gentoo auto-resync : 15:04:2025 - 08:45:29

11 files changed, 8 insertions, 371 deletions

diff --git a/sci-biology/Manifest.gz b/sci-biology/Manifest.gz
index 175d78f31658..57b35dde5f02 100644
--- a/sci-biology/Manifest.gz
+++ b/sci-biology/Manifest.gz
diff --git a/sci-biology/augustus/Manifest b/sci-biology/augustus/Manifest
index 626acbeebece..91c995031610 100644
--- a/sci-biology/augustus/Manifest
+++ b/sci-biology/augustus/Manifest
@@ -5,6 +5,6 @@ DIST augustus-3.4.0.tar.gz 221652100 BLAKE2B dfc8c98107f5a955f688f3d2976ca936faf
 DIST augustus-3.5.0.tar.gz 225918930 BLAKE2B 26e934f3d3f50d183fb0ee7874352c5ac9af9877eaa40a9a6195ae79cfd9a78a321bd9261e8bd3435b1d4984589d0bdd4e0821ba6600c717d6afd95f511702de SHA512 0869e54b3126b3ab2f6fb2c28ff07b779265a139968e5277352f5230d3c317415324ca61dce4a0cd6c3f1fb5399447ae815bec7732a285ce652cf44e6cd23e5d
 DIST augustus.2.5.5.tar.gz 70826249 BLAKE2B 3f3f1537c5c614f00298e1835eeb7bbe968987c3e0dee13299e1e26b4abf198d8635a93121b11722d2c90b63ff54cf153c72716d01c3ca033481bb54357b7bcf SHA512 33eb05d5c90200d2fc17026743d3a25e73aa3e217b8546f0bed4c94bcb460597d853377a67896e52e45ead5d736d13ed3b2c91b31fed8216da2920c825e8c20f
 EBUILD augustus-2.5.5.ebuild 911 BLAKE2B 92c56fcf261b64393440c92e0f01b9dae018e082b4addb5759cbfc807183944059775a8482fafcba5c3dc3fc4ca7568c93bd4be546b65a0bc446028a537c71f6 SHA512 a54cc943fa343179edb7d21c9cd841672d6abc548e5a2c6b56c054b85bd64684dc7bf145110c6eb51788d600a37bfcad60e8f4d8c982aa92213ee75ed95cc963
-EBUILD augustus-3.4.0-r3.ebuild 1098 BLAKE2B f8fd13b91ffeb4f5c2bae0ce51473275ad61a9ad25c548ce4f564dfea6462dfd7c83be9fb6395908a8b226472d7f0e29430910552da2f70e0d6ece8258ac794e SHA512 94507d41aeb7a64f046f7c76f9feb86b95db082c34b099a9470d17200540997a58ef1b445083c2ba486bf3c6267ecf56f80c90174c099bc095c60cfa5ac98cf8
+EBUILD augustus-3.4.0-r3.ebuild 1097 BLAKE2B 8c4eb7195d7b579fc3c1d7a60980ac2025d6067dc662e3c0d5f2b080e2b2c9231bf760fd4e4858dc0db0402ebd90989b6cdc46fbc310ca203da7d60504f6ee07 SHA512 7eada2dfa957dcaabaaaa4f087758c3e79691a5065084cebc52e41ff150bbdc2fe1e19db5a1dc392bf65e083b93214ee1d02a1d51f820760b0d5f2338636eefc
 EBUILD augustus-3.5.0.ebuild 1840 BLAKE2B 1a01a22fb375bcc89ec16ed5edb37a9f79886d8d033bcff7c8f24e475020d74f804c3817dca72c0698c910fb855db2f63e8e861c8b6f4dc62c82d19053e8747f SHA512 7c294154540c512ab13661e9dbcf50f09dc318ff9a8b3a52eb6e3ce8017968985c282efc7ead7450b47769afad36e5a293d7c98705df0ac0c786bc13e3dfa738
 MISC metadata.xml 360 BLAKE2B a2a37a6ac8535c7c1e48711fe6f330bddc6057a445afb33bced10e3137255bbe647d85a1c300af4cc802c2fdaa4a6d4ee169e82778ba4437e60824daf2485633 SHA512 7f3cc43067ed98c6fee8302eff2855b3594c2adc3e81d72c27aa20bd9e4477401607a4424e93368a3e501bcb90a44106bebdffd2ca0069e94b3b5d3e5fc2156e
diff --git a/sci-biology/augustus/augustus-3.4.0-r3.ebuild b/sci-biology/augustus/augustus-3.4.0-r3.ebuild
index 7f1bd71bdf41..b9760f0a440a 100644
--- a/sci-biology/augustus/augustus-3.4.0-r3.ebuild
+++ b/sci-biology/augustus/augustus-3.4.0-r3.ebuild
@@ -14,7 +14,7 @@ S="${WORKDIR}/${P^}"
 
 LICENSE="Artistic"
 SLOT="0"
-KEYWORDS="~amd64 ~x86"
+KEYWORDS="amd64 ~x86"
 
 RDEPEND="
 	dev-db/sqlite:3
diff --git a/sci-biology/bamtools/Manifest b/sci-biology/bamtools/Manifest
index 6ebf7bfa1b87..407151acc6d0 100644
--- a/sci-biology/bamtools/Manifest
+++ b/sci-biology/bamtools/Manifest
@@ -1,4 +1,4 @@
 DIST bamtools-2.5.2.tar.gz 245729 BLAKE2B 5034ea1ec16b205488e421461ed74d8a98eae87eb7fc061e5928ad15512497a5338c9dbacbde51009c940acd55c25fccc2f3be2840d2821a8755a2a0b0370944 SHA512 540a4664abfbd1304600c17d47424c312a46e4238b0f0868f4037ddcc54c4487424e3d7820153084b3b512be8a4603e3ec5377a73311a617061460de1bfe49ef
-EBUILD bamtools-2.5.2.ebuild 773 BLAKE2B 6ea567dd2491608a99828855c96205d6853809cbb9842443335df9c232b549c8606aebb643f22aad8e0eba5a670a3cea762d7508730a58e879b3029723854f89 SHA512 b35a77cd608eaffe1c8dbc4361ef69c7f21788c43ecc55962204a8fe963158654ec4079d498712980e7e115d1f8d1c0c63cedbca848ff3a49465d867ef4a4e64
+EBUILD bamtools-2.5.2.ebuild 772 BLAKE2B cb98b407c7496ce7390965a489fb1cd6c636f452c130410c914913e9387127ee7a77b10c643a535a927b3a6c40fbb651964776d10174ac50ded89ac0bb10a2d0 SHA512 99f801af9ede5c2451bf58e6ce89bdd8a46a65eb40f144fe0fcbb659ed700ef8c8579da3c7621b82fa115439a2322308113042728e50f79e1d305bea2c0a1ed4
 EBUILD bamtools-9999.ebuild 773 BLAKE2B 58b5af7760648a6919a875736cc52e851e9ff30cb5b308bdfd69a014e67e74a857f8f5a46c5f9d8e398b25383b3b316bfddf3b0fa3b09ca845ef31d87aab3e76 SHA512 7be431719d95ee3e44e79e752d201a940974cc343d20cba8e743a9e6566d6958abefa93f72fafab020d354fc84a42ab68ff131253375c442b91949e175860ff6
 MISC metadata.xml 644 BLAKE2B 36c9e0f480f074308d95db24b0d35570e2123dcf3d23c0a4671746bf5bcd8a902e15b512ac046ef46ad3f41fed5d837e31b1daddb5a496a35b851755bb16b6ba SHA512 6b64596a0d3a0c3f177eb47ccbaf01fc5c86fe5ff6b235a41d6a25de46f969ac44c2bb10dcc66c8baf94000a167bdf39deb555ef81ce790f8784793a42855511
diff --git a/sci-biology/bamtools/bamtools-2.5.2.ebuild b/sci-biology/bamtools/bamtools-2.5.2.ebuild
index a809a651df64..d972d243b9ff 100644
--- a/sci-biology/bamtools/bamtools-2.5.2.ebuild
+++ b/sci-biology/bamtools/bamtools-2.5.2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2025 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
@@ -13,7 +13,7 @@ if [[ ${PV} == *9999 ]]; then
 	EGIT_REPO_URI="https://github.com/pezmaster31/bamtools.git"
 else
 	SRC_URI="https://github.com/pezmaster31/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz"
-	KEYWORDS="~amd64 ~x86"
+	KEYWORDS="amd64 ~x86"
 fi
 
 LICENSE="MIT"
diff --git a/sci-biology/clustalx/Manifest b/sci-biology/clustalx/Manifest
deleted file mode 100644
index 780bf8f77044..000000000000
--- a/sci-biology/clustalx/Manifest
+++ /dev/null
@@ -1,5 +0,0 @@
-AUX clustalx-2.1-qt5.patch 8173 BLAKE2B dca2d4f7531ac38510cc9c2aa788244293c436940d38945c906c76b7a29d395179190833517c01cbe48d450111d3f115427fb55536ab55dd01fc0617ff9e7bc2 SHA512 d8c9e9e1aade86f6ba4aa88618ace305152b819cf445119c82b4d4e56c7923e25876c83fd74c8dc91715ce484ff0ea3111b13ed7d8219c1222ad60e09b72d29e
-DIST clustalx-2.1.tar.gz 341649 BLAKE2B 43a740b278127d4745699a75479e422cc95a864bd55a9fe37eb68c0b36ae89e07848e8fdae2207ff9b3850eebc273b803df0261eefd3e7d96d8fa58c75af3adc SHA512 e8cbad783722161de6999ab01a91d555fc10db609197a8d2878f91e9d7dc998784c02d2ccb54c4936ee27b41321db6f4f37021221662f483b8b6d945b6e1c026
-DIST clustalx.png.xz 74808 BLAKE2B 3e0b7ba5d0c4e1013a1ea0146460384279e7116cccde1abdd2e34de16867d83b88c0a04fbc64524e340611fdc5a5df4dbc73f10af610a43fae65c0907b7ac25d SHA512 0907710c944fc1b883c58501cd7bc2abbc5bf171495b58dbe9829d60d7c3530c210f89a5bfafc3cec03808ae50f5c9a78ce37b9175c2e37590494e115e8e343a
-EBUILD clustalx-2.1-r3.ebuild 1328 BLAKE2B 3f6d801ab0e9c0da759b88f4276bdb42ab82da245fa8d66c484407eac8bbde3ec2f1d06ffb7a8b938b78ed705df777d6b7af43bcd6798b8bf384be3983313c3b SHA512 fd9eefecbb698e3e2c82687163b92c4a55278c2f779b9c5d300680fba23a82e4a0b4e5550007d0231b655466ad80eaa159e918a448604bf0166342b5321c5733
-MISC metadata.xml 268 BLAKE2B a4d67334cdad8626d60e46b677ee1c83f569e5e20b3739a7664bb33be1829f8478af35e135bf734a6ff151b8543ea6c4ecafbf822cee8189f7e7096bd9698711 SHA512 59d3d8213b1a219396b74b6f4188c01e1cb4eb1c63e6792ce1e7fdb8000d1a4625919337ff77288ca7f7e07d9753f481d2381a06f554012633cd678194c980de
diff --git a/sci-biology/clustalx/clustalx-2.1-r3.ebuild b/sci-biology/clustalx/clustalx-2.1-r3.ebuild
deleted file mode 100644
index ae15401a3488..000000000000
--- a/sci-biology/clustalx/clustalx-2.1-r3.ebuild
+++ /dev/null
@@ -1,55 +0,0 @@
-# Copyright 1999-2024 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit desktop qmake-utils
-
-DESCRIPTION="Graphical interface for the ClustalW multiple alignment program"
-HOMEPAGE="https://www.ebi.ac.uk/Tools/msa/clustalw2/"
-SRC_URI="
-	http://www.clustal.org/download/current/${P}.tar.gz
-	https://dev.gentoo.org/~jlec/distfiles/${PN}.png.xz"
-
-LICENSE="GPL-3 LGPL-3"
-SLOT="0"
-KEYWORDS="amd64 ~x86"
-
-DEPEND="
-	dev-qt/qtcore:5
-	dev-qt/qtgui:5
-	dev-qt/qtwidgets:5
-	dev-qt/qtxml:5
-"
-RDEPEND="${DEPEND}
-	>=sci-biology/clustalw-${PV}
-"
-
-PATCHES=( "${FILESDIR}/${P}"-qt5.patch ) # kindly borrowed from Debian
-
-src_prepare() {
-	default
-	sed \
-		-e "s|colprot.xml|${EPREFIX}/usr/share/${PN}/colprot.xml|" \
-		-e "s|coldna.xml|${EPREFIX}/usr/share/${PN}/coldna.xml|" \
-		-e "s|colprint.xml|${EPREFIX}/usr/share/${PN}/colprint.xml|" \
-		-i ClustalQtParams.h || \
-		die "Failed to patch shared files location."
-	sed \
-		-e "s|clustalx.hlp|${EPREFIX}/usr/share/${PN}/clustalx.hlp|" \
-		-i HelpDisplayWidget.cpp || \
-		die "Failed to patch help file location."
-	rm -r usr || die
-}
-
-src_configure() {
-	eqmake5
-}
-
-src_install() {
-	dobin clustalx
-	insinto /usr/share/${PN}
-	doins colprot.xml coldna.xml colprint.xml clustalx.hlp
-	make_desktop_entry ${PN} ClustalX
-	doicon "${WORKDIR}"/${PN}.png
-}
diff --git a/sci-biology/clustalx/files/clustalx-2.1-qt5.patch b/sci-biology/clustalx/files/clustalx-2.1-qt5.patch
deleted file mode 100644
index 96b108c14474..000000000000
--- a/sci-biology/clustalx/files/clustalx-2.1-qt5.patch
+++ /dev/null
@@ -1,295 +0,0 @@
-Author: Andreas Tille <tille@debian.org>
-Last-Update: Mon, 11 Sep 2017 09:30:38 +0200
-Description: Porting to Qt5 following the hints at
-   https://wiki.qt.io/Transition_from_Qt_4.x_to_Qt5#QtWidgets_as_a_Separate_Module
-   https://wiki.qt.io/Transition_from_Qt_4.x_to_Qt5#toAscii.28.29_and_fromAscii.28.29_Methods_are_deprecated
-
---- a/clustalx.pro
-+++ b/clustalx.pro
-@@ -6,6 +6,7 @@ TEMPLATE = app
- TARGET = clustalx
- CONFIG += release static
- QT += xml
-+QT += widgets
- VERSION = 2.1
- win32 {
-    DEFINES += OS_WINDOWS
---- a/AlignOutputFileNames.cpp
-+++ b/AlignOutputFileNames.cpp
-@@ -20,7 +20,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <iostream>
- #include "AlignOutputFileNames.h"
---- a/AlignmentFormatOptions.cpp
-+++ b/AlignmentFormatOptions.cpp
-@@ -5,7 +5,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include "AlignmentFormatOptions.h"
- #include "clustalW/general/userparams.h"
---- a/AlignmentParameters.cpp
-+++ b/AlignmentParameters.cpp
-@@ -11,7 +11,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QButtonGroup>
- #include <QLineEdit>
---- a/AlignmentViewerWidget.cpp
-+++ b/AlignmentViewerWidget.cpp
-@@ -60,7 +60,7 @@
-  *****************************************************************************/
- 
- 
--#include <QtGui>
-+#include <QtWidgets>
- #include <QFile>
- #include <QTextStream>
- #include "AlignmentViewerWidget.h"
---- a/AlignmentWidget.cpp
-+++ b/AlignmentWidget.cpp
-@@ -45,7 +45,7 @@
-  *
-  ****************************************************************************/
- 
--#include <QtGui>
-+#include <QtWidgets>
- #include "AlignmentWidget.h"
- #include "clustalW/general/userparams.h"
- #include "ClustalQtParams.h"
---- a/BootstrapTreeDialog.cpp
-+++ b/BootstrapTreeDialog.cpp
-@@ -12,7 +12,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <iostream>
- #include "BootstrapTreeDialog.h"
---- a/ColorFileXmlParser.cpp
-+++ b/ColorFileXmlParser.cpp
-@@ -1,4 +1,4 @@
--#include <QtGui>
-+#include <QtWidgets>
- 
- #include "ColorFileXmlParser.h"
- #include "ClustalQtParams.h"
---- a/ColumnScoreParams.cpp
-+++ b/ColumnScoreParams.cpp
-@@ -11,7 +11,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QButtonGroup>
- #include <QLineEdit>
---- a/HelpDisplayWidget.cpp
-+++ b/HelpDisplayWidget.cpp
-@@ -16,7 +16,7 @@
- #include <QTextEdit>
- #include <iostream>
- #include <fstream>
--#include <QtGui>
-+#include <QtWidgets>
- #include "Resources.h"
- 
- const string HelpDisplayWidget::helpFileName = "/usr/share/clustalx/clustalx.hlp";
---- a/HistogramWidget.cpp
-+++ b/HistogramWidget.cpp
-@@ -21,7 +21,7 @@
-  ****************************************************************************/
- 
- #include "HistogramWidget.h"
--#include <QtGui>
-+#include <QtWidgets>
- #include <QImage>
- //#include <QPixmap>
- #include <QPoint>
---- a/LowScoringSegParams.cpp
-+++ b/LowScoringSegParams.cpp
-@@ -12,7 +12,7 @@
- #include <QHBoxLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QButtonGroup>
- #include <QLineEdit>
---- a/PSPrinter.cpp
-+++ b/PSPrinter.cpp
-@@ -16,7 +16,7 @@
- #include <ctime>
- #include <iomanip>
- #include <sstream>
--#include <QtGui>
-+#include <QtWidgets>
- #include "PSPrinter.h"
- #include "ColorFileXmlParser.h"
- #include "clustalW/general/userparams.h"
-@@ -594,7 +594,7 @@ void PSPrinter::printHeaderLine(ofstream
-     {
-         psX = blockLeft + (i - fr) * CHARWIDTH; 
-         (*psOutFile) << "(";
--        (*psOutFile) << data->seqHeader[ix][i].toAscii();
-+        (*psOutFile) << data->seqHeader[ix][i].toLatin1();
-         (*psOutFile) << ") ";
-         (*psOutFile) << psX << " " << psY << " " << psX << " " 
-                      << psY << " 1.0 1.0 1.0 color_inv\n";
---- a/PairwiseParams.cpp
-+++ b/PairwiseParams.cpp
-@@ -18,7 +18,7 @@
- #include <QRadioButton>
- #include <QMessageBox>
- #include <QHBoxLayout>
--#include <QtGui>
-+#include <QtWidgets>
- #include "clustalW/general/userparams.h"
- #include "clustalW/substitutionMatrix/globalmatrix.h"
- #include "FileDialog.h"
---- a/ProteinGapParameters.cpp
-+++ b/ProteinGapParameters.cpp
-@@ -5,7 +5,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QString>
- #include <QMessageBox>
---- a/SaveSeqFile.cpp
-+++ b/SaveSeqFile.cpp
-@@ -18,7 +18,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include "SaveSeqFile.h"
- #include "clustalW/general/userparams.h"
---- a/SecStructOptions.cpp
-+++ b/SecStructOptions.cpp
-@@ -5,7 +5,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QLineEdit>
- #include "SecStructOptions.h"
---- a/SeqNameWidget.cpp
-+++ b/SeqNameWidget.cpp
-@@ -55,7 +55,7 @@
-  * 
-  ****************************************************************************/
- 
--#include <QtGui>
-+#include <QtWidgets>
- #include "SeqNameWidget.h"
- #include "KeyController.h" //- nige
- #include "clustalW/alignment/Alignment.h"
---- a/TreeFormatOptions.cpp
-+++ b/TreeFormatOptions.cpp
-@@ -4,7 +4,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <QCheckBox>
- #include "TreeFormatOptions.h"
---- a/TreeOutputFileNames.cpp
-+++ b/TreeOutputFileNames.cpp
-@@ -11,7 +11,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <iostream>
- #include "TreeOutputFileNames.h"
---- a/WritePostscriptFile.cpp
-+++ b/WritePostscriptFile.cpp
-@@ -18,7 +18,7 @@
- #include <QGridLayout>
- #include <QSizePolicy>
- #include <QComboBox>
--#include <QtGui>
-+#include <QtWidgets>
- #include <QLabel>
- #include <iostream>
- #include "WritePostscriptFile.h"
---- a/mainwindow.cpp
-+++ b/mainwindow.cpp
-@@ -87,7 +87,7 @@
-  *
-  ****************************************************************************/
- 
--#include <QtGui>
-+#include <QtWidgets>
- #include <QPixmap>
- #include <QFile>
- #include <iostream>
---- a/ColorParameters.cpp
-+++ b/ColorParameters.cpp
-@@ -154,8 +154,8 @@ QColor ColorParameters::getResidueColor(
- {
-     int i, j;
-     QChar colorParRes;
--    char showRes = res.toAscii();
--    char showCon = consensus.toAscii();
-+    char showRes = res.toLatin1();
-+    char showCon = consensus.toLatin1();
-     
-     for(i = 0; i < colorPar.size(); i++)
-     {
-@@ -171,7 +171,7 @@ QColor ColorParameters::getResidueColor(
-                 
-                 for(j = 0; j < colorPar[i].consensusConditionList.size(); j++)
-                 {
--                    char temp = colorPar[i].consensusConditionList[j].toAscii();
-+                    char temp = colorPar[i].consensusConditionList[j].toLatin1();
-                     if(consensus == colorPar[i].consensusConditionList[j])
-                     {
-                         return colorPar[i].color;
-@@ -191,8 +191,8 @@ int ColorParameters::getResidueColorNum(
- {
-     int i, j;
-     QChar colorParRes;
--    char showRes = res.toAscii();
--    char showCon = consensus.toAscii();
-+    char showRes = res.toLatin1();
-+    char showCon = consensus.toLatin1();
-     
-     for(i = 0; i < colorPar.size(); i++)
-     {
-@@ -208,7 +208,7 @@ int ColorParameters::getResidueColorNum(
-                 
-                 for(j = 0; j < colorPar[i].consensusConditionList.size(); j++)
-                 {
--                    char temp = colorPar[i].consensusConditionList[j].toAscii();
-+                    char temp = colorPar[i].consensusConditionList[j].toLatin1();
-                     if(consensus == colorPar[i].consensusConditionList[j])
-                     {
-                         return getIndexOfColor(colorPar[i].color);
diff --git a/sci-biology/clustalx/metadata.xml b/sci-biology/clustalx/metadata.xml
deleted file mode 100644
index ccdff086e20b..000000000000
--- a/sci-biology/clustalx/metadata.xml
+++ /dev/null
@@ -1,8 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-  <maintainer type="project">
-    <email>sci-biology@gentoo.org</email>
-    <name>Gentoo Biology Project</name>
-  </maintainer>
-</pkgmetadata>
diff --git a/sci-biology/samtools/Manifest b/sci-biology/samtools/Manifest
index 5f368d101179..4180eacfe83b 100644
--- a/sci-biology/samtools/Manifest
+++ b/sci-biology/samtools/Manifest
@@ -2,6 +2,6 @@ DIST samtools-1.19.2.tar.bz2 9150483 BLAKE2B fb845b2ccd61f1731ef4cdc180f4b9a4ac7
 DIST samtools-1.20.tar.bz2 9179938 BLAKE2B b534e659899a822e191c779a6ce9247854036da3435a0b63748783edc96d610ff0f02f73bbb5c1eab3ff86dbcca331113f3312a7c3376141ef89b6a8684446e4 SHA512 8526286243d057758cb846311d0a8c728026d31438e87fcc03e0df576f33bcc6da0e18bce141dbdc438a116341c94aa92701cdf10ba6b1301eadedbb34120822
 DIST samtools-1.21.tar.bz2 9149284 BLAKE2B f4e0b155b0bc8aaea81835e751d94c121f6256340e2db3a809d1ee46bed16168a0fb43d9359bf4c3967d0b77ab1151e105107c47eb0481a2c49414ffd5f1faa2 SHA512 4f80a4333ebb4dc0eb5f38f29474424b1acca9b677aa206b111c7a638b8ae924ab2dcdc9de15eb1b849576d0158579a476a7b78ccd73e7d2baafc3bbb88c6103
 EBUILD samtools-1.19.2.ebuild 926 BLAKE2B a9acf64c51c87cf5d913982d22dba55901111ed1802f5795b0a1bd66979b600d815ee37c29aae83bc2d58c73a61330a4ada70fac4192022d23add1bdc89cf26c SHA512 ab73ecba708535299d9cbfc3c02a6efb292b9c85658247a7eba37b915776493027a2ca98de2e8bfe373a667119a06629a3a86f97eded244b7722887c685710c2
-EBUILD samtools-1.20.ebuild 926 BLAKE2B a9acf64c51c87cf5d913982d22dba55901111ed1802f5795b0a1bd66979b600d815ee37c29aae83bc2d58c73a61330a4ada70fac4192022d23add1bdc89cf26c SHA512 ab73ecba708535299d9cbfc3c02a6efb292b9c85658247a7eba37b915776493027a2ca98de2e8bfe373a667119a06629a3a86f97eded244b7722887c685710c2
+EBUILD samtools-1.20.ebuild 925 BLAKE2B b5c6c91147e8e581974bc006480b529d938d0b43d42466ee762b6207374ddaec6482bb5516017d259cf02aff14c6336e54fef798161ac9b96ac08aa928d6ecc8 SHA512 21ee96a8883b8c0d707687c69ac10f1c1cc2949e6521c3d67fdcb631186fd92362149ed8e11ede476530cd1a9405a692149dadfbbec13770ec33c3d549e4ebab
 EBUILD samtools-1.21.ebuild 926 BLAKE2B fd7c3e6acb573c32f83aa0f1f790b2c49090a10dcd92578b7a14de1e3a296fb7e916e0df35c24b79ce61f906826352a8b7281f9dd1f6ca7ed639d8357b616499 SHA512 dc6f887c62984747b496d95a987b93bc58f751036a17ed23f6c509f1e3a526afff4e2fa81f66c38b0861e782a257b6d9a623b385240ae6994ba2618b519a6365
 MISC metadata.xml 409 BLAKE2B c94eab9ebda4844beb471694106e353ccbbaca53e69de680301c6cfab3f3b6224ec94fcd631c9de2811d309463e5ee6decf2e443bfc68921f3362c6a312cd3af SHA512 fb2d3686e1ee70e4e80266a26603b3e52b680b1537a4569493a3a0511b93e2acdb2be3136df7ae54905a9f86fb7e53fa054607262751ebd8f54903f1905dad24
diff --git a/sci-biology/samtools/samtools-1.20.ebuild b/sci-biology/samtools/samtools-1.20.ebuild
index 42879b0f8698..b923c46fcae2 100644
--- a/sci-biology/samtools/samtools-1.20.ebuild
+++ b/sci-biology/samtools/samtools-1.20.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2024 Gentoo Authors
+# Copyright 1999-2025 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
@@ -11,7 +11,7 @@ SRC_URI="https://github.com/samtools/${PN}/releases/download/${PV}/${P}.tar.bz2"
 
 LICENSE="MIT"
 SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 
 RDEPEND="
 	dev-lang/perl