Update to 6.40.04

The root-roofit-jsoninterface package was merged with root-roofit-hs3
Fix calculation of kerning distances in generated PDF files
Dropped patches: 1
New patches: 2

.gitignore

@@ -1 +1,3 @@
 /*.tar.gz
+/*.tar.xz
+/usa.root

JupyROOT-on-EPEL

@@ -0,0 +1,37 @@
+While all is fine in Fedora and all packages needed to run the JupyROOT
+notebook are available there, this is not true for EPEL.
+
+Hopefully the ipython/jupyter stack will at some point be available in
+EPEL too, but at this point in time it is not.
+
+However, it is possible to work around this issue using a python
+virtual environment.
+
+First, install the required root packages (as root):
+
+$ yum install root root-notebook python3-jupyroot
+
+Then return to your non-root user and create a python3 virtual
+environment:
+
+$ python3 -m venv ~/jupyter-env
+
+Activate the environment:
+
+$ . ~/jupyter-env/bin/activate
+
+Then install the missing packages in the virtual environment using pip:
+
+$ pip install notebook metakernel
+
+Then start the root notebook:
+
+$ PYTHONPATH=~/jupyter-env/lib/python3.6/site-packages root --notebook
+
+And that is it.
+
+If you want to start it again and you haven't removed the virtual
+environment, only two of the steps are necessary:
+
+$ . ~/jupyter-env/bin/activate
+$ PYTHONPATH=~/jupyter-env/lib/python3.6/site-packages root --notebook

root-32bit-tests.patch

@@ -0,0 +1,53 @@
+From ac806becc2aa69898d1c5ca3b195d8fa3003238a Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Fri, 13 Mar 2020 16:21:55 +0100
+Subject: [PATCH] Run tests on 32 bit
+
+---
+ test/stressGeometry.cxx       |  8 --------
+ tree/tree/test/CMakeLists.txt | 10 +++-------
+ 2 files changed, 3 insertions(+), 15 deletions(-)
+
+diff --git a/test/stressGeometry.cxx b/test/stressGeometry.cxx
+index 253bc8574e9..48da18b06c3 100644
+--- a/test/stressGeometry.cxx
++++ b/test/stressGeometry.cxx
+@@ -257,14 +257,6 @@ void stressGeometry(const char *exp="*", Bool_t generate_ref=kFALSE, Bool_t vecg
+       if (opt.Contains(exps[i])) iexp[i] = 1;
+       else                       iexp[i] = 0;
+    }
+-#if defined(linux) && !defined(__x86_64__)
+-   // 32bit linux: we have an error with ATLAS, see https://sft.its.cern.ch/jira/browse/ROOT-9893
+-   // Disable unless explicitly enabled.
+-   if (all) {
+-      printf("DISABLED ATLAS TEST due to known failure on Linux 32 bit!\n");
+-      iexp[32] = 0;
+-   }
+-#endif
+    TFile::SetCacheFileDir(".");
+    TString fname;
+    for (i=0; i<NG; i++) {
+diff --git a/tree/tree/test/CMakeLists.txt b/tree/tree/test/CMakeLists.txt
+index 4e903b06daa..2ad9bb52171 100644
+--- a/tree/tree/test/CMakeLists.txt
++++ b/tree/tree/test/CMakeLists.txt
+@@ -13,13 +13,9 @@ target_include_directories(testTOffsetGeneration PRIVATE ${CMAKE_CURRENT_SOURCE_
+ ROOT_STANDARD_LIBRARY_PACKAGE(SillyStruct NO_INSTALL_HEADERS HEADERS ${CMAKE_CURRENT_SOURCE_DIR}/SillyStruct.h SOURCES SillyStruct.cxx LINKDEF SillyStructLinkDef.h DEPENDENCIES RIO)
+ ROOT_SET_OUTPUT_DIRECTORIES(SillyStruct)
+ ROOT_ADD_GTEST(testBulkApi BulkApi.cxx LIBRARIES RIO Tree TreePlayer)
+-#FIXME: tests are having timeout on 32bit CERN VM (in docker container everything is fine),
+-# to be reverted after investigation.
+-if(NOT CMAKE_SIZEOF_VOID_P EQUAL 4)
+-  ROOT_ADD_GTEST(testBulkApiMultiple BulkApiMultiple.cxx LIBRARIES RIO Tree TreePlayer TIMEOUT 3000)
+-  ROOT_ADD_GTEST(testBulkApiVarLength BulkApiVarLength.cxx LIBRARIES RIO Tree TreePlayer)
+-  ROOT_ADD_GTEST(testBulkApiSillyStruct BulkApiSillyStruct.cxx LIBRARIES RIO Tree TreePlayer SillyStruct)
+-endif()
++ROOT_ADD_GTEST(testBulkApiMultiple BulkApiMultiple.cxx LIBRARIES RIO Tree TreePlayer TIMEOUT 3000)
++ROOT_ADD_GTEST(testBulkApiVarLength BulkApiVarLength.cxx LIBRARIES RIO Tree TreePlayer)
++ROOT_ADD_GTEST(testBulkApiSillyStruct BulkApiSillyStruct.cxx LIBRARIES RIO Tree TreePlayer SillyStruct)
+ ROOT_ADD_GTEST(testTBasket TBasket.cxx LIBRARIES RIO Tree)
+ ROOT_ADD_GTEST(testTBranch TBranch.cxx LIBRARIES RIO Tree MathCore)
+ ROOT_ADD_GTEST(testTIOFeatures TIOFeatures.cxx LIBRARIES RIO Tree)
+-- 
+2.54.0
+

root-Adjust-stressGraphics-reference.patch

@@ -0,0 +1,46 @@
+From 9d2d6c1a104302e2f84659324b4e8b317cb9ab95 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Fri, 26 Jun 2026 06:51:28 +0200
+Subject: [PATCH] Adjust stressGraphics reference
+
+---
+ test/stressGraphics_zlibng.ref | 8 ++++----
+ 1 file changed, 4 insertions(+), 4 deletions(-)
+
+diff --git a/test/stressGraphics_zlibng.ref b/test/stressGraphics_zlibng.ref
+index b7ca1568c66..2fda1276315 100644
+--- a/test/stressGraphics_zlibng.ref
++++ b/test/stressGraphics_zlibng.ref
+@@ -7,7 +7,7 @@
+        patterns     23688      1500     19305       200    143676    123000     47075     11000     23076      1500
+           crown      2785        50     14546       100     19178      9000      7605      4000      2829        50
+        piechart     67345       200     74560      3000     32180     15000     29168     15000     66962       200
+-         ttext1      1025       150     12866       150     32266      9900     29901      5000      1072       200
++         ttext1      1025       150     12866       200     32266      9900     29901      5000      1072       200
+          ttext2       432        50     12743        50      9517       150      5306       700       473        50
+         tlatex1      5140        50     14050        50     16377      1300     12462       500      5170        70
+         tlatex2      5488        80     13507       100     18439       700     12061       500      5502        80
+@@ -18,9 +18,9 @@
+            itbf      5600       400     13302       300     16868       400     15083       800      5638       400
+       tmathtext  14193187   4000000     12984       100     27112      9500     25080      3000  14193352   4000000
+    transparency      2386        50     14700       100     16514      7000     24701     12000      2554       100
+-       transpad     16185      5000     17131       350     22801      9500     14232      1000     11271      5000
++       transpad     16185      5000     17131       350     22801      9500     14232      1500     11271      5000
+    statfitparam     27683       400     23370       300     44898     11000     30209      5000     37580       400
+-        tgaxis1     20424       400     21388       300     27719     11000     16044       600     20704       400
++        tgaxis1     20424       400     21388       300     27719     11000     16044       700     20704       400
+         tgaxis2     15874       100     19140       300     27682     10300     15197       550     15905       100
+         tgaxis3     22678       300     42796       200     44177     17000     20788     11000     22866       300
+         tgaxis4      3817       600     14405       250     19907      6300     10674       900      4523       600
+@@ -71,7 +71,7 @@
+    annotation3d    547845      3000    193427      3000     32383     12000     58073     20000    547493      3000
+       tgraph2d3     16675      3000     29541       500     40536     11300     33519      3900     16452      4000
+         ntuple1    256544      5000    382044      7000     54446     30400     45002      6500    261593      7000
+-         quarks      4759       180     14134       100     32913       600     25421      1000      4790       180
++         quarks      4759       180     14134       200     32913       600     25421      1000      4790       180
+          timage   1442666    150000     12900       100     26100       100    374206     15000   1102279    250000
+         zoomtf1      6130       500     16528       300     49750     14000     29288      4000      5429       500
+         zoomfit      6200       700     15706       200     31219     11000     18280      3200      6113       800
+-- 
+2.54.0
+

root-Revert-cppyy-Mark-addressof-test-as-xfail-on-modules.patch

@@ -0,0 +1,47 @@
+From 9fc24a9cc827028d78c983eea5d18ac6a705e806 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Fri, 26 Jun 2026 17:20:27 +0200
+Subject: [PATCH] Revert "[cppyy] Mark `addressof` test as `xfail` on
+ modules=OFF build with C++17"
+
+This reverts commit 5eb0e6466ed1b2c29853ba4bfa928dd1da3e4bcd.
+---
+ .../pyroot/cppyy/cppyy/test/test_datatypes.py     | 15 +--------------
+ 1 file changed, 1 insertion(+), 14 deletions(-)
+
+diff --git a/bindings/pyroot/cppyy/cppyy/test/test_datatypes.py b/bindings/pyroot/cppyy/cppyy/test/test_datatypes.py
+index e66e36529ec..71e26dd1d9b 100644
+--- a/bindings/pyroot/cppyy/cppyy/test/test_datatypes.py
++++ b/bindings/pyroot/cppyy/cppyy/test/test_datatypes.py
+@@ -5,18 +5,6 @@ from support import setup_make, pylong, pyunicode, IS_MAC, IS_MAC_ARM, IS_WINDOW
+ test_dct = "datatypes_cxx"
+ 
+ 
+-def has_cpp_20():
+-    import cppyy
+-
+-    return cppyy.gbl.gInterpreter.ProcessLine("__cplusplus;") >= 202002
+-
+-
+-def is_modules_off():
+-    import cppyy
+-
+-    return "runtime_cxxmodules" not in cppyy.gbl.gROOT.GetConfigFeatures()
+-
+-
+ class TestDATATYPES:
+     def setup_class(cls):
+         import cppyy
+@@ -2351,8 +2339,7 @@ class TestDATATYPES:
+         assert str(bt(1)) == 'True'
+         assert str(bt(0)) == 'False'
+ 
+-    @mark.xfail(strict=True, run=not IS_WINDOWS, condition=IS_MAC_ARM or (not has_cpp_20() and is_modules_off()), reason="Crashes on mac-beta ARM64 and fails on Windows \
+-            assertion error for runtime_cxxmodules=OFF build that is explained in GitHub issue #21005")
++    @mark.xfail(strict=True, run=not IS_WINDOWS, condition=IS_MAC_ARM, reason="Crashes on mac-beta ARM64 and fails on Windows")
+     def test49_addressof_method(self):
+         """Use of addressof for (const) methods"""
+ 
+-- 
+2.54.0
+

root-Revert-test-Fetch-the-geometries-from-EOS-and-not-fr.patch

@@ -0,0 +1,60 @@
+From 4da50ef374cd231163dff77493f9367cd62583d9 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sun, 30 Mar 2025 21:23:14 +0200
+Subject: [PATCH] Revert "[test] Fetch the geometries from EOS and not from the
+ website"
+
+This reverts commit a8a879ce252e45405452db38d9178c7883582a7d.
+---
+ test/stressGeometry.cxx | 10 +++++-----
+ 1 file changed, 5 insertions(+), 5 deletions(-)
+
+diff --git a/test/stressGeometry.cxx b/test/stressGeometry.cxx
+index 7fb6bf97e7..f8d78f4f54 100644
+--- a/test/stressGeometry.cxx
++++ b/test/stressGeometry.cxx
+@@ -1,6 +1,6 @@
+ // Program to check a TGeo geometry
+ // The first time you run this program, the geometry files will be taken
+-// from /eos/root-eos/testfiles/ (previously from http://root.cern/files)
++// from http://root.cern/files
+ //
+ //    How the program works
+ // If the file <geom_name>_ref.root does not exist, it is generated. The file
+@@ -274,13 +274,13 @@ void stressGeometry(const char *exp="*", Bool_t generate_ref=kFALSE, Bool_t vecg
+          delete gGeoManager;
+          gGeoManager = 0;
+       }
+-      TGeoManager::Import(Form("root://eospublic.cern.ch//eos/root-eos/testfiles/%s",fname.Data()));
++      TGeoManager::Import(Form("http://root.cern/files/%s",fname.Data()));
+       if (!gGeoManager) return;
+       if (vecgeom) TVirtualGeoConverter::Instance()->ConvertGeometry();
+       
+       fname = TString::Format("files/%s_ref_%d.root", exps[i],versions[i]);
+ 
+-      if (gen_ref || !TFile::Open(Form("root://eospublic.cern.ch//eos/root-eos/testfiles//%s_ref_%d.root",exps[i],versions[i]),"CACHEREAD")) {
++      if (gen_ref || !TFile::Open(Form("http://root.cern/files/%s_ref_%d.root",exps[i],versions[i]),"CACHEREAD")) {
+          if (!gen_ref) fprintf(stderr,"File: %s does not exist, generating it\n", fname.Data());
+          else               fprintf(stderr,"Generating reference file %s\n", fname.Data());
+          WriteRef(i);
+@@ -320,7 +320,7 @@ void ReadRef(Int_t kexp) {
+    TFile *f = 0;
+    //use ref_[version[i]] files
+    if (!gen_ref)
+-      fname = TString::Format("root://eospublic.cern.ch//eos/root-eos/testfiles//%s_ref_%d.root", exps[kexp],versions[kexp]);
++      fname = TString::Format("http://root.cern/files/%s_ref_%d.root", exps[kexp],versions[kexp]);
+    else
+       fname.Format("files/%s_ref_%d.root", exps[kexp],versions[kexp]);
+ 
+@@ -546,7 +546,7 @@ void InspectDiff(const char* exp="alice",Long64_t ientry=-1) {
+    Float_t rad    = 0.;
+    TString fname(TString::Format("%s.root",exp));
+    if (gSystem->AccessPathName(fname)) {
+-      TGeoManager::Import(Form("root://eospublic.cern.ch//eos/root-eos/testfiles//%s",fname.Data()));
++      TGeoManager::Import(Form("http://root.cern/files/%s",fname.Data()));
+    } else {
+       TGeoManager::Import(fname);
+    }
+-- 
+2.49.0
+

root-Save-memory-Do-not-link-to-LLVM-libraries-in-parallel.patch

@@ -0,0 +1,48 @@
+From a5b9525ea1575706a523296bb47ac15f33935838 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Mon, 2 Jun 2025 21:22:39 +0200
+Subject: [PATCH] Save memory. Do not link to LLVM libraries in parallel
+
+---
+ core/clingutils/test/CMakeLists.txt                        | 3 +++
+ interpreter/CppInterOp/unittests/CppInterOp/CMakeLists.txt | 6 ++++++
+ 2 files changed, 9 insertions(+)
+
+diff --git a/core/clingutils/test/CMakeLists.txt b/core/clingutils/test/CMakeLists.txt
+index a6c7aedac99..90ac0139c24 100644
+--- a/core/clingutils/test/CMakeLists.txt
++++ b/core/clingutils/test/CMakeLists.txt
+@@ -36,3 +36,6 @@ if(NOT builtin_clang)
+ endif()
+ 
+ ROOT_ADD_UNITTEST_DIR(Core ${CLING_LIBRARIES} $<TARGET_OBJECTS:ClingUtils>)
++
++# Save memory. Do not link to LLVM libraries in parallel
++add_dependencies(coreclingutilstestUnit CppInterOpTests)
+diff --git a/interpreter/CppInterOp/unittests/CppInterOp/CMakeLists.txt b/interpreter/CppInterOp/unittests/CppInterOp/CMakeLists.txt
+index 1d6ccd3e865..dc98cdfc29a 100644
+--- a/interpreter/CppInterOp/unittests/CppInterOp/CMakeLists.txt
++++ b/interpreter/CppInterOp/unittests/CppInterOp/CMakeLists.txt
+@@ -67,6 +67,9 @@ add_cppinterop_unittest(CppInterOpTests
+   ${EXTRA_TEST_SOURCE_FILES}
+ )
+ 
++# Save memory. Do not link to LLVM libraries in parallel
++add_dependencies(CppInterOpTests DynamicLibraryManagerTests)
++
+ if(NOT WIN32)
+   set_source_files_properties(VariableReflectionTest.cpp PROPERTIES COMPILE_FLAGS
+     "-Wno-pedantic"
+@@ -113,6 +116,9 @@ endif()
+ 
+ add_dependencies(DynamicLibraryManagerTests TestSharedLib)
+ 
++# Save memory. Do not link to LLVM libraries in parallel
++add_dependencies(DynamicLibraryManagerTests Cling)
++
+ #export_executable_symbols_for_plugins(TestSharedLib)
+ add_subdirectory(TestSharedLib)
+ 
+-- 
+2.54.0
+

root-aclic-versioned-libs.patch

@@ -1,82 +0,0 @@
-diff -ur root-5.30.06.orig/core/unix/src/TUnixSystem.cxx root-5.30.06/core/unix/src/TUnixSystem.cxx
---- root-5.30.06.orig/core/unix/src/TUnixSystem.cxx	2012-01-10 16:14:31.000000000 +0100
-+++ root-5.30.06/core/unix/src/TUnixSystem.cxx	2012-06-29 06:29:42.030017840 +0200
-@@ -440,6 +440,9 @@
- 
-    TString lib = _dyld_get_image_name(i++);
- 
-+   TRegexp sovers = "libCore\\.[0-9]+\\.*[0-9]*\\.so";
-+   TRegexp dyvers = "libCore\\.[0-9]+\\.*[0-9]*\\.dylib";
-+
- #ifndef ROOTPREFIX
- #if TARGET_OS_IPHONE || TARGET_IPHONE_SIMULATOR
-    // first loaded is the app so set ROOTSYS to app bundle
-@@ -454,7 +457,8 @@
-       }
-    }
- #else
--   if (lib.EndsWith("libCore.dylib") || lib.EndsWith("libCore.so")) {
-+   if (lib.EndsWith("libCore.dylib") || lib.EndsWith("libCore.so") ||
-+       lib.Index(sovers) != kNPOS    || lib.Index(dyvers) != kNPOS) {
-       char respath[kMAXPATHLEN];
-       if (!realpath(lib, respath)) {
-          if (!gSystem->Getenv("ROOTSYS"))
-@@ -476,9 +480,23 @@
- 
-    // add all libs loaded before libSystem.B.dylib
-    if (!gotFirstSo && (lib.EndsWith(".dylib") || lib.EndsWith(".so"))) {
--      if (linkedDylibs.Length())
--         linkedDylibs += " ";
--      linkedDylibs += lib;
-+      sovers = "\\.[0-9]+\\.*[0-9]*\\.so";
-+      Ssiz_t idx = lib.Index(sovers);
-+      if (idx != kNPOS) {
-+         lib.Remove(idx);
-+         lib += ".so";
-+      }
-+      dyvers = "\\.[0-9]+\\.*[0-9]*\\.dylib";
-+      idx = lib.Index(dyvers);
-+      if (idx != kNPOS) {
-+         lib.Remove(idx);
-+         lib += ".dylib";
-+      }
-+      if (!gSystem->AccessPathName(lib, kReadPermission)) {
-+         if (linkedDylibs.Length())
-+            linkedDylibs += " ";
-+         linkedDylibs += lib;
-+      }
-    }
- }
- #endif
-@@ -2838,9 +2856,11 @@
-       delete [] exe;
-       exe = longerexe;
-    }
-+   TRegexp sovers = "\\.so\\.[0-9]+";
- #else
-    const char *cLDD="ldd";
-    const char *cSOEXT=".so";
-+   TRegexp sovers = "\\.so\\.[0-9]+";
- #endif
-    FILE *p = OpenPipe(TString::Format("%s %s", cLDD, exe), "r");
-    TString ldd;
-@@ -2858,10 +2878,15 @@
-       }
-       if (solibName) {
-          TString solib = solibName->String();
--         if (solib.EndsWith(cSOEXT)) {
--            if (!linkedLibs.IsNull())
--               linkedLibs += " ";
--            linkedLibs += solib;
-+         Ssiz_t idx = solib.Index(sovers);
-+         if (solib.EndsWith(cSOEXT) || idx != kNPOS) {
-+            if (idx != kNPOS)
-+               solib.Remove(idx+3);
-+            if (!AccessPathName(solib, kReadPermission)) {
-+               if (!linkedLibs.IsNull())
-+                  linkedLibs += " ";
-+               linkedLibs += solib;
-+            }
-          }
-       }
-       delete tok;

root-core-The-old-TUUID-constructor-can-create-either-ver.patch

@@ -0,0 +1,27 @@
+From 2920a892a5db1c24bb8af34c63aacc1438a18247 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sun, 28 Jun 2026 16:54:54 +0200
+Subject: [PATCH 1/3] [core] The old TUUID constructor can create either
+ version 1 or 3
+
+Do not fail test if version 3 is returned.
+---
+ core/base/test/UUIDTest.cxx | 2 +-
+ 1 file changed, 1 insertion(+), 1 deletion(-)
+
+diff --git a/core/base/test/UUIDTest.cxx b/core/base/test/UUIDTest.cxx
+index dea3700052b..c834223f6d0 100644
+--- a/core/base/test/UUIDTest.cxx
++++ b/core/base/test/UUIDTest.cxx
+@@ -14,7 +14,7 @@ TEST(TUUID, UUIDv4)
+    EXPECT_EQ(10000u, uuids.size());
+ 
+    TUUID u;
+-   EXPECT_EQ('1', u.AsString()[14]);
++   EXPECT_TRUE('1' == u.AsString()[14] || '3' == u.AsString()[14]);
+    u = TUUID::UUIDv4();
+    std::string str = u.AsString();
+    EXPECT_EQ('4', str[14]);
+-- 
+2.54.0
+

root-dont-install-minicern.patch

@@ -0,0 +1,13 @@
+diff --git a/misc/minicern/CMakeLists.txt b/misc/minicern/CMakeLists.txt
+index bae895f701..8d721f97ab 100644
+--- a/misc/minicern/CMakeLists.txt
++++ b/misc/minicern/CMakeLists.txt
+@@ -2,7 +2,7 @@
+ # CMakeLists.txt file for building ROOT misc/minicern package
+ ############################################################################
+ 
+-ROOT_LINKER_LIBRARY(minicern *.c *.f TYPE STATIC)
++ROOT_LINKER_LIBRARY(minicern *.c *.f TYPE STATIC NOINSTALL)
+ set_property(TARGET minicern PROPERTY POSITION_INDEPENDENT_CODE ON)
+ target_link_libraries(minicern ${CMAKE_Fortran_IMPLICIT_LINK_LIBRARIES})
+ 

root-ftgl.patch

@@ -1,55 +0,0 @@
-diff -ur root-trunk.orig/configure root-trunk/configure
---- root-trunk.orig/configure	2010-12-04 00:23:49.000000000 +0100
-+++ root-trunk/configure	2010-12-04 19:40:46.810052008 +0100
-@@ -2502,13 +2502,13 @@
-          message "Checking for libftgl"
-          if pkg-config --exists ftgl ; then
-             result "ok"
--            message "Checking for ftgl version > 2.1.2"
-+            message "Checking for ftgl"
-             ftgl_version=`pkg-config --modversion ftgl | \
-             tr '.' ' ' | \
-             awk 'BEGIN { FS = " "; } \
-                { printf "%d", ($''1 * 1000 + $''2) * 1000 + $''3;}'`
-             # Use FTGL/ftgl.h when > 2.1.2
--            if test $ftgl_version -gt 2001002 ; then
-+            if test $ftgl_version -gt 0 ; then
-                result "ok"
-                ftglincdir=`pkg-config --cflags-only-I ftgl | sed 's/-I//g'`
-                ftgllibs=`pkg-config --libs-only-l ftgl`
-diff -ur root-trunk.orig/graf3d/gl/src/TGLFontManager.cxx root-trunk/graf3d/gl/src/TGLFontManager.cxx
---- root-trunk.orig/graf3d/gl/src/TGLFontManager.cxx	2010-11-03 22:51:45.000000000 +0100
-+++ root-trunk/graf3d/gl/src/TGLFontManager.cxx	2010-12-04 19:36:46.716052000 +0100
-@@ -25,7 +25,13 @@
- // Direct inclussion of FTGL headers is deprecated in ftgl-2.1.3 while
- // ftgl-2.1.2 shipped with ROOT requires manual inclusion.
- #ifndef BUILTIN_FTGL
--# include <FTGL/ftgl.h>
-+# include <FTGL/FTFont.h>
-+# include <FTGL/FTGLExtrdFont.h>
-+# include <FTGL/FTGLOutlineFont.h>
-+# include <FTGL/FTGLPolygonFont.h>
-+# include <FTGL/FTGLTextureFont.h>
-+# include <FTGL/FTGLPixmapFont.h>
-+# include <FTGL/FTGLBitmapFont.h>
- #else
- # include "FTFont.h"
- # include "FTGLExtrdFont.h"
-diff -ur root-trunk.orig/graf3d/gl/src/TGLText.cxx root-trunk/graf3d/gl/src/TGLText.cxx
---- root-trunk.orig/graf3d/gl/src/TGLText.cxx	2010-11-03 22:51:45.000000000 +0100
-+++ root-trunk/graf3d/gl/src/TGLText.cxx	2010-12-04 19:36:46.716052000 +0100
-@@ -23,7 +23,13 @@
- // Direct inclussion of FTGL headers is deprecated in ftgl-2.1.3 while
- // ftgl-2.1.2 shipped with ROOT requires manual inclusion.
- #ifndef BUILTIN_FTGL
--# include <FTGL/ftgl.h>
-+# include <FTGL/FTFont.h>
-+# include <FTGL/FTGLExtrdFont.h>
-+# include <FTGL/FTGLOutlineFont.h>
-+# include <FTGL/FTGLPolygonFont.h>
-+# include <FTGL/FTGLTextureFont.h>
-+# include <FTGL/FTGLPixmapFont.h>
-+# include <FTGL/FTGLBitmapFont.h>
- #else
- # include "FTFont.h"
- # include "FTGLExtrdFont.h"

root-get-src.sh

@@ -0,0 +1,6 @@
+#!/bin/sh
+VERSION=$1
+wget -N https://root.cern/download/root_v${VERSION}.source.tar.gz
+tar -z -x -f root_v${VERSION}.source.tar.gz
+find root-${VERSION}/fonts -type f -a '!' -name 'STIX*' -exec rm {} ';'
+tar -J -c --group root --owner root -f root-${VERSION}.tar.xz root-${VERSION}

root-html.C

@@ -1,35 +0,0 @@
-{
-  gEnv->SetValue("Root.DynamicPath", "@PWD@/lib");
-  gEnv->SetValue("Root.MacroPath", "@PWD@/macros");
-  gEnv->SetValue("Root.PluginPath", "@PWD@/etc/plugins");
-  gSystem->AddIncludePath("-I@PWD@/include");
-  gSystem->AddIncludePath("-I@PWD@/cint/cint/include");
-  gSystem->AddIncludePath("-I@PWD@/cint/cint/stl");
-  gSystem->AddIncludePath("-I@PWD@/cint/cint/lib");
-  gInterpreter->AddIncludePath("@PWD@/include");
-  gInterpreter->AddIncludePath("@PWD@/cint/cint/include");
-  gInterpreter->AddIncludePath("@PWD@/cint/cint/stl");
-  gInterpreter->AddIncludePath("@PWD@/cint/cint/lib");
-  #include <RtypesCint.h>
-  #include <iostream>
-  #include <string>
-  #include <DllImport.h>
-  gROOT->GetPluginManager()->LoadHandlersFromPluginDirs("");
-  gROOT->GetPluginManager()->AddHandler("TVirtualPS","image",
-					"TImageDump","Postscript",
-					"TImageDump()");
-  gROOT->GetPluginManager()->AddHandler("TVirtualStreamerInfo",
-					"*","TStreamerInfo",
-					"RIO","TStreamerInfo()");
-  gROOT->GetPluginManager()->AddHandler("TVirtualGraphPainter", "*",
-					"TGraphPainter","GraphPainter",
-					"TGraphPainter()");
-  delete (TFile*) gROOT->ProcessLine(".x tutorials/hsimple.C");
-  THtml html;
-  html.SetProductName("ROOT");
-  html.SetEtcDir("@PWD@/etc/html");
-  html.SetHomepage("http://root.cern.ch");
-  html.LoadAllLibs();
-  html.SetBatch(kTRUE);
-  html.MakeAll();
-}

root-includelist

@@ -1,11 +0,0 @@
-include $(MODULE)/Module.mk
-includelist:
-	@list=includelist-`tr / - <<< $(MODULE)` ; \
-	rm -f $$list ; \
-	for h in $(filter-out %.cw %.pri, $(ALLHDRS)) ; do \
-	    sed 's!^include!%{_includedir}/%{name}!' <<< $$h >> $$list ; \
-	done ; \
-	if [ -r $$list ] ; then \
-	    sort -u $$list > $$list.unique ; \
-	    mv $$list.unique $$list ; \
-	fi

root-memory-arm-x86.patch

@@ -0,0 +1,15 @@
+--- root-6.12.04.orig/interpreter/CMakeLists.txt	2017-12-13 08:27:42.000000000 +0100
++++ root-6.12.04/interpreter/CMakeLists.txt	2018-01-11 16:33:13.034850962 +0100
+@@ -75,6 +75,12 @@
+   set(CMAKE_MODULE_LINKER_FLAGS "${CMAKE_MODULE_LINKER_FLAGS} /ignore:4049,4206,4217,4221")
+ endif()
+ 
++# Reduce memory usage during linking on ARM and x86 by generating minimal debuginfo
++if(ROOT_ARCHITECTURE STREQUAL "linuxarm" OR ROOT_ARCHITECTURE STREQUAL "linux")
++  string(REPLACE " -g " " -g1 " CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS}")
++  string(REPLACE " -g " " -g1 " CMAKE_C_FLAGS "${CMAKE_C_FLAGS}")
++endif()
++
+ set(LLVM_TARGETS_TO_BUILD ${ROOT_CLING_TARGET} CACHE STRING "Semicolon-separated list of targets to build, or \"all\".")
+ 
+ if(clingtest)

root-meta.patch

@@ -1,44 +0,0 @@
-diff -ur root-5.32.00.orig/core/meta/src/TCint.cxx root-5.32.00/core/meta/src/TCint.cxx
---- root-5.32.00.orig/core/meta/src/TCint.cxx	2011-12-02 12:41:50.000000000 +0100
-+++ root-5.32.00/core/meta/src/TCint.cxx	2012-02-18 12:07:12.157520013 +0100
-@@ -320,23 +320,27 @@
-    ProcessLine("#define ROOT_TError 0");
-    ProcessLine("#define ROOT_TGenericClassInfo 0");   
- 
--   TString include;
--   // Add the root include directory to list searched by default
-+   Int_t includes = gEnv->GetValue("Cint.Includes", 1);
-+   if (includes > 0) {
-+      TString include;
-+      // Add the root include directory to list searched by default
- #ifndef ROOTINCDIR
--   include = gSystem->Getenv("ROOTSYS");
--   include.Append("/include");
-+      include = gSystem->Getenv("ROOTSYS");
-+      include.Append("/include");
- #else
--   include = ROOTINCDIR;
-+      include = ROOTINCDIR;
- #endif
--  TCint::AddIncludePath(include);
-+      TCint::AddIncludePath(include);
- 
--   // Allow the usage of ClassDef and ClassImp in interpreted macros
--   // if RtypesCint.h can be found (think of static executable without include/)
--  char* whichTypesCint = gSystem->Which(include, "RtypesCint.h");
--  if (whichTypesCint) {
--      ProcessLine("#include <RtypesCint.h>");
--      delete[] whichTypesCint;
--  }
-+      // Allow the usage of ClassDef and ClassImp in interpreted macros
-+      // if RtypesCint.h can be found (think of static executable without
-+      // include/)
-+      char* whichTypesCint = gSystem->Which(include, "RtypesCint.h");
-+      if (whichTypesCint) {
-+         ProcessLine("#include <RtypesCint.h>");
-+         delete[] whichTypesCint;
-+      }
-+   }
- 
- }
- 

root-no-export-python-modules.patch

@@ -0,0 +1,54 @@
+From ea7bed3a096949588b1b9086ddf66b2f7892a385 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Thu, 4 Dec 2025 23:13:28 +0100
+Subject: [PATCH] Dont export Python modules
+
+---
+ bindings/pyroot/cppyy/CPyCppyy/CMakeLists.txt | 3 +--
+ bindings/pyroot/pythonizations/CMakeLists.txt | 9 +--------
+ 2 files changed, 2 insertions(+), 10 deletions(-)
+
+diff --git a/bindings/pyroot/cppyy/CPyCppyy/CMakeLists.txt b/bindings/pyroot/cppyy/CPyCppyy/CMakeLists.txt
+index 95ca00bde9f..a12d3f05e4d 100644
+--- a/bindings/pyroot/cppyy/CPyCppyy/CMakeLists.txt
++++ b/bindings/pyroot/cppyy/CPyCppyy/CMakeLists.txt
+@@ -120,8 +120,7 @@ install(TARGETS CPyCppyy EXPORT ${CMAKE_PROJECT_NAME}Exports
+                             LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR} COMPONENT libraries
+                             ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR} COMPONENT libraries)
+ 
+-install(TARGETS cppyy EXPORT ${CMAKE_PROJECT_NAME}Exports
+-                            RUNTIME DESTINATION ${CPPYY_INSTALL_DIR} COMPONENT libraries # Windows
++install(TARGETS cppyy       RUNTIME DESTINATION ${CPPYY_INSTALL_DIR} COMPONENT libraries # Windows
+                             LIBRARY DESTINATION ${CPPYY_INSTALL_DIR} COMPONENT libraries
+                             ARCHIVE DESTINATION ${CPPYY_INSTALL_DIR} COMPONENT libraries)
+ 
+diff --git a/bindings/pyroot/pythonizations/CMakeLists.txt b/bindings/pyroot/pythonizations/CMakeLists.txt
+index 32d7d54b8da..5128e6d337c 100644
+--- a/bindings/pyroot/pythonizations/CMakeLists.txt
++++ b/bindings/pyroot/pythonizations/CMakeLists.txt
+@@ -63,12 +63,6 @@ if(NOT MSVC)
+   target_compile_options(${libname} PRIVATE -Wno-strict-aliasing)
+ endif()
+ 
+-
+-# Create meta-target PyROOT3 (INTERFACE library)
+-# Export of targets are not supported for custom targets(add_custom_targets())
+-add_library(PyROOT INTERFACE)
+-target_link_libraries(PyROOT INTERFACE cppyy_backend cppyy ROOTPythonizations)
+-
+ # Define library output directories for build and install trees
+ set(pymoduledir_build "${localruntimedir}/ROOT")
+ set(pymoduledir_install "${CMAKE_INSTALL_PYTHONDIR}/ROOT")
+@@ -93,8 +87,7 @@ if(NOT MSVC)
+ endif()
+ 
+ # Install library
+-install(TARGETS ${libname} EXPORT ${CMAKE_PROJECT_NAME}Exports
+-                            RUNTIME DESTINATION ${pymoduledir_install} COMPONENT libraries
++install(TARGETS ${libname}  RUNTIME DESTINATION ${pymoduledir_install} COMPONENT libraries
+                             LIBRARY DESTINATION ${pymoduledir_install}  COMPONENT libraries
+                             ARCHIVE DESTINATION ${pymoduledir_install} COMPONENT libraries)
+ 
+-- 
+2.55.0
+

root-pdf-Fix-calculation-of-kerning-distances-in-generate.patch

@@ -0,0 +1,68 @@
+From 87e5571eef573a1ab802c9b5b68e4215045689b9 Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sat, 29 Aug 2026 13:15:53 +0200
+Subject: [PATCH] [pdf] Fix calculation of kerning distances in generated PDF
+ files
+
+Note that this uses the system fonts on Fedora rather than the bundled
+fonts in the root sources.
+
+Using the following test program
+
+void ttest()
+{
+  auto c = new TCanvas("c", "", 300, 100);
+  auto t = new TText(0.1, 0.4, "Raw assymmetry");
+  t->SetTextSize(0.5);
+  t->SetTextFont(132);
+  t->Draw();
+  c->Print("ttest.pdf");
+  c->Print("ttest.eps");
+  c->Print("ttest.png");
+}
+
+The .eps and .png images look like expected. But the .pdf image only
+shows the initial capital "R", not the full "Raw assymmetry" text.
+
+After decompressing the generated .pdf file:
+
+cpdf -decompress ttest.pdf -o ttest.dec.pdf
+
+the decompressed file shows that the kerning distances are incorrect:
+
+[(R)  -2147483648(a)  24(w)  -2147483648( )  0(a)  0(s)  -2147483648(s)  17(y)  0(m)  0(m)  8(e)  8(t)  0(r)  -2147483648(y) ]
+
+Something has clearly gone wrong here. -2147483648 is the minimum
+value that can be stored in a 16 bit signed integer.
+
+The origin of the problem is a calculation of a difference between a
+UInt_t (i.e. unsigned) value and an Int_t (i.e. signed) value in the
+TPDF::Text() method. Casting the UInt_t to an Int_t before calculating
+the difference, as done in this commit, fixes the problem. With this
+change the kerning distances are better:
+
+[(R)  -2(a)  24(w)  -2( )  0(a)  0(s)  -2(s)  17(y)  0(m)  0(m)  8(e)  8(t)  0(r)  -2(y) ]
+
+and the generated .pdf file shows the complete text. The generated
+.png and .eps files do not change (except for the time stamp in the
+.eps file).
+---
+ graf2d/postscript/src/TPDF.cxx | 2 +-
+ 1 file changed, 1 insertion(+), 1 deletion(-)
+
+diff --git a/graf2d/postscript/src/TPDF.cxx b/graf2d/postscript/src/TPDF.cxx
+index 21a2506010f..e1cd9b10d10 100644
+--- a/graf2d/postscript/src/TPDF.cxx
++++ b/graf2d/postscript/src/TPDF.cxx
+@@ -1943,7 +1943,7 @@ void TPDF::Text(Double_t xx, Double_t yy, const char *chars)
+             tmp[0] = chars[i-1];
+             UInt_t width=0;
+             t.GetTextAdvance(width, &tmp[0], kFALSE);
+-            Double_t wwl = gPad->AbsPixeltoX(width - charDeltas[i]) - gPad->AbsPixeltoX(0);
++            Double_t wwl = gPad->AbsPixeltoX((Int_t)width - charDeltas[i]) - gPad->AbsPixeltoX(0);
+             wwl -= 0.5*(gPad->AbsPixeltoX(1) - gPad->AbsPixeltoX(0)); // half a pixel ~ rounding error
+             charDeltas[i] = (Int_t)((1000.0/Float_t(fontsize))*(XtoPDF(wwl) - XtoPDF(0))/scale);
+         }
+-- 
+2.55.0
+

root-testfiles.sh

@@ -0,0 +1,87 @@
+#! /bin/sh
+
+SITE="https://root.cern/files"
+
+mkdir files
+pushd files
+
+wget -N ${SITE}/aleph_ref_5.root
+wget -N ${SITE}/aleph.root
+wget -N ${SITE}/alice3_ref_6.root
+wget -N ${SITE}/alice3.root
+wget -N ${SITE}/ams_ref_4.root
+wget -N ${SITE}/ams.root
+wget -N ${SITE}/atlas_ref_6.root
+wget -N ${SITE}/atlas.root
+wget -N ${SITE}/babar2_ref_4.root
+wget -N ${SITE}/babar2.root
+wget -N ${SITE}/barres_ref_3.root
+wget -N ${SITE}/barres.root
+wget -N ${SITE}/belle_ref_3.root
+wget -N ${SITE}/belle.root
+wget -N ${SITE}/bes_ref_3.root
+wget -N ${SITE}/bes.root
+wget -N ${SITE}/brahms_ref_3.root
+wget -N ${SITE}/brahms.root
+wget -N ${SITE}/btev_ref_3.root
+wget -N ${SITE}/btev.root
+wget -N ${SITE}/cdf_ref_6.root
+wget -N ${SITE}/cdf.root
+wget -N ${SITE}/chambers_ref_3.root
+wget -N ${SITE}/chambers.root
+wget -N ${SITE}/cms_ref_4.root
+wget -N ${SITE}/cms.root
+wget -N ${SITE}/dubna_ref_3.root
+wget -N ${SITE}/dubna.root
+wget -N ${SITE}/e907_ref_3.root
+wget -N ${SITE}/e907.root
+wget -N ${SITE}/felix_ref_3.root
+wget -N ${SITE}/felix.root
+wget -N ${SITE}/ganil_ref_3.root
+wget -N ${SITE}/ganil.root
+wget -N ${SITE}/gem_ref_5.root
+wget -N ${SITE}/gem.root
+wget -N ${SITE}/hades2_ref_4.root
+wget -N ${SITE}/hades2.root
+wget -N ${SITE}/hermes_ref_3.root
+wget -N ${SITE}/hermes.root
+wget -N ${SITE}/integral_ref_4.root
+wget -N ${SITE}/integral.root
+wget -N ${SITE}/lhcbfull_ref_4.root
+wget -N ${SITE}/lhcbfull.root
+wget -N ${SITE}/na35_ref_3.root
+wget -N ${SITE}/na35.root
+wget -N ${SITE}/na47_ref_3.root
+wget -N ${SITE}/na47.root
+wget -N ${SITE}/na49_ref_3.root
+wget -N ${SITE}/na49.root
+wget -N ${SITE}/p326_ref_4.root
+wget -N ${SITE}/p326.root
+wget -N ${SITE}/phenix_ref_3.root
+wget -N ${SITE}/phenix.root
+wget -N ${SITE}/phobos2_ref_4.root
+wget -N ${SITE}/phobos2.root
+wget -N ${SITE}/sdc_ref_3.root
+wget -N ${SITE}/sdc.root
+wget -N ${SITE}/sld_ref_4.root
+wget -N ${SITE}/sld.root
+wget -N ${SITE}/star_ref_4.root
+wget -N ${SITE}/star.root
+wget -N ${SITE}/tesla_ref_4.root
+wget -N ${SITE}/tesla.root
+wget -N ${SITE}/wa91_ref_3.root
+wget -N ${SITE}/wa91.root
+
+wget -N ${SITE}/europe.root
+wget -N ${SITE}/usa.root
+
+for f in *.root ; do ln -s $f $f.ROOT.cachefile ; done
+
+mkdir tutorials
+pushd tutorials
+wget -N ${SITE}/tutorials/df014_CsvDataSource_MuRun2010B.csv
+popd
+
+popd
+
+tar -J -c --group root --owner root -f root-testfiles.tar.xz files

root-tmva-sofie-Complete-big-endian-support-for-ONNX-init.patch

@@ -0,0 +1,146 @@
+From 2fec5822e305b9b203894aa0fe3e4dded1f673cc Mon Sep 17 00:00:00 2001
+From: Jonas Rembser <jonas.rembser@cern.ch>
+Date: Wed, 8 Jul 2026 11:13:16 +0200
+Subject: [PATCH] [tmva][sofie] Complete big-endian support for ONNX
+ initializer tensors
+MIME-Version: 1.0
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+
+Follow-up to the last commit ("[tmva][sofie] Fix big endian"), which
+byte-swapped raw_data initializers on big-endian platforms but left a
+few gaps:
+
+- Initializers with data_location == EXTERNAL were still read from the
+  external weights file without swapping, silently producing
+  byte-reversed weights on big-endian machines.
+
+- The type switch only handled FLOAT, DOUBLE, INT32 and INT64. One-byte
+  types (BOOL, UINT8, INT8), which parse fine on little-endian via
+  plain memcpy, now threw on big-endian, and the other fixed-width
+  types (INT16, UINT16, UINT32, UINT64) were rejected as well.
+
+- The swap loops dereferenced the protobuf string buffer through
+  reinterpret_cast'ed uint32_t*/uint64_t* pointers, which is a
+  misaligned access on strict-alignment targets (e.g. SPARC) since
+  the buffer carries no alignment guarantee.
+
+Replace the four copy-pasted swap loops with a width-dispatched helper,
+CopyLEToHost, that plain-copies 1-byte element types and byte-swaps
+2/4/8-byte elements through a memcpy'd temporary (no misaligned loads,
+valid for in-place use), and call it from both the raw_data and the
+external-data paths.
+
+🤖 Done with the help of AI
+---
+ tmva/sofie_parsers/src/RModelParser_ONNX.cxx | 73 ++++++++++++--------
+ 1 file changed, 45 insertions(+), 28 deletions(-)
+
+diff --git a/tmva/sofie_parsers/src/RModelParser_ONNX.cxx b/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
+index ac4cc7d5740..1c14d12ba30 100644
+--- a/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
++++ b/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
+@@ -4,6 +4,7 @@
+ 
+ #include <stdexcept>
+ #include <string>
++#include <cstring>
+ #include <memory>
+ #include <cassert>
+ #include <iostream>
+@@ -155,6 +156,45 @@ struct ExtractDataFromTP<int64_t> {
+    }
+ };
+ 
++#ifndef R__BYTESWAP
++namespace {
++
++// Copy nbytes from source to dest, byte-swapping each N-byte element. The
++// temporary avoids misaligned loads from the protobuf string buffer and makes
++// in-place swapping (dest == source) valid.
++template <std::size_t N>
++void CopyBswap(void *dest, const void *source, std::size_t nbytes)
++{
++   using value_type = typename RByteSwap<N>::value_type;
++   auto dst = static_cast<unsigned char *>(dest);
++   auto src = static_cast<const unsigned char *>(source);
++   for (std::size_t k = 0; k < nbytes; k += N) {
++      value_type v;
++      std::memcpy(&v, src + k, N);
++      v = RByteSwap<N>::bswap(v);
++      std::memcpy(dst + k, &v, N);
++   }
++}
++
++// Copy a buffer of little-endian tensor elements to host (big-endian) byte order
++void CopyLEToHost(void *dest, const void *source, std::size_t nbytes, ETensorType tensor_type)
++{
++   switch (GetTypeSize(tensor_type)) {
++   case 1:
++      if (dest != source)
++         std::memcpy(dest, source, nbytes);
++      break;
++   case 2: CopyBswap<2>(dest, source, nbytes); break;
++   case 4: CopyBswap<4>(dest, source, nbytes); break;
++   case 8: CopyBswap<8>(dest, source, nbytes); break;
++   default:
++      throw std::runtime_error("Data type " + ConvertTypeToString(tensor_type) + " in tensor is not supported!\n");
++   }
++}
++
++} // anonymous namespace
++#endif
++
+ std::shared_ptr<void> RModelParser_ONNX::GetInitializedTensorData(onnx::TensorProto *tensorproto, size_t tensor_size, ETensorType tensor_type)
+ {
+ 
+@@ -172,34 +212,7 @@ std::shared_ptr<void> RModelParser_ONNX::GetInitializedTensorData(onnx::TensorPr
+          std::memcpy(data.get(), tensorproto->raw_data().c_str(), tensor_size);
+ #else
+          // big-endian architectures - need to swap bytes
+-         switch (tensor_type) {
+-            case ETensorType::FLOAT:
+-               for (std::size_t k = 0; k < tensor_size / sizeof(float); ++k)
+-                  (reinterpret_cast<typename RByteSwap<sizeof(float)>::value_type *>(data.get()))[k] =
+-                     RByteSwap<sizeof(float)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(float)>::value_type *>(
+-                        tensorproto->raw_data().c_str()))[k]);
+-               break;
+-            case ETensorType::DOUBLE:
+-               for (std::size_t k = 0; k < tensor_size / sizeof(double); ++k)
+-                  (reinterpret_cast<typename RByteSwap<sizeof(double)>::value_type *>(data.get()))[k] =
+-                     RByteSwap<sizeof(double)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(double)>::value_type *>(
+-                        tensorproto->raw_data().c_str()))[k]);
+-               break;
+-            case ETensorType::INT32:
+-               for (std::size_t k = 0; k < tensor_size / sizeof(int32_t); ++k)
+-                  (reinterpret_cast<typename RByteSwap<sizeof(int32_t)>::value_type *>(data.get()))[k] =
+-                     RByteSwap<sizeof(int32_t)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(int32_t)>::value_type *>(
+-                        tensorproto->raw_data().c_str()))[k]);
+-               break;
+-            case ETensorType::INT64:
+-               for (std::size_t k = 0; k < tensor_size / sizeof(int64_t); ++k)
+-                  (reinterpret_cast<typename RByteSwap<sizeof(int64_t)>::value_type *>(data.get()))[k] =
+-                     RByteSwap<sizeof(int64_t)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(int64_t)>::value_type *>(
+-                        tensorproto->raw_data().c_str()))[k]);
+-               break;
+-            default:
+-               throw std::runtime_error("Data type " + ConvertTypeToString(tensor_type) + " in tensor is not supported!\n");
+-         }
++         CopyLEToHost(data.get(), tensorproto->raw_data().c_str(), tensor_size, tensor_type);
+ #endif
+       } else {
+          // case tensor data are stored as specific types and not in raw_data
+@@ -262,6 +275,10 @@ std::shared_ptr<void> RModelParser_ONNX::GetInitializedTensorData(onnx::TensorPr
+ 
+       fDataFile.seekg(offset);
+       fDataFile.read(reinterpret_cast<char *>(data.get()), buffer_size);
++#ifndef R__BYTESWAP
++      // external data is stored little-endian like raw_data - swap in place
++      CopyLEToHost(data.get(), data.get(), buffer_size, tensor_type);
++#endif
+    }
+ 
+    return data;
+-- 
+2.55.0
+

root-tmva-sofie-Fix-big-endian.patch

@@ -0,0 +1,68 @@
+From 8554bf49749efd8de5538bf99c12a04d2691102d Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sun, 28 Jun 2026 16:49:23 +0200
+Subject: [PATCH] [tmva][sofie] Fix big endian
+
+---
+ tmva/sofie_parsers/src/RModelParser_ONNX.cxx | 36 ++++++++++++++++----
+ 1 file changed, 30 insertions(+), 6 deletions(-)
+
+diff --git a/tmva/sofie_parsers/src/RModelParser_ONNX.cxx b/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
+index aa196c510ad..ac4cc7d5740 100644
+--- a/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
++++ b/tmva/sofie_parsers/src/RModelParser_ONNX.cxx
+@@ -172,13 +172,37 @@ std::shared_ptr<void> RModelParser_ONNX::GetInitializedTensorData(onnx::TensorPr
+          std::memcpy(data.get(), tensorproto->raw_data().c_str(), tensor_size);
+ #else
+          // big-endian architectures - need to swap bytes
+-         for (std::size_t k = 0; k < tensor_size; ++k)
+-            (reinterpret_cast<typename RByteSwap<sizeof(uint8_t)>::value_type *>(data.get()))[k] =
+-               RByteSwap<sizeof(T)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(uint8_t)>::value_type *>(
+-                  tensorproto->raw_data().c_str()))[k]);
++         switch (tensor_type) {
++            case ETensorType::FLOAT:
++               for (std::size_t k = 0; k < tensor_size / sizeof(float); ++k)
++                  (reinterpret_cast<typename RByteSwap<sizeof(float)>::value_type *>(data.get()))[k] =
++                     RByteSwap<sizeof(float)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(float)>::value_type *>(
++                        tensorproto->raw_data().c_str()))[k]);
++               break;
++            case ETensorType::DOUBLE:
++               for (std::size_t k = 0; k < tensor_size / sizeof(double); ++k)
++                  (reinterpret_cast<typename RByteSwap<sizeof(double)>::value_type *>(data.get()))[k] =
++                     RByteSwap<sizeof(double)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(double)>::value_type *>(
++                        tensorproto->raw_data().c_str()))[k]);
++               break;
++            case ETensorType::INT32:
++               for (std::size_t k = 0; k < tensor_size / sizeof(int32_t); ++k)
++                  (reinterpret_cast<typename RByteSwap<sizeof(int32_t)>::value_type *>(data.get()))[k] =
++                     RByteSwap<sizeof(int32_t)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(int32_t)>::value_type *>(
++                        tensorproto->raw_data().c_str()))[k]);
++               break;
++            case ETensorType::INT64:
++               for (std::size_t k = 0; k < tensor_size / sizeof(int64_t); ++k)
++                  (reinterpret_cast<typename RByteSwap<sizeof(int64_t)>::value_type *>(data.get()))[k] =
++                     RByteSwap<sizeof(int64_t)>::bswap((reinterpret_cast<const typename RByteSwap<sizeof(int64_t)>::value_type *>(
++                        tensorproto->raw_data().c_str()))[k]);
++               break;
++            default:
++               throw std::runtime_error("Data type " + ConvertTypeToString(tensor_type) + " in tensor is not supported!\n");
++         }
+ #endif
+       } else {
+-         // case tensor data are stored as specific types and now in raw_data
++         // case tensor data are stored as specific types and not in raw_data
+          switch (tensor_type) {
+             case ETensorType::FLOAT: {
+                ExtractDataFromTP<float>::Copy(tensorproto, data.get(), tensor_size/ 4);
+@@ -200,7 +224,7 @@ std::shared_ptr<void> RModelParser_ONNX::GetInitializedTensorData(onnx::TensorPr
+                throw std::runtime_error("TMVA::SOFIE - ExtractData from TP in BOOL not supported");
+                break;
+             }
+-             case ETensorType::UINT8: {
++            case ETensorType::UINT8: {
+                throw std::runtime_error("TMVA::SOFIE - ExtractData from TP in UINT8 not supported");
+                break;
+             }
+-- 
+2.54.0
+

root-tree-df-Do-not-fail-test-on-32-bit-due-to-mis-aligne.patch

@@ -0,0 +1,25 @@
+From 58b38e29586975e714deee6ac195b286eb9a73cf Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sun, 28 Jun 2026 16:59:36 +0200
+Subject: [PATCH 2/3] [tree][df] Do not fail test on 32 bit due to mis-aligned
+ atomic
+
+---
+ tree/dataframe/test/dataframe_hist.cxx | 1 +
+ 1 file changed, 1 insertion(+)
+
+diff --git a/tree/dataframe/test/dataframe_hist.cxx b/tree/dataframe/test/dataframe_hist.cxx
+index f5fe396b50d..7a2c6659a84 100644
+--- a/tree/dataframe/test/dataframe_hist.cxx
++++ b/tree/dataframe/test/dataframe_hist.cxx
+@@ -31,6 +31,7 @@ public:
+    RDFHist()
+    {
+       fDiag.optionalDiag(kWarning, "", "Filling RHist is experimental", /*matchFullMessage=*/false);
++      fDiag.optionalDiag(kWarning, "cling", "expected alignment (8 bytes) exceeds the actual alignment (4 bytes) [-Watomic-alignment]", false);
+       if (GetParam())
+          ROOT::EnableImplicitMT(4);
+    }
+-- 
+2.54.0
+

root-tree-nt-Compare-size-to-the-size-of-the-struct.patch

@@ -0,0 +1,32 @@
+From 07cbb0515e4f45808696037adce7c0f1bc5e903d Mon Sep 17 00:00:00 2001
+From: Mattias Ellert <mattias.ellert@physics.uu.se>
+Date: Sun, 28 Jun 2026 17:01:40 +0200
+Subject: [PATCH 3/3] [tree][nt] Compare size to the size of the struct
+
+Do not assume it is 2 * sizeof(double), which is not true on 32 bit.
+---
+ tree/ntuple/test/ntuple_modelext.cxx | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/tree/ntuple/test/ntuple_modelext.cxx b/tree/ntuple/test/ntuple_modelext.cxx
+index 8ec3886f921..ef27e844e84 100644
+--- a/tree/ntuple/test/ntuple_modelext.cxx
++++ b/tree/ntuple/test/ntuple_modelext.cxx
+@@ -810,12 +810,12 @@ TEST(RNTuple, ModelExtensionRecordNested)
+       modelUpdater->AddField(std::make_unique<RField<double>>("ptHP"), "r1.r2.r3.r4");
+       modelUpdater->CommitUpdate();
+ 
+-      EXPECT_EQ(2 * sizeof(double), writer->GetModel().GetConstField("r1").GetValueSize());
+-      entry = writer->CreateEntry();
+       struct FloatAndDouble {
+          float pt;
+          double ptHP;
+       };
++      EXPECT_EQ(sizeof(FloatAndDouble), writer->GetModel().GetConstField("r1").GetValueSize());
++      entry = writer->CreateEntry();
+ 
+       auto ptrFloatAndDouble = static_cast<FloatAndDouble *>(entry->GetPtr<void>("r1").get());
+       ptrFloatAndDouble->pt = 2.0;
+-- 
+2.54.0
+

root-unuran.patch

@@ -1,39 +0,0 @@
-diff -ur root-trunk.orig/math/unuran/Module.mk root-trunk/math/unuran/Module.mk
---- root-trunk.orig/math/unuran/Module.mk	2010-11-25 20:41:32.000000000 +0100
-+++ root-trunk/math/unuran/Module.mk	2010-11-25 20:51:47.190704977 +0100
-@@ -20,7 +20,7 @@
- UNURANETAG   := $(call stripsrc,$(UNURANDIRS)/headers.d)
- UNRCFG       := $(call stripsrc,$(UNURANDIRS)/$(UNRVERS)/config.h)
- 
--UNRTARCONTENT:=$(subst $(UNRVERS),$(UNRDIRS),$(shell mkdir -p $(UNRDIR); cd $(UNRDIR); gunzip -c $(UNRSRCS) | tar tf -))
-+UNRTARCONTENT:=
- UNRS         := $(filter %.c, \
-                 $(filter $(UNRDIRS)/src/utils/%,$(UNRTARCONTENT)) \
-                 $(filter $(UNRDIRS)/src/methods/%,$(UNRTARCONTENT)) \
-@@ -69,10 +69,9 @@
- ##### local rules #####
- .PHONY:         all-$(MODNAME) clean-$(MODNAME) distclean-$(MODNAME)
- 
--include/%.h: 	$(UNURANDIRI)/%.h $(UNURANETAG)
-+include/%.h: 	$(UNURANDIRI)/%.h
- 		cp $< $@
- 
--$(UNURANDEP):   $(UNRCFG)
- $(UNRS):        $(UNURANETAG)
- 
- $(UNURANETAG):	$(UNRSRCS)
-@@ -125,12 +124,12 @@
- 		GNUMAKE=$(MAKE) ./configure  CC="$$ACC"  \
- 		CFLAGS="$$ACFLAGS");
- 
--$(UNURANLIB):   $(UNRCFG) $(UNRO) $(UNURANO) $(UNURANDO) $(ORDER_) \
-+$(UNURANLIB):   $(UNURANO) $(UNURANDO) $(ORDER_) \
-                 $(MAINLIBS) $(UNURANLIBDEP)
- 		@$(MAKELIB) $(PLATFORM) $(LD) "$(LDFLAGS)"  \
- 		   "$(SOFLAGS)" libUnuran.$(SOEXT) $@     \
- 		   "$(UNURANO) $(UNURANDO)"             \
--		   "$(UNURANLIBEXTRA) $(UNRO)"
-+		   "$(UNURANLIBEXTRA) -lunuran"
- 
- $(UNURANDS):    $(UNRINIT) $(UNURANDH1) $(UNURANL) $(ROOTCINTTMPDEP)
- 		$(MAKEDIR)

root-xrootd.patch

@@ -1,70 +0,0 @@
-diff -ur root-5.30.04.orig/configure root-5.30.04/configure
---- root-5.30.04.orig/configure	2011-11-08 14:28:55.000000000 +0100
-+++ root-5.30.04/configure	2011-11-16 05:48:21.224144395 +0100
-@@ -4424,13 +4424,15 @@
-     if test "x$externalxrd" = "xyes"; then
-        buildxrd="no"
-        # Check if bonjour is available for code potentially using it ...
--       if test "x$enable_bonjour" = "xyes"; then
--          check_symbol XrdOucBonjour "libXrdOuc.a" "$xrdlibdir"
--          if test  $found_symbol -eq 0 ; then
--             bjrcomm="External xrootd has no bonjour support: disabling bonjour in XrdProofd"
--             bonjourcppflags=
--          fi
--       fi
-+       ## This test is broken and will always fail.
-+       ##if test "x$enable_bonjour" = "xyes"; then
-+       ##   check_symbol XrdOucBonjour "libXrdOuc.a" "$xrdlibdir"
-+       ##   if test  $found_symbol -eq 0 ; then
-+       ##      bjrcomm="External xrootd has no bonjour support: disabling bonjour in XrdProofd"
-+       ##      bonjourcppflags=
-+       ##   fi
-+       ##fi
-+       bonjourcppflags=
-     fi
- else
-     buildxrd="no"
-diff -ur root-5.30.04.orig/proof/proofd/Module.mk root-5.30.04/proof/proofd/Module.mk
---- root-5.30.04.orig/proof/proofd/Module.mk	2011-11-08 14:28:15.000000000 +0100
-+++ root-5.30.04/proof/proofd/Module.mk	2011-11-16 07:29:54.315314349 +0100
-@@ -129,12 +129,10 @@
- XPDINCEXTRA    += $(PROOFDDIRI:%=-I%)
- ifeq ($(HASXRDUTILS),no)
- 
--XPDLIBEXTRA    += -L$(XROOTDDIRL) -lXrdOuc -lXrdNet -lXrdSys \
--                  -lXrdClient -lXrdSut $(DNSSDLIB)
--XPROOFDEXELIBS := $(XROOTDDIRL)/libXrd.a $(XROOTDDIRL)/libXrdClient.a \
--                  $(XROOTDDIRL)/libXrdNet.a \
--                  $(XROOTDDIRL)/libXrdOuc.a \
--                  $(XROOTDDIRL)/libXrdSys.a $(XROOTDDIRL)/libXrdSut.a
-+XPDLIBEXTRA    += -L$(XROOTDDIRL) -lXrd -lXrdClient -lXrdSut \
-+                  -lXrdNet -lXrdOuc -lXrdSys $(DNSSDLIB)
-+XPROOFDEXELIBS := -L$(XROOTDDIRL) -lXrd -lXrdClient -lXrdSut \
-+                  -lXrdNet -lXrdOuc -lXrdSys
- # Starting from Jul 2010 XrdNet has been split in two libs: XrdNet and XrdNetUtil;
- # both are needed
- XRDNETUTIL     :=
-@@ -144,8 +142,8 @@
-                           fi)
- endif
- ifeq ($(XRDNETUTIL),yes)
--XPDLIBEXTRA    += -L$(XROOTDDIRL) -lXrdNetUtil
--XPROOFDEXELIBS += $(XROOTDDIRL)/libXrdNetUtil.a
-+XPDLIBEXTRA    += -lXrdNetUtil
-+XPROOFDEXELIBS += -lXrdNetUtil
- endif
- 
- else
-@@ -191,10 +189,10 @@
- 		$(LD) $(LDFLAGS) -o $@ $(PROOFDEXEO) $(RPDUTILO) $(GLBPATCHO) \
- 		   $(RSAO) $(SNPRINTFO) $(CRYPTLIBS) $(AUTHLIBS) $(STRLCPYO) $(SYSLIBS)
- 
--$(XPROOFDEXE):  $(XPDO) $(XPROOFDEXELIBS) $(XRDPROOFXD) $(RPDCONNO)
-+$(XPROOFDEXE):  $(XPDO) $(XRDPROOFXD) $(RPDCONNO)
- 		$(LD) $(LDFLAGS) -o $@ $(XPDO) $(RPDCONNO) $(XPROOFDEXELIBS) $(SYSLIBS) $(XPROOFDEXESYSLIBS)
- 
--$(XPDLIB):      $(XPDO) $(XPDH) $(ORDER_) $(XPROOFDEXELIBS) $(MAINLIBS) $(XRDPROOFXD) $(RPDCONNO)
-+$(XPDLIB):      $(XPDO) $(XPDH) $(ORDER_) $(MAINLIBS) $(XRDPROOFXD) $(RPDCONNO)
- 		@$(MAKELIB) $(PLATFORM) $(LD) "$(LDFLAGS)" \
- 		   "$(SOFLAGS)" libXrdProofd.$(SOEXT) $@ "$(XPDO) $(RPDCONNO)" \
- 		   "$(XPDLIBEXTRA)"

root.desktop

@@ -0,0 +1,11 @@
+[Desktop Entry]
+Name=Root
+GenericName=Root
+Comment=Numerical data analysis framework
+Exec=root
+Icon=root
+Terminal=true
+Type=Application
+MimeType=application/x-root;
+Categories=Utility;
+Encoding=UTF-8

root.xml

@@ -0,0 +1,15 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<mime-info xmlns="http://www.freedesktop.org/standards/shared-mime-info">
+  <mime-type type="application/x-root">
+    <comment>ROOT data file</comment>
+    <comment xml:lang="de">ROOT Datei</comment>
+    <comment xml:lang="fr">ROOT banque de donnees</comment>
+    <comment xml:lang="sv">ROOT data fil</comment>
+    <comment xml:lang="no">ROOT data fil</comment>
+    <comment xml:lang="da">ROOT data fil</comment>
+    <glob pattern="*.root"/>
+    <magic priority="80">
+      <match type="string" value="ROOT" offset="0:3"/>
+    </magic>
+  </mime-type>
+</mime-info>

sources

@@ -1 +1,3 @@
-0a0e24e890f33b3606f8983fe8765a09  root-5.30.06.tar.gz
+SHA512 (root-6.40.04.tar.xz) = 674ea3de3f58d3bde15637925bec80984552cb5c4f6259ec68c2f7dc566014d9a3b2ee005e0f89b5cf20d9e5188dc5c9185d886a6701e315bb4771b068939282
+SHA512 (root-testfiles.tar.xz) = 4bb7f8ca00b1427ba49f6428e9cfe5908a2ffdd2ce4134d3bc169a0629198352b5500fe0cf92c121d148e5af41f7016c96038a77794a4d37d94e6ec0a9d75670
+SHA512 (clad-2.3.tar.gz) = 2d7e008ad88dd9e4b44d73e3187f8b1883e475845f5ac2d3b2c8e728508422e1e60e279940fefe322995751490f61f7d4768498c3660f9afa1206cc0e83bea33