commit: de2cb421545b839fe097d6c04089989d12ed4b23
Author: Anna (cybertailor) Vyalkova <cyber+gentoo <AT> sysrq <DOT> in>
AuthorDate: Thu Aug 22 00:25:42 2024 +0000
Commit: Anna Vyalkova <cyber+gentoo <AT> sysrq <DOT> in>
CommitDate: Thu Aug 22 00:27:10 2024 +0000
URL: https://gitweb.gentoo.org/repo/proj/guru.git/commit/?id=de2cb421
sci-biology/cmdock: fix boinc deps
Add "--wrapper" to "boinc-app_add_deps" call.
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo <AT> sysrq.in>
sci-biology/cmdock/cmdock-0.2.0-r3.ebuild | 118 ++++++++++++++++++++++++++++++
1 file changed, 118 insertions(+)
diff --git a/sci-biology/cmdock/cmdock-0.2.0-r3.ebuild
b/sci-biology/cmdock/cmdock-0.2.0-r3.ebuild
new file mode 100644
index 000000000..f367dbdc6
--- /dev/null
+++ b/sci-biology/cmdock/cmdock-0.2.0-r3.ebuild
@@ -0,0 +1,118 @@
+# Copyright 2021-2024 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{10..12} )
+BOINC_APP_OPTIONAL=1
+inherit boinc-app flag-o-matic meson optfeature python-any-r1
+
+DESCRIPTION="Program for docking ligands to proteins and nucleic acids"
+HOMEPAGE="https://gitlab.com/Jukic/cmdock";
+SRC_URI="https://gitlab.com/Jukic/${PN}/-/archive/v${PV}/${PN}-v${PV}.tar.bz2";
+S="${WORKDIR}/${PN}-v${PV}"
+
+LICENSE="LGPL-3 ZLIB"
+SLOT="0/${PV}"
+KEYWORDS="~amd64"
+IUSE="apidoc cpu_flags_x86_sse2 doc test"
+
+# Flaky tests
+RESTRICT="test"
+
+DEPEND="
+ dev-cpp/eigen:3
+ >=dev-cpp/indicators-2.3-r1
+ >=dev-cpp/pcg-cpp-0.98.1_p20210406-r1
+ >=dev-libs/cxxopts-3
+"
+BDEPEND="
+ apidoc? (
+ app-text/doxygen
+ dev-texlive/texlive-fontutils
+ )
+ doc? (
+ $(python_gen_any_dep '
+ dev-python/insipid-sphinx-theme[${PYTHON_USEDEP}]
+ dev-python/sphinx[${PYTHON_USEDEP}]
+ ')
+ )
+ test? ( ${PYTHON_DEPS} )
+"
+
+PATCHES=(
+ "${FILESDIR}"/${P}-include.patch
+ "${FILESDIR}"/${P}-cxxopts.patch
+)
+
+DOCS=( README.md changelog.md )
+
+BOINC_MASTER_URL="https://www.sidock.si/sidock/";
+BOINC_INVITATION_CODE="Crunch_4Science"
+BOINC_APP_HELPTEXT=\
+"The easiest way to do something useful with this application
+is to attach it to SiDock@home BOINC project."
+
+INSTALL_PREFIX="${EPREFIX}/opt/${P}"
+
+boinc-app_add_deps --wrapper
+
+python_check_deps() {
+ use doc || return 0
+
+ python_has_version "dev-python/sphinx[${PYTHON_USEDEP}]" &&
+ python_has_version "dev-python/insipid-sphinx-theme[${PYTHON_USEDEP}]"
+}
+
+foreach_wrapper_job() {
+ sed -e "s:@PREFIX@:${INSTALL_PREFIX}:g" -i "${1}" || die
+}
+
+src_prepare() {
+ default
+ python_fix_shebang "${S}"/bin
+}
+
+src_configure() {
+ # very weird directory layout
+ local emesonargs=(
+ --prefix="${INSTALL_PREFIX:?}"
+ $(meson_use apidoc)
+ $(meson_use doc)
+ $(meson_use test tests)
+ -Ddocdir="${EPREFIX}"/usr/share/doc/${PF}
+ )
+ meson_src_configure
+
+ use cpu_flags_x86_sse2 || append-cppflags "-DBUNDLE_NO_SSE"
+}
+
+src_install() {
+ meson_src_install
+ python_optimize "${D}${INSTALL_PREFIX:?}"/bin
+
+ if use boinc; then
+ boinc_install_appinfo "${FILESDIR}"/app_info_0.2.0-r1.xml
+ boinc_install_wrapper cmdock-l_wrapper \
+ "${FILESDIR}"/cmdock-l_job_0.2.0-r1.xml cmdock-l_job.xml
+
+ # install cmdock executable
+ exeinto "$(get_project_root)"
+ exeopts --owner root --group boinc
+ doexe "${D}${INSTALL_PREFIX:?}"/bin/cmdock
+
+ # install a blank file
+ insinto "$(get_project_root)"
+ insopts -m 0644 --owner root --group boinc
+ newins - docking_out
+ fi
+}
+
+pkg_postinst() {
+ optfeature "sdtether.py and sdrmsd.py scripts" "dev-python/numpy
sci-chemistry/openbabel[python]"
+ use boinc && boinc-app_pkg_postinst
+}
+
+pkg_postrm() {
+ use boinc && boinc-app_pkg_postrm
+}
