Ticket #42120: cufflinks-2.1.1.diff

Portfile

@@ +1 @@
+# -*- 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
 # $Id$
 
 PortSystem          1.0
 
 name                cufflinks
-version             0.9.3
+version             2.1.1
 categories          science biology
 platforms           darwin
 maintainers         gmail.com:haroldpimentel
-license             Boost
+license             Boost-1.0
 
 description         Cufflinks assembles transcripts, estimates their abundances,\
                     and tests for differential expression and regulation in RNA-Seq samples.
@@ -20 +21 @@
                     transcripts based on how many reads support each one.
 
 homepage            http://cufflinks.cbcb.umd.edu/
-master_sites        ${homepage}downloads
+master_sites        ${homepage}downloads/
 
-checksums           sha1        f6c28d8f98569f8d1eae72ff050ce7d2d06bfba4\
-                    rmd160      b9b3b8ec322e79e0e6f2b4b2f23de27b58ec44f4
+checksums           rmd160  4a612f98be24d7d31520be0501f1f4bcd3e76e0f\
+                    sha256  9cbaf1d8f53aa53e6d6beec12420125ee487f9de520417a6b1add3306d01a81e
 
 depends_lib         port:zlib \
                     port:samtools \
@@ -32 +33 @@
 # samtools is not universal
 universal_variant   no
 
+configure.args      --with-bam=${prefix} \
+                    --with-boost=${prefix} \
+                    --with-eigen=no \
+                    --with-zlib=${prefix}
+
 post-destroot {
     xinstall -d ${destroot}${prefix}/share/doc/${name}
     xinstall -m 644 -W ${worksrcpath} \
@@ -40 +46 @@
         README \
         ${destroot}${prefix}/share/doc/${name}
 }
+
+livecheck.type      regex
+livecheck.url       [lindex ${master_sites} 0]
+livecheck.regex     ${name}-(\[0-9.\]+)${extract.suffix}