# $Id$

PortSystem 1.0

name                bali-phy
version             2.1.1
revision            2
description         Bayesian Alignment and Phylogeny estimation
long_description    BAli-Phy can estimate phylogenetic trees from sequence data when the alignment \
                    is uncertain. Instead of conditioning on a single alignment estimate, BAli-Phy \
                    accounts for alignment uncertainty by integrating over all alignments. \
                    BAli-Phy does not rely on a guide tree because the alignment and the tree are \
                    co-estimated. Therefore it can construct phylogeny estimates of widely \
                    divergent sequences without bias toward a guide tree.
categories          science
platforms           darwin
maintainers         nomaintainer
homepage            http://www.biomath.ucla.edu/msuchard/bali-phy/

master_sites        ${homepage}
checksums           sha1 e72073a1c5b05c797668e476bfd8517594f074e6

patchfiles          configure.patch scripts.patch src-tools-draw-tree.patch

depends_lib         port:gsl port:boost path:lib/pkgconfig/cairo.pc:cairo
depends_build       port:pkgconfig

configure.args      --with-system-boost --enable-cairo
configure.env-append BOOST_SUFFIX=-mt

variant no_cairo description {disable drawing routines} {
    depends_lib-delete      path:lib/pkgconfig/cairo.pc:cairo
    configure.args-delete   --enable-cairo
    patchfiles-delete       src-tools-draw-tree.patch
}

variant openmpi description {enable OpenMPI parallelization} {
    depends_lib-append      port:openmpi
    configure.args-append   --with-mpi
}

# The project doesn't even configure with clang.  Based on how long it's
# been broken, I doubt this project is even used much, so it may not be
# worh the effort to fix
#
# conftest.cpp:60:11: error: no type named 'default_name_check' in 'boost::filesystem::path'
# fs::path::default_name_check(fs::portable_posix_name);
# ~~~~~~~~~~^
# conftest.cpp:60:34: error: definition or redeclaration of 'portable_posix_name' not allowed inside a function
# fs::path::default_name_check(fs::portable_posix_name);
#                              ~~~~^
# 2 errors generated.
compiler.blacklist *clang*

platform darwin {
    if {${os.major} >= 13} {
        # TODO: Test Mavericks once the clang build failures are addressed

        depends_lib
        depends_run
        pre-fetch {
            ui_error "$name does not build on Mavericks or later."
            error "unsupported platform"
        }
    }
}

set gcc_versions {4.3 4.4 4.5 4.6 4.7 4.8 4.9}
set default_fortran_variant +gcc48

foreach ver ${gcc_versions} {
    set ver_no_dot [join [split ${ver} "."] ""]

    set variant_line {variant gcc${ver_no_dot} description "build with gfortran from gcc${ver_no_dot}"}

    foreach over ${gcc_versions} {
        if {${ver} == ${over}} {
            continue
        }

        set over_no_dot [join [split ${over} "."] ""]
        append variant_line " conflicts gcc${over_no_dot}"
    }
    append variant_line { {}}

    eval $variant_line

    if {[variant_isset gcc${ver_no_dot}]} {
        if {${default_fortran_variant} != "+gcc${ver_no_dot}"} {
            set default_fortran_variant ""
        }
    }
}

if {${default_fortran_variant} != ""} {
    default_variants-append "${default_fortran_variant}"
}

foreach ver ${gcc_versions} {
    set ver_no_dot [join [split ${ver} "."] ""]

    if {[variant_isset gcc${ver_no_dot}]} {
        depends_lib-append path:lib/libgcc/libgcc_s.1.dylib:libgcc
        depends_build-append port:gcc${ver_no_dot}

        configure.fc  ${prefix}/bin/gfortran-mp-${ver}
        configure.f77 ${prefix}/bin/gfortran-mp-${ver}
        configure.f90 ${prefix}/bin/gfortran-mp-${ver}
    }
}

livecheck.type  regex
livecheck.url   ${master_sites}
livecheck.regex {BAli-Phy (\d+\.\d+\.\d+) released}