<pre style='margin:0'>
Renee Otten (reneeotten) pushed a commit to branch master
in repository macports-ports.

</pre>
<p><a href="https://github.com/macports/macports-ports/commit/2dc03513975bf2d9bfa631094643512ba39ea9b7">https://github.com/macports/macports-ports/commit/2dc03513975bf2d9bfa631094643512ba39ea9b7</a></p>
<pre style="white-space: pre; background: #F8F8F8">The following commit(s) were added to refs/heads/master by this push:
<span style='display:block; white-space:pre;color:#404040;'>     new 2dc0351  bali-phy: update to 3.5.0.1
</span>2dc0351 is described below

<span style='display:block; white-space:pre;color:#808000;'>commit 2dc03513975bf2d9bfa631094643512ba39ea9b7
</span>Author: Renee Otten <reneeotten@macports.org>
AuthorDate: Thu Mar 5 14:05:10 2020 -0500

<span style='display:block; white-space:pre;color:#404040;'>    bali-phy: update to 3.5.0.1
</span><span style='display:block; white-space:pre;color:#404040;'>    
</span><span style='display:block; white-space:pre;color:#404040;'>    - take over maintainership as discussed in PR #6527
</span>---
 science/bali-phy/Portfile                    | 26 ++++++++++++++------------
 science/bali-phy/files/patch-bp_analyze.diff | 12 ++++++------
 2 files changed, 20 insertions(+), 18 deletions(-)

<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bali-phy/Portfile b/science/bali-phy/Portfile
</span><span style='display:block; white-space:pre;color:#808080;'>index 9672194..f768f83 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bali-phy/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/bali-phy/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -4,14 +4,14 @@ PortSystem          1.0
</span> PortGroup           github 1.0
 PortGroup           meson 1.0
 
<span style='display:block; white-space:pre;background:#ffe0e0;'>-github.setup        bredelings BAli-Phy 3.4.1
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+github.setup        bredelings BAli-Phy 3.5.0.1
</span> name                bali-phy
 revision            0
 
 categories          science
 platforms           darwin
 license             GPL-2+
<span style='display:block; white-space:pre;background:#ffe0e0;'>-maintainers         {gmail.com:benjamin.redelings @bredelings} openmaintainer
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+maintainers         {reneeotten @reneeotten} openmaintainer
</span> 
 description         Bayesian co-estimation of phylogenies and multiple alignments via MCMC
 long_description    BAli-Phy estimates multiple sequence alignments and evolutionary trees \
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -21,15 +21,16 @@ long_description    BAli-Phy estimates multiple sequence alignments and evolutio
</span> 
 homepage            http://www.bali-phy.org/
 
<span style='display:block; white-space:pre;background:#ffe0e0;'>-checksums           rmd160  aeb578128defbb0b653470c1f2ad7666fde0a4a8 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-                    sha256  59b6c38651247b6f43b0707c82b5729bfd5b32792f810b95214a4a99efb096ab \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-                    size    12550833
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+checksums           rmd160  ab45c032dd9cef97dabc4d7ace03e85a05376f36 \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+                    sha256  37aec534cbc88005cfb00215c2ea4f30da55efaaf8819701c28f3ae77b51cf72 \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+                    size    6528740
</span> 
<span style='display:block; white-space:pre;background:#ffe0e0;'>-compiler.cxx_standard 2014
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+compiler.cxx_standard 2017
</span> 
 # use the same Python version as in meson
<span style='display:block; white-space:pre;background:#ffe0e0;'>-set python_version 3.7
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+set python_version 3.8
</span> set python_ver_no_dot [string map {. {}} ${python_version}]
<span style='display:block; white-space:pre;background:#e0ffe0;'>+set python_bin ${frameworks_dir}/Python.framework/Versions/${python_version}/bin/python${python_version}
</span> 
 variant doc description {Build documentation and man pages} {
     depends_build-append \
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -44,12 +45,15 @@ patchfiles-append   patch-bali_phy_pkg.diff \
</span>                     patch-run_tests.py.diff
 
 post-patch {
<span style='display:block; white-space:pre;background:#ffe0e0;'>-    reinplace "s|@@PYTHON_BIN@@|${frameworks_dir}/Python.framework/Versions/${python_version}/bin/python${python_version}|g" \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-        ${worksrcpath}/tests/run-tests.py
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+    reinplace "s|@@PYTHON_BIN@@|${python_bin}|g" ${worksrcpath}/tests/run-tests.py \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+        ${worksrcpath}/scripts/bp-analyze
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span>     reinplace "s|@@PERL_BIN@@|${prefix}/bin/perl|g" ${worksrcpath}/scripts/bali-phy-pkg \
<span style='display:block; white-space:pre;background:#ffe0e0;'>-        ${worksrcpath}/scripts/bp-analyze ${worksrcpath}/examples/sequences/lrRNA/keep.pl
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+        ${worksrcpath}/examples/sequences/lrRNA/keep.pl
</span> }
 
<span style='display:block; white-space:pre;background:#e0ffe0;'>+configure.post_args-append  --buildtype=release
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span> depends_build-append \
                     port:eigen3 \
                     port:nlohmann-json \
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -70,6 +74,4 @@ post-destroot {
</span>     xinstall -d ${destroot}${docdir}
     xinstall -m 0644 -W ${worksrcpath} README.md NEWS \
        COPYING CONTRIBUTING.md ${destroot}${docdir}
<span style='display:block; white-space:pre;background:#ffe0e0;'>-    xinstall -m 0644 -W ${worksrcpath}/doc README.pdf Tutorial.pdf \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-        ${destroot}${docdir}
</span> }
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/bali-phy/files/patch-bp_analyze.diff b/science/bali-phy/files/patch-bp_analyze.diff
</span><span style='display:block; white-space:pre;color:#808080;'>index f709990..0077da3 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/bali-phy/files/patch-bp_analyze.diff
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/bali-phy/files/patch-bp_analyze.diff
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -1,8 +1,8 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- scripts/bp-analyze.orig        2019-10-28 16:57:36.000000000 -0400
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ scripts/bp-analyze     2019-10-28 16:57:48.000000000 -0400
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- scripts/bp-analyze.orig        2020-03-05 22:15:22.000000000 -0500
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ scripts/bp-analyze     2020-03-05 22:15:33.000000000 -0500
</span> @@ -1,4 +1,4 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>--#!/usr/bin/perl -w 
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+#!@@PERL_BIN@@ -w 
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- 
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- # TODO
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-#!/usr/bin/env python3
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++#!@@PYTHON_BIN@@
</span>  
<span style='display:block; white-space:pre;background:#e0ffe0;'>+ import shutil
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ import argparse
</span></pre><pre style='margin:0'>

</pre>