Ticket #21155: Portfile-arb.diff

File Portfile-arb.diff, 3.4 KB (added by matt.cottrell@…, 15 years ago)

Portfile diff

  • Portfile

    old new  
    77version                 5.0.0
    88categories              science
    99maintainers             matt.cottrell@me.com   
    10 description             ARB
     10description             ARB graphical DNA, RNA and amino acid sequence analysis tool
    1111
    1212long_description        ARB is an application for genetic sequence analysis that includes tools for editing and aligning \
    1313                        nucleotide and amino acid sequences.  Features include routines for designing fluorescence in situ \
    1414                        hybridization (FISH) probes and PCR and sequencing primers.  Phylogenetic trees can be generated and \
    1515                        sequences can be added to existing trees.  ARB links the phylogenetic trees to the sequence data, which \
    1616                        allows the sequences of selected species to be identified in the sequance alignment and the data base. \
    17                         \
    1817                        The Silva Comprehensive Ribosomal RNA Database (http://www.arb-silva.de/) maintaines up-to-date databases. \
    19                         \
    20                         Citation: Wolfgang Ludwig, et al. (2004) ARB: a software environment for sequence data. Nucleic Acids Research. 32:1363-1371
     18                        An active community of scientists exchanges tips about using ARB on the Yahoo! discussion group \
     19                        (http://tech.groups.yahoo.com/group/arb_users/). Citation: Wolfgang Ludwig, et al. (2004) \
     20                        ARB: a software environment for sequence data. Nucleic Acids Research. 32:1363-1371.
    2121
    2222homepage                http://www.arb-home.de/
    2323platforms               darwin
    … …  
    3434configure.env-append    PATH=${worksrcpath}/bin:$env(PATH)
    3535build.env-append        ${configure.env}
    3636configure               {
    37                         set sed [file exists ${prefix}/bin/sed]
    38                         if {$sed == 0} {system "ln -s ${prefix}/bin/gsed ${prefix}/bin/sed"}
     37                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/MENUS/align.menu
     38                        reinplace "s| sed | gsed |g" ${worksrcpath}/util/arb_check_build_env.pl
     39                        reinplace "s| sed | gsed |g" ${worksrcpath}/arb_install.sh
     40                        reinplace "s| sed | gsed |g" ${worksrcpath}/WINDOW/AW_status.cxx
     41                        reinplace "s| sed | gsed |g" ${worksrcpath}/SH/example_batch_probe_match.sh
     42                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/GDEmenus
     43                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/genhelp.sh
     44                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/genhelptree.sh
     45                        reinplace "s| sed | gsed |g" ${worksrcpath}/SOURCE_TOOLS/make_java_dependencies.sh
     46                        reinplace "s| sed | gsed |g" ${worksrcpath}/HELP_SOURCE/Makefile
     47                        reinplace "s| sed | gsed |g" ${worksrcpath}/AISC_COM/AISC/Makefile
     48                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/Makefile
     49                        reinplace "s| sed | gsed |g" ${worksrcpath}/HELP_SOURCE/genhelp/Makefile
     50                        reinplace "s| sed | gsed |g" ${worksrcpath}/GDEHELP/Makefile.helpfiles
    3951                        file copy ${worksrcpath}/config.makefile.template ${worksrcpath}/config.makefile
    4052                        }
    4153