git: 812aca78f2ba - main - biology/iqtree: Update to 3.1.2

The branch main has been updated by jrm:

URL: https://cgit.FreeBSD.org/ports/commit/?id=812aca78f2ba1c164913517e69c7f21530a42641

commit 812aca78f2ba1c164913517e69c7f21530a42641
Author:     Joseph Mingrone <jrm@FreeBSD.org>
AuthorDate: 2026-05-09 18:34:17 +0000
Commit:     Joseph Mingrone <jrm@FreeBSD.org>
CommitDate: 2026-05-11 17:56:35 +0000

    biology/iqtree: Update to 3.1.2
    
    Release notes:  https://github.com/iqtree/iqtree3/releases/tag/v3.1.2
    Sponsored by:   The FreeBSD Foundation
---
 biology/iqtree/Makefile                                 |  4 ++--
 biology/iqtree/distinfo                                 | 10 +++++-----
 .../iqtree/files/patch-terraphast_lib_clamped__uint.cpp | 17 -----------------
 3 files changed, 7 insertions(+), 24 deletions(-)

diff --git a/biology/iqtree/Makefile b/biology/iqtree/Makefile
index 4d095f50904a..76e54fc007b1 100644
--- a/biology/iqtree/Makefile
+++ b/biology/iqtree/Makefile
@@ -1,6 +1,6 @@
 PORTNAME=	iqtree
 DISTVERSIONPREFIX=	v
-DISTVERSION=	3.1.1
+DISTVERSION=	3.1.2
 CATEGORIES=	biology
 
 MAINTAINER=	jrm@FreeBSD.org
@@ -19,7 +19,7 @@ USES=		cmake eigen:3
 USE_GITHUB=	yes
 GH_PROJECT=	iqtree3
 GH_TUPLE=	tothuhien:lsd2:c61110f3a4fa05325b45c97b2134792ff9d55d4c:tothuhien/lsd2 \
-		iqtree:cmaple:4795b124543c02439722f36cff439bd6517a825b:iqtree/cmaple
+		iqtree:cmaple:3d45b1ab68e2d68a2825bf17a531e22200578cd6:iqtree/cmaple
 
 PLIST_FILES=	bin/iqtree
 PORTEXAMPLES=	custom_distributions.txt example.cf example.nex example.phy \
diff --git a/biology/iqtree/distinfo b/biology/iqtree/distinfo
index 8e55721fec90..83ba4b5a0016 100644
--- a/biology/iqtree/distinfo
+++ b/biology/iqtree/distinfo
@@ -1,7 +1,7 @@
-TIMESTAMP = 1776629777
-SHA256 (iqtree-iqtree3-v3.1.1_GH0.tar.gz) = f748572d205609040a790df44c7bfa49d8b01ae174e123e927911696befd78c5
-SIZE (iqtree-iqtree3-v3.1.1_GH0.tar.gz) = 5913805
+TIMESTAMP = 1778350394
+SHA256 (iqtree-iqtree3-v3.1.2_GH0.tar.gz) = df85370a2ac74289787226501401ac7db7f085f51c2110d4b829b3f210822160
+SIZE (iqtree-iqtree3-v3.1.2_GH0.tar.gz) = 28742940
 SHA256 (tothuhien-lsd2-c61110f3a4fa05325b45c97b2134792ff9d55d4c_GH0.tar.gz) = 9bbeaa0f8f35783c1d8dec74df6c93a804dbca808fa04484f9123de4e7258b53
 SIZE (tothuhien-lsd2-c61110f3a4fa05325b45c97b2134792ff9d55d4c_GH0.tar.gz) = 1529381
-SHA256 (iqtree-cmaple-4795b124543c02439722f36cff439bd6517a825b_GH0.tar.gz) = 2d3484d4d13374ab04f8fc8b729b1849c2bebe65a825ec6dc22d83840b736215
-SIZE (iqtree-cmaple-4795b124543c02439722f36cff439bd6517a825b_GH0.tar.gz) = 4861543
+SHA256 (iqtree-cmaple-3d45b1ab68e2d68a2825bf17a531e22200578cd6_GH0.tar.gz) = b8b4d6da2b8571f5a469d1d7154e15135893dc3b5b74876b1131bfdb031a29a9
+SIZE (iqtree-cmaple-3d45b1ab68e2d68a2825bf17a531e22200578cd6_GH0.tar.gz) = 5689506
diff --git a/biology/iqtree/files/patch-terraphast_lib_clamped__uint.cpp b/biology/iqtree/files/patch-terraphast_lib_clamped__uint.cpp
deleted file mode 100644
index 200b2fb455a7..000000000000
--- a/biology/iqtree/files/patch-terraphast_lib_clamped__uint.cpp
+++ /dev/null
@@ -1,17 +0,0 @@
---- terraphast/lib/clamped_uint.cpp.orig	2026-05-05 02:34:53 UTC
-+++ terraphast/lib/clamped_uint.cpp
-@@ -90,14 +90,10 @@ template class checked_uint<true>;
- template class checked_uint<true>;
- 
- // explicitly instantiate template functions
--template bool operator==(checked_uint<false>, checked_uint<false>);
--template bool operator!=(checked_uint<false>, checked_uint<false>);
- template checked_uint<false> operator+(checked_uint<false>, checked_uint<false>);
- template checked_uint<false> operator*(checked_uint<false>, checked_uint<false>);
- template std::ostream& operator<<(std::ostream&, checked_uint<false>);
- 
--template bool operator==(checked_uint<true>, checked_uint<true>);
--template bool operator!=(checked_uint<true>, checked_uint<true>);
- template checked_uint<true> operator+(checked_uint<true>, checked_uint<true>);
- template checked_uint<true> operator*(checked_uint<true>, checked_uint<true>);
- template std::ostream& operator<<(std::ostream&, checked_uint<true>);