flag name="mbdyn-module-asynchronous-machine">The purpose of this code is the simulation of an asynchronous electrical machine as a part of a multibody model</flag>
+		<flag name="mbdyn-module-autodiff-test">This element implements a inline joint with friction</flag>
+		<flag name="mbdyn-module-ballbearing-contact">ball bearing contact</flag>
+		<flag name="mbdyn-module-bullet"><pkg>sci-physics/bullet</pkg> module</flag>
+		<flag name="mbdyn-module-charm">This module implements a user-defined induced velocity element based on CDI's CHARM free wake</flag>
+		<flag name="mbdyn-module-constlaw-f90">This directory contains an example of run-time loadable constitutive law written in Fortran 90</flag>
+		<flag name="mbdyn-module-constlaw-f95">This directory contains an example of run-time loadable constitutive law written in Fortran 95</flag>
+		<flag name="mbdyn-module-constlaw">This directory contains an example of run-time loadable constitutive law</flag>
+		<flag name="mbdyn-module-cont-contact">continuous contact</flag>
+		<flag name="mbdyn-module-controller">controller module</flag>
+		<flag name="mbdyn-module-convtest">convergence test module</flag>
+		<!--<flag name="mbdyn-module-cudatest"></flag>-->
+		<flag name="mbdyn-module-cyclocopter">This module implements induced velocity models for cycloidal rotors</flag>
+		<flag name="mbdyn-module-damper-gandhi">Gandhi, F. and Chopra, I., "An analytical model for a nonlinear elastomeric lag damper and its effect on aeromechanical stability in hover" Journal of the American Helicopter Society, Vol. 39, 1994, pp. 59-69.</flag>
+		<flag name="mbdyn-module-damper-graall">GRAALL Damper Constitutive Law</flag>
+		<flag name="mbdyn-module-damper-hydraulic">Hydraulic Damper Constitutive Law</flag>
+		<flag name="mbdyn-module-damper">It implements a 1D constitutive law based on a generic nonlinear rheological formula, whose coefficients are computed by means of parameter identification from experimental measurements</flag>
+		<flag name="mbdyn-module-diff">diff drive module</flag>
+		<flag name="mbdyn-module-dot">dot language module</flag>
+		<flag name="mbdyn-module-drive-test">drive test module</flag>
+		<flag name="mbdyn-module-drive">example of run-time loadable drive</flag>
+		<flag name="mbdyn-module-dummy">Dummy module --- does nothing, used to test the infrastructure</flag>
+		<flag name="mbdyn-module-eu2phi">converts three Euler angles into the corresponding Euler vector</flag>
+		<flag name="mbdyn-module-fab-electric">Library of electric components for "digital fabrication" machines</flag>
+		<flag name="mbdyn-module-fab-motion">Library of motion transmission components for "digital fabrication" machines</flag>
+		<flag name="mbdyn-module-fab-sbearings">Library of bearings for "digital fabrication" machines</flag>
+		<flag name="mbdyn-module-fabricate">Library of components of "digital fabrication" machines</flag>
+		<flag name="mbdyn-module-flightgear">flightgear module</flag>
+		<flag name="mbdyn-module-friction">eXperimental friction model</flag>
+		<flag name="mbdyn-module-friction3">eXperimental friction model (2nd try)</flag>
+		<flag name="mbdyn-module-hfelem">Harmonic Excitation Element</flag>
+		<flag name="mbdyn-module-hid">This module registers a file driver that captures the input from HID USB devices (only tested with some joysticks)</flag>
+		<flag name="mbdyn-module-hunt-crossley">HuntCrossley constitutive law</flag>
+		<flag name="mbdyn-module-hydrodynamic-plain-bearing">This module implements a hydrodynamic plain bearing according to Hans Juergen Butenschoen 1976 Das hydrodynamische zylindrische Gleitlager endlicher Breite unter instationaerer Belastung</flag>
+		<flag name="mbdyn-module-hydrodynamic-plain-bearing2">module hydrodynamic plain bearing2</flag>
+		<flag name="mbdyn-module-imu">implements two uses of a IMU</flag>
+		<flag name="mbdyn-module-indvel">This module implements a dummy induced velocity model</flag>
+		<flag name="mbdyn-module-inline-friction">This element implements a inline joint with friction</flag>
+		<flag name="mbdyn-module-inplane-friction">In plane friction</flag>
+		<flag name="mbdyn-module-journal-bearing">This element implements a journal bearing with lugre friction</flag>
+		<flag name="mbdyn-module-leapmotion">leapmotion hand</flag>
+		<flag name="mbdyn-module-loadinc">load increment normalization</flag>
+		<flag name="mbdyn-module-marble">marble model for icecube robot</flag>
+		<flag name="mbdyn-module-md">MD module</flag>
+		<flag name="mbdyn-module-mds">mds module</flag>
+		<flag name="mbdyn-module-minmaxdrive">minmaxdrive module</flag>
+		<flag name="mbdyn-module-multi-step-drive">multi step drive module</flag>
+		<flag name="mbdyn-module-muscles">muscle module</flag>
+		<flag name="mbdyn-module-namespace">namespace module</flag>
+		<flag name="mbdyn-module-nodedistdrive">node dist drive module</flag>
+		<flag name="mbdyn-module-nonsmooth-node">Defines a unilateral constraint in form of a contact between a node and one or more planes, optionally with friction</flag>
+		<flag name="mbdyn-module-ns">ns1 module</flag>
+		<flag name="mbdyn-module-octave">octave module</flag>
+		<flag name="mbdyn-module-randdrive">rand drive module</flag>
+		<flag name="mbdyn-module-rollercoaster">rollercoaster module</flag>
+		<flag name="mbdyn-module-rotor-loose-coupling">rotor loose coupling</flag>
+		<flag name="mbdyn-module-scalarfunc">example of run-time loadable scalar function</flag>
+		<flag name="mbdyn-module-switch-drive">switch drive module</flag>
+		<flag name="mbdyn-module-tclpgin">tcl plugin</flag>
+		<flag name="mbdyn-module-template">template module; use it as guideline for user-defined elements</flag>
+		<flag name="mbdyn-module-template2">template module; use it as guideline for user-defined elements</flag>
+		<flag name="mbdyn-module-triangular-contact">This element implements unilateral contact with friction between an arbitrary rigid body, represented by a triangular mesh, and a set of nodes with arbitrary offsets</flag>
+		<flag name="mbdyn-module-udunits">This module adds a namespace "units" with the only function "convert", which is thus invoked as "units::convert"</flag>
+		<flag name="mbdyn-module-uni-in-plane">This element implements the unilateral contact between a point and a plane</flag>
+		<flag name="mbdyn-module-wheel2">Connects 2 structural nodes: Wheel Ground</flag>
+		<flag name="mbdyn-module-wheel4">L. Gagnon, M. J. Richard, P. Masarati, M. Morandini, and G. Dore. Multibody simulation of tires operating on an uneven road. In Multibody Dynamics 2011, 4-7 July 2011</flag>
+		<flag name="metis">With <pkg>sci-libs/metis</pkg> model partitioning support</flag>
+		<flag name="mpi">With MPI support</flag>
+		<flag name="multithread-naive">Enable multithread naive solver</flag>
+		<flag name="netcdf">Enable NetCDF based binary output</flag>
+		<flag name="octave">Enable <pkg>sci-mathematics/octave</pkg> support</flag>
+		<flag name="openblas">With <pkg>sci-libs/openblas</pkg> implementation</flag>
+		<flag name="pam">With <pkg>sys-libs/pam</pkg> support</flag>
+		<flag name="pastix">With <pkg>sci-libs/pastix</pkg> math library</flag>
+		<flag name="pmpi">With pmpi for MPI profiling</flag>
+		<flag name="qrupdate">With <pkg>sci-libs/qrupdate</pkg> library</flag>
+		<flag name="rt">With POSIX realtime support</flag>
+		<flag name="sasl">With <pkg>dev-libs/cyrus-sasl</pkg> support</flag>
+		<flag name="schur">Enable Schur parallel solver</flag>
+		<flag name="sparse">Enable sparse solvers</flag>
+		<flag name="superlu">With <pkg>sci-libs/superlu</pkg> math library - eXperimental</flag>
+		<flag name="taucs">With <pkg>sci-libs/taucs</pkg> math library - eXperimental</flag>
+		<flag name="tests">Enable installation of some test programs which are otherwise not installed</flag>
+		<flag name="threads">With threads</flag>
+		<flag name="y12">With Y12 sparse math library</flag>
+		<flag name="udunits">With <pkg>sci-libs/udunits</pkg></flag>
+	</use>
+</pkgmetadata>