294891 2026-04-30 08:25:44 +0000 biology/muscle: update 3.8.1551 -> 5.1 2026-07-24 17:48:43 +0000 1 1 1 Unclassified Ports & Packages Individual Port(s) Latest Any Any Closed FIXED --- Affects Only Me --- 1 rodrigo rodrigo mzaki oldest_to_newest 1420319 0 270262 rodrigo 2026-04-30 08:25:44 +0000 Created attachment 270262 muscle 5.1 update In 2021, the code was re-written from scratch for MUSCLE v5 to implement novel algorithms and fully support modern PC hardware. https://drive5.com/muscle5/ 1435329 1 commit-hook 2026-07-21 09:53:08 +0000 A commit in branch main references this bug: URL: https://cgit.FreeBSD.org/ports/commit/?id=6c7bfd6a6aab06279041e5d5b9c63a1dec8a24dd commit 6c7bfd6a6aab06279041e5d5b9c63a1dec8a24dd Author: Rodrigo Osorio <rodrigo@FreeBSD.org> AuthorDate: 2026-07-20 13:08:11 +0000 Commit: Rodrigo Osorio <rodrigo@FreeBSD.org> CommitDate: 2026-07-21 09:50:28 +0000 biology/muscle: update 3.8.1551 -> 5.1 In 2021, the code was re-written from scratch for MUSCLE v5 to implement novel algorithms and fully support modern PC hardware. PR: 294891 Approved by: Maintainer Timeout (>2 months) biology/muscle/Makefile | 26 +++--- biology/muscle/distinfo | 6 +- biology/muscle/files/patch-Makefile (gone) | 28 ------- biology/muscle/files/patch-globalslinux.cpp (gone) | 94 ---------------------- biology/muscle/files/patch-src__myutils.cpp (new) | 65 +++++++++++++++ 5 files changed, 83 insertions(+), 136 deletions(-) 1435333 2 rodrigo 2026-07-21 10:01:15 +0000 Committed under maintainer Timeout 1435778 3 commit-hook 2026-07-24 17:48:43 +0000 A commit in branch main references this bug: URL: https://cgit.FreeBSD.org/ports/commit/?id=7b7b1a9a84e4e34dd26715e9b28d9e57569492be commit 7b7b1a9a84e4e34dd26715e9b28d9e57569492be Author: Rodrigo Osorio <rodrigo@FreeBSD.org> AuthorDate: 2026-07-20 13:08:11 +0000 Commit: Rodrigo Osorio <rodrigo@FreeBSD.org> CommitDate: 2026-07-21 09:50:28 +0000 biology/muscle: update 3.8.1551 -> 5.1 In 2021, the code was re-written from scratch for MUSCLE v5 to implement novel algorithms and fully support modern PC hardware. PR: 294891 Approved by: Maintainer Timeout (>2 months) biology/muscle/Makefile | 26 +++--- biology/muscle/distinfo | 6 +- biology/muscle/files/patch-Makefile (gone) | 28 ------- biology/muscle/files/patch-globalslinux.cpp (gone) | 94 ---------------------- biology/muscle/files/patch-src__myutils.cpp (new) | 65 +++++++++++++++ 5 files changed, 83 insertions(+), 136 deletions(-) 270262 2026-04-30 08:25:44 +0000 2026-04-30 08:25:44 +0000 muscle 5.1 update muscle-5.1.patch text/plain 6336 rodrigo Y29tbWl0IGJiZTZiMTlmYjE0MDdlNTA5NTI5YWMzOWRiNjAyZjUwYWRmMzNiZmEKQXV0aG9yOiBS b2RyaWdvIE9zb3JpbyA8cm9kcmlnb0BGcmVlQlNELm9yZz4KRGF0ZTogICBTYXQgQXByIDI1IDE1 OjU3OjQyIDIwMjYgKzAyMDAKCiAgICB1cGRhdGluZyBtdXNjbGUKCmRpZmYgLS1naXQgYS9iaW9s b2d5L211c2NsZS9NYWtlZmlsZSBiL2Jpb2xvZ3kvbXVzY2xlL01ha2VmaWxlCmluZGV4IGRkNmIz MWE5YTA3Zi4uZjI0Mzk1M2IyZTBlIDEwMDY0NAotLS0gYS9iaW9sb2d5L211c2NsZS9NYWtlZmls ZQorKysgYi9iaW9sb2d5L211c2NsZS9NYWtlZmlsZQpAQCAtMSwyNSArMSwyOSBAQAogUE9SVE5B 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