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Changelog
Latest Commits
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Commits on 2025-10-05
sci-biology/uchime: Fix build w/ cmake-4
f527c12
Andreas Sturmlechner
committed on 2025-10-05 17:44:06 UTC
sci-biology/uchime/files/CMakeLists.patch
sci-biology/uchime/uchime-4.2.40-r1.ebuild
sci-biology/fasttree: Raise cmake_minimum_required to 3.31
6001c92
Andreas Sturmlechner
committed on 2025-10-05 17:44:05 UTC
sci-biology/fasttree/files/CMakeLists.txt
Commits on 2025-09-30
sci-biology/fasttree: update EAPI 7 -> 8
916a7e7
Andreas Sturmlechner
committed on 2025-09-30 04:52:22 UTC
sci-biology/fasttree/fasttree-2.1.11.ebuild
sci-biology/fasttree/files/CMakeLists.txt
Commits on 2025-09-02
*/*: destable sparc
0ad96e8
Arthur Zamarin
committed on 2025-09-02 17:00:14 UTC
app-accessibility/at-spi2-atk/at-spi2-atk-2.46.0.ebuild
app-accessibility/at-spi2-core/at-spi2-core-2.54.1-r1.ebuild
app-accessibility/espeak-ng/espeak-ng-1.51.ebuild
app-accessibility/espeak-ng/espeak-ng-1.52.0.ebuild
app-accessibility/flite/flite-2.2-r1.ebuild
app-accessibility/flite/flite-2.2-r2.ebuild
app-accessibility/flite/flite-2.2-r3.ebuild
app-accessibility/mbrola-voices/mbrola-voices-0_pre20200331.ebuild
app-accessibility/mbrola/mbrola-3.3-r1.ebuild
app-accessibility/speech-dispatcher/speech-dispatcher-0.11.5.ebuild
app-accessibility/speech-dispatcher/speech-dispatcher-0.12.0-r1.ebuild
app-accessibility/speech-tools/speech-tools-2.5.0-r1.ebuild
app-accessibility/speech-tools/speech-tools-2.5.0-r2.ebuild
app-admin/analog/analog-6.0.17.ebuild
app-admin/apache-tools/apache-tools-2.4.63.ebuild
app-admin/apachetop/apachetop-0.23.2.ebuild
app-admin/augeas/augeas-1.14.1-r1.ebuild
app-admin/awscli/awscli-1.41.14.ebuild
app-admin/conky/conky-1.22.1-r1.ebuild
app-admin/emacs-updater/emacs-updater-1.19.ebuild
...
Move {llvm-core → llvm-runtimes}/clang-runtime
b8500b6
Michał Górny
committed on 2025-09-02 14:32:22 UTC
llvm-runtimes/clang-runtime/clang-runtime-15.0.7.ebuild
llvm-runtimes/clang-runtime/clang-runtime-16.0.6.ebuild
llvm-runtimes/clang-runtime/clang-runtime-17.0.6.ebuild
llvm-runtimes/clang-runtime/clang-runtime-18.1.8.ebuild
llvm-runtimes/clang-runtime/clang-runtime-19.1.7.ebuild
llvm-runtimes/clang-runtime/clang-runtime-20.1.8-r1.ebuild
llvm-runtimes/clang-runtime/clang-runtime-20.1.8.ebuild
llvm-runtimes/clang-runtime/clang-runtime-21.1.0-r1.ebuild
llvm-runtimes/clang-runtime/clang-runtime-21.1.0.ebuild
llvm-runtimes/clang-runtime/clang-runtime-22.ebuild
llvm-runtimes/clang-runtime/metadata.xml
app-crypt/libb2/libb2-0.98.1-r3.ebuild
dev-libs/rocm-comgr/rocm-comgr-5.7.1.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.1.1.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.1.2.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.3.2-r1.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.3.3.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.4.1.ebuild
dev-libs/rocm-comgr/rocm-comgr-6.4.3.ebuild
dev-util/hip/hip-5.7.1-r2.ebuild
dev-util/hip/hip-6.1.1.ebuild
dev-util/hip/hip-6.1.2.ebuild
gui-wm/wayfire/wayfire-0.10.0.ebuild
gui-wm/wayfire/wayfire-0.9.0-r1.ebuild
gui-wm/wayfire/wayfire-9999.ebuild
llvm-core/clang-common/clang-common-15.0.7-r10.ebuild
llvm-core/clang-common/clang-common-16.0.6-r6.ebuild
llvm-core/clang-common/clang-common-17.0.6-r10.ebuild
llvm-core/clang-common/clang-common-17.0.6-r9.ebuild
llvm-core/clang-common/clang-common-18.1.8-r3.ebuild
llvm-core/clang-common/clang-common-19.1.7.ebuild
llvm-core/clang-runtime/clang-runtime-15.0.7.ebuild
llvm-core/clang-runtime/clang-runtime-16.0.6.ebuild
llvm-core/clang-runtime/clang-runtime-17.0.6.ebuild
llvm-core/clang-runtime/clang-runtime-18.1.8.ebuild
llvm-core/clang-runtime/clang-runtime-19.1.7.ebuild
llvm-core/clang-runtime/clang-runtime-20.1.8-r1.ebuild
llvm-core/clang-runtime/clang-runtime-20.1.8.ebuild
llvm-core/clang-runtime/clang-runtime-21.1.0-r1.ebuild
llvm-core/clang-runtime/clang-runtime-21.1.0.ebuild
llvm-core/clang-runtime/clang-runtime-22.ebuild
llvm-core/clang-runtime/metadata.xml
...
Commits on 2025-08-05
sci-biology/hmmer: use dot-a.eclass
a738cfe
Eli Schwartz
committed on 2025-08-05 19:53:32 UTC
sci-biology/hmmer/hmmer-2.3.2-r6.ebuild
sci-biology/hmmer/hmmer-3.1_beta2-r1.ebuild
Commits on 2025-08-02
sci-biology/pysam: add 0.23.3
18dd27b
Nowa Ammerlaan
committed on 2025-08-02 11:29:31 UTC
sci-biology/pysam/pysam-0.23.3.ebuild
sci-biology/pysam/Manifest
sci-biology/pysam/pysam-9999.ebuild
Commits on 2025-07-29
sci-biology/clustal-omega: use dot-a.eclass
d28f6ef
Eli Schwartz
committed on 2025-07-29 03:34:24 UTC
sci-biology/clustal-omega/clustal-omega-1.2.4-r1.ebuild
Commits on 2025-07-05
sci-biology/unafold: add missing Perl BDEPENDs
74dd2b2
Sam James
committed on 2025-07-05 05:09:28 UTC
sci-biology/unafold/unafold-3.8-r1.ebuild
Commits on 2025-06-22
sci-biology/bcftools: add 1.22
a05f470
David Seifert
committed on 2025-06-22 15:33:13 UTC
sci-biology/bcftools/bcftools-1.22.ebuild
sci-biology/bcftools/Manifest
sci-biology/samtools: add 1.22
a35ac16
David Seifert
committed on 2025-06-22 15:33:11 UTC
sci-biology/samtools/samtools-1.22.ebuild
sci-biology/samtools/Manifest
sci-libs/htslib: add 1.22
2d54b4f
David Seifert
committed on 2025-06-22 15:33:09 UTC
sci-libs/htslib/htslib-1.22.ebuild
sci-libs/htslib/Manifest
Commits on 2025-06-09
sci-libs/dcmtk: add dev-libs/libxml2 subslot op for incoming ABI break
0582a42
Alfred Wingate
authored
and
Sam James
committed on 2025-06-09 03:11:22 UTC
sci-libs/dcmtk/dcmtk-3.6.7-r2.ebuild
sci-libs/dcmtk/dcmtk-3.6.8-r1.ebuild
sci-libs/dcmtk/dcmtk-3.6.9-r1.ebuild
sci-libs/dcmtk/dcmtk-3.6.7-r1.ebuild
sci-libs/dcmtk/dcmtk-3.6.8.ebuild
sci-libs/dcmtk/dcmtk-3.6.9.ebuild
sci-biology/newick-utils: add dev-libs/libxml2 subslot op for incoming ABI break
08ee8c9
Alfred Wingate
authored
and
Sam James
committed on 2025-06-09 03:11:17 UTC
sci-biology/newick-utils/newick-utils-1.6-r3.ebuild
sci-biology/newick-utils/newick-utils-1.6-r2.ebuild
dev-libs/igraph: add dev-libs/libxml2 subslot op for incoming ABI break
a7bbb8d
Alfred Wingate
authored
and
Sam James
committed on 2025-06-09 03:09:50 UTC
dev-libs/igraph/igraph-0.10.11-r1.ebuild
dev-libs/igraph/igraph-0.10.12-r1.ebuild
dev-libs/igraph/igraph-0.10.15-r1.ebuild
dev-libs/igraph/igraph-0.10.11.ebuild
dev-libs/igraph/igraph-0.10.12.ebuild
dev-libs/igraph/igraph-0.10.15.ebuild
Commits on 2025-05-27
sci-biology/biopython: remove unused patch(es)
baa9423
Michael Mair-Keimberger
authored
and
Sam James
committed on 2025-05-27 08:27:36 UTC
sci-biology/biopython/files/biopython-1.81-python3.12.patch
sci-biology/biopython/files/biopython-1.81-reportlab4.patch
Commits on 2025-05-22
sci-biology/fasttree: add github upstream metadata
788ba76
Sam James
committed on 2025-05-22 01:02:12 UTC
sci-biology/fasttree/metadata.xml
Commits on 2025-05-21
sci-biology/bamtools: drop 2.5.2, 2.5.2-r1
fb8d7bd
Andreas Sturmlechner
committed on 2025-05-21 19:20:54 UTC
sci-biology/bamtools/Manifest
sci-biology/bamtools/bamtools-2.5.2-r1.ebuild
sci-biology/bamtools/bamtools-2.5.2.ebuild
sci-biology/bamtools/files/bamtools-2.5.2-cmake.patch
sci-biology/bamtools: Stabilize 2.5.3 amd64, #956330
5cb0d7a
Arthur Zamarin
committed on 2025-05-21 10:56:43 UTC
sci-biology/bamtools/bamtools-2.5.3.ebuild
Commits on 2025-05-20
sci-biology/augustus: drop 2.5.5
2c86280
Andreas Sturmlechner
committed on 2025-05-20 19:12:22 UTC
sci-biology/augustus/Manifest
sci-biology/augustus/augustus-2.5.5.ebuild
sci-biology/augustus/files/augustus-2.5.5-sane-build.patch
Commits on 2025-05-18
sci-biology/bamtools: add 2.5.3
aa34c5e
David Seifert
committed on 2025-05-18 08:27:44 UTC
sci-biology/bamtools/bamtools-2.5.3.ebuild
sci-biology/bamtools/Manifest
Commits on 2025-05-17
sci-biology/treeviewx: slot op on x11-libs/wxGTK
f5acafd
David Seifert
committed on 2025-05-17 14:57:29 UTC
sci-biology/treeviewx/treeviewx-0.5.1.20100823_p4-r1.ebuild
sci-biology/treeviewx/treeviewx-0.5.1.20100823_p4.ebuild
Commits on 2025-05-16
dev-python/intervaltree: enable py3.14
0b14dc2
Arthur Zamarin
committed on 2025-05-16 20:07:45 UTC
dev-python/intervaltree/intervaltree-3.1.0-r1.ebuild
Commits on 2025-05-01
sci-biology/bowtie: Remove old
dc22375
Michał Górny
committed on 2025-05-01 11:36:04 UTC
sci-biology/bowtie/Manifest
sci-biology/bowtie/bowtie-2.4.4.ebuild
Commits on 2025-04-29
sci-biology/bedtools: drop 2.30.0
2f6e857
Alfred Wingate
authored
and
Sam James
committed on 2025-04-29 19:37:58 UTC
sci-biology/bedtools/Manifest
sci-biology/bedtools/bedtools-2.30.0.ebuild
sci-biology/bedtools/files/bedtools-2.29.2-buildsystem.patch
sci-biology/bedtools/files/bedtools-2.29.2-python.patch
sci-biology/bedtools/files/bedtools-2.30.0-gcc13.patch
sci-biology/bedtools: enable py3.13
0532f40
Alfred Wingate
authored
and
Sam James
committed on 2025-04-29 19:37:58 UTC
sci-biology/bedtools/bedtools-2.31.1.ebuild
Commits on 2025-04-24
sci-biology/bamtools: update EAPI 7 -> 8 for live ebuild
cf86189
NHOrus
authored
and
Sam James
committed on 2025-04-24 19:11:35 UTC
sci-biology/bamtools/bamtools-9999.ebuild
sci-biology/bamtools: update EAPI 7 -> 8, fix build with CMake 4
069e8bd
NHOrus
authored
and
Sam James
committed on 2025-04-24 19:11:34 UTC
sci-biology/bamtools/bamtools-2.5.2-r1.ebuild
sci-biology/bamtools/files/bamtools-2.5.2-cmake.patch
Commits on 2025-04-18
dev-libs/igraph: add 0.10.15
fe01185
David Seifert
committed on 2025-04-18 17:19:08 UTC
dev-libs/igraph/igraph-0.10.15.ebuild
dev-libs/igraph/Manifest
Commits on 2025-04-17
sci-biology/fasta: implicit declaration of function ftello
fc53999
Brahmajit Das
authored
and
Nowa Ammerlaan
committed on 2025-04-17 10:02:23 UTC
sci-biology/fasta/fasta-36.3.8i-r1.ebuild
sci-biology/fasta/files/fasta-36.3.8i-musl-build-fix.patch
Commits on 2025-04-14
sci-libs/htslib: Stabilize 1.20 amd64, #920140
e023423
Sam James
committed on 2025-04-14 15:57:57 UTC
sci-libs/htslib/htslib-1.20.ebuild
sci-biology/samtools: Stabilize 1.20 amd64, #920140
01264aa
Sam James
committed on 2025-04-14 15:57:56 UTC
sci-biology/samtools/samtools-1.20.ebuild
sci-biology/bamtools: Stabilize 2.5.2 amd64, #920140
4d9daad
Sam James
committed on 2025-04-14 15:57:55 UTC
sci-biology/bamtools/bamtools-2.5.2.ebuild
sci-biology/augustus: Stabilize 3.4.0-r3 amd64, #920140
62bb07c
Sam James
committed on 2025-04-14 15:57:55 UTC
sci-biology/augustus/augustus-3.4.0-r3.ebuild
Commits on 2025-04-09
sci-biology/bfast: drop 0.7.0a
19ec106
Arthur Zamarin
committed on 2025-04-09 17:31:40 UTC
sci-biology/bfast/bfast-0.7.0a.ebuild
Commits on 2025-04-07
sci-biology/bfast: update EAPI 7 -> 8, fix build with C99
50d9851
NHOrus
authored
and
Arthur Zamarin
committed on 2025-04-07 18:59:20 UTC
sci-biology/bfast/bfast-0.7.0a-r1.ebuild
sci-biology/bfast/files/bfast-0.7.0a-gzeof.patch
Commits on 2025-04-03
sci-biology/biopython: add 1.85, drop 1.81-r1
1052e61
Alexey Shvetsov
committed on 2025-04-03 18:02:14 UTC
sci-biology/biopython/biopython-1.85.ebuild
sci-biology/biopython/Manifest
sci-biology/biopython/biopython-1.81-r1.ebuild
Commits on 2025-03-25
sci-biology/bwa: note that filter-lto has been fixed upstream
771184d
Eli Schwartz
committed on 2025-03-25 04:11:07 UTC
sci-biology/bwa/bwa-0.7.17.ebuild
sci-biology/bwa: add bug link to patches...
0957b47
Eli Schwartz
committed on 2025-03-25 04:11:07 UTC
sci-biology/bwa/files/bwa-0.7.17-Makefile.patch
sci-biology/bwa/files/bwa-0.7.17-gcc-10.patch
Commits on 2025-03-22
sci-biology/pysam: Remove old
f1a1cfe
Michał Górny
committed on 2025-03-22 20:06:33 UTC
sci-biology/pysam/Manifest
sci-biology/pysam/pysam-0.22.1.ebuild
Commits on 2025-03-21
sci-biology/pysam: sync live build
485c37a
Quincy Fleming
authored
and
Nowa Ammerlaan
committed on 2025-03-21 14:59:02 UTC
sci-biology/pysam/pysam-9999.ebuild
sci-biology/pysam: add 0.23.0
216304d
Quincy Fleming
authored
and
Nowa Ammerlaan
committed on 2025-03-21 14:59:01 UTC
sci-biology/pysam/pysam-0.23.0.ebuild
sci-biology/pysam/Manifest
sci-biology/samtools: add 1.21
17e86ad
Quincy Fleming
authored
and
Nowa Ammerlaan
committed on 2025-03-21 14:59:00 UTC
sci-biology/samtools/samtools-1.21.ebuild
sci-biology/samtools/Manifest
sci-biology/bcftools: add 1.21
76e614a
Quincy Fleming
authored
and
Nowa Ammerlaan
committed on 2025-03-21 14:58:59 UTC
sci-biology/bcftools/bcftools-1.21.ebuild
sci-biology/bcftools/Manifest
sci-libs/htslib: add 1.21
5113338
Quincy Fleming
authored
and
Nowa Ammerlaan
committed on 2025-03-21 14:58:58 UTC
sci-libs/htslib/htslib-1.21.ebuild
sci-libs/htslib/Manifest
Commits on 2025-03-10
sci-libs/dcmtk: Stabilize 3.6.9 amd64, #951088
20e6de2
Sam James
committed on 2025-03-10 22:42:37 UTC
sci-libs/dcmtk/dcmtk-3.6.9.ebuild
Commits on 2025-02-27
dev-python/intervaltree: Enable pypy3.11
bcf18e4
Michał Górny
committed on 2025-02-27 20:57:16 UTC
dev-python/intervaltree/intervaltree-3.1.0-r1.ebuild
Commits on 2025-02-24
sci-biology/yass: Fix build with USE=lowmem
f2e3846
NHOrus
authored
and
Sam James
committed on 2025-02-24 21:25:54 UTC
sci-biology/yass/files/yass-1.14-lowmem-define.patch
sci-biology/yass/yass-1.14-r4.ebuild
sci-biology/yass/yass-1.14-r3.ebuild
Commits on 2025-02-13
sci-biology/augustus: fix gcc15 build
eb66870
Alfred Wingate
authored
and
Sam James
committed on 2025-02-13 08:45:32 UTC
sci-biology/augustus/files/augustus-3.5.0-fix-gcc15.patch
sci-biology/augustus/augustus-3.5.0.ebuild
Commits on 2025-02-11
sci-biology/augustus: fix phase definition order
b9a680c
Sam James
committed on 2025-02-11 01:37:12 UTC
sci-biology/augustus/augustus-3.5.0.ebuild