casa-mp-base

# -*- coding: utf-8; mode: tcl; tab-width: 4; indent-tabs-mode: nil; c-basic-offset: 4 -*- vim:fenc=utf-8:ft=tcl:et:sw=4:ts=4:sts=4

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PortSystem              1.0

PortGroup               compiler_blacklist_versions 1.0

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name                    arb

epoch                   2

version                 6.0.4

revision                1

categories              science

maintainers             nomaintainer

platforms               darwin

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description             ARB graphical DNA, RNA and amino acid sequence analysis tool

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homepage                http://www.arb-home.de/

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long_description        ARB is an application for genetic sequence analysis that includes tools for editing and aligning \

                        nucleotide and amino acid sequences.  Features include routines for designing fluorescence in situ \

                        hybridization (FISH) probes and PCR and sequencing primers.  Phylogenetic trees can be generated and \

                        sequences can be added to existing trees.  ARB maintains links between the phylogenetic trees and sequences \

                        for database search and query.  The Silva Comprehensive Ribosomal RNA Database (http://www.arb-silva.de/) \

                        maintains up-to-date databases.  An active community of scientists exchanges tips on the ARB Yahoo! discussion group \

                        (http://tech.groups.yahoo.com/group/arb_users/). Citation: Wolfgang Ludwig, et al. (2004) ARB: a software environment \

                        for sequence data. Nucleic Acids Research. 32:1363-1371.

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license                 Restrictive/Distributable

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master_sites            http://download.arb-home.de/release/${name}-${version}/

distname                arb-${version}-source

extract.suffix          .tgz

worksrcdir              arbsrc_14797

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checksums               rmd160  a7e6ba2dff3eceba97d17e076c3efb333930dd72 \

                        sha256  875301f138974694144b11091b0303a22efcfe7c6291c438881da64179820ce0

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# bin/mix

conflicts               elixir

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depends_build           port:makedepend \

                        port:pkgconfig

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depends_lib             port:openmotif \

                        port:lynx \

                        port:gsed \

                        port:sablotron \

                        port:glw \

                        port:glew \

                        port:xfig \

                        port:gv \

                        port:xorg-libXaw \

                        port:gtime \

                        path:lib/pkgconfig/glib-2.0.pc:glib2 \

                        port:coreutils

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patchfiles              patch-ARB-config.makefile.diff \

                        patch-ARB-intro.fig.diff \

                        patch-ARB-arb.diff

platform darwin {

    if {${os.major} < 11} {

        depends_build-append port:coreutils

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        configure.env-append INSTALL=${prefix}/bin/ginstall

    }

}

# https://trac.macports.org/ticket/44368

platform darwin 11 {

    pre-patch {

        # DOS to UNIX line endings so we can patch.

        reinplace "s|\r||g" ${worksrcpath}/GDE/MUSCLE/src/globalsosx.cpp

    }

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    patchfiles-append   patch-ARB-globalsosx.cpp.diff

}

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configure               {

                        if {${build_arch} eq "ppc" || ${build_arch} eq "i386"} {

                            set is64bit 0

                        } else {

                            set is64bit 1

                        }

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                        file copy ${worksrcpath}/config.makefile.template ${worksrcpath}/config.makefile

                        reinplace "s|@@64BIT@@|${is64bit}|g" ${worksrcpath}/config.makefile

                        reinplace "s|@@PREFIX@@|${prefix}|g" ${worksrcpath}/SH/arb_macsetup

}

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build.env-append        PREFIX=${prefix} \

                        ARBHOME=${worksrcpath} \