svn commit: r470664 - head/biology/hyphy

[Joseph Mingrone]

Author: jrm
Date: Tue May 22 22:55:18 2018
New Revision: 470664
URL: https://svnweb.freebsd.org/changeset/ports/470664

Log:
  biology/hyphy: Update to version 2.3.13

Modified:
  head/biology/hyphy/Makefile   (contents, props changed)
  head/biology/hyphy/distinfo   (contents, props changed)
  head/biology/hyphy/pkg-plist   (contents, props changed)

Modified: head/biology/hyphy/Makefile
==============================================================================
--- head/biology/hyphy/Makefile	Tue May 22 22:41:57 2018	(r470663)
+++ head/biology/hyphy/Makefile	Tue May 22 22:55:18 2018	(r470664)
@@ -1,8 +1,7 @@
 # $FreeBSD$
 
 PORTNAME=	hyphy
-DISTVERSION=	2.3.12
-PORTREVISION=	1
+DISTVERSION=	2.3.13
 CATEGORIES=	biology
 
 MAINTAINER=	jrm at FreeBSD.org

Modified: head/biology/hyphy/distinfo
==============================================================================
--- head/biology/hyphy/distinfo	Tue May 22 22:41:57 2018	(r470663)
+++ head/biology/hyphy/distinfo	Tue May 22 22:55:18 2018	(r470664)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1526314925
-SHA256 (veg-hyphy-2.3.12_GH0.tar.gz) = e2378a5130670d9440103b207e6b0fdb87e3eb163f55509d11a6876161072fed
-SIZE (veg-hyphy-2.3.12_GH0.tar.gz) = 7900819
+TIMESTAMP = 1527024059
+SHA256 (veg-hyphy-2.3.13_GH0.tar.gz) = 29b72574302c98d38a92d5316b9283caa80a54c3e74c5e278c5bc9ae3d3df499
+SIZE (veg-hyphy-2.3.13_GH0.tar.gz) = 7910770

Modified: head/biology/hyphy/pkg-plist
==============================================================================
--- head/biology/hyphy/pkg-plist	Tue May 22 22:41:57 2018	(r470663)
+++ head/biology/hyphy/pkg-plist	Tue May 22 22:55:18 2018	(r470664)
@@ -257,6 +257,7 @@ lib/hyphy/TemplateBatchFiles/Samplers/srs.ibf
 lib/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/BUSTED.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/BranchSiteREL.bf
+lib/hyphy/TemplateBatchFiles/SelectionAnalyses/FADE.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL-contrast.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/FUBAR.bf
@@ -265,10 +266,13 @@ lib/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-G
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-SRV.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/SLAC.bf
+lib/hyphy/TemplateBatchFiles/SelectionAnalyses/Simulators/BUSTED.bf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf
+lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/grid_compute.ibf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/selection_lib.ibf
 lib/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/shared-load-file.bf
+lib/hyphy/TemplateBatchFiles/SelectionAnalyses/testers/FitModel.bf
 lib/hyphy/TemplateBatchFiles/SelectionLRT.bf
 lib/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
 lib/hyphy/TemplateBatchFiles/SeqAlignment.bf
@@ -477,9 +481,11 @@ lib/hyphy/TemplateBatchFiles/libv3/models/DNA/HKY85.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/DNA/JC69.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/binary.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/binary/charbinary.bf
+lib/hyphy/TemplateBatchFiles/libv3/models/binary/empirical.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/codon.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/codon/BS_REL.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV.bf
+lib/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_MH.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/frequencies.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/model_functions.bf
 lib/hyphy/TemplateBatchFiles/libv3/models/parameters.bf