py-iterative-stats: add 0.1.1 (#48959)

Signed-off-by: Howard Pritchard <howardp@lanl.gov>

lib/spack/llnl/util/tty/log.py

@@ -344,26 +344,6 @@ def close(self):
             self.file.close()
 
 
-@contextmanager
-def replace_environment(env):
-    """Replace the current environment (`os.environ`) with `env`.
-
-    If `env` is empty (or None), this unsets all current environment
-    variables.
-    """
-    env = env or {}
-    old_env = os.environ.copy()
-    try:
-        os.environ.clear()
-        for name, val in env.items():
-            os.environ[name] = val
-        yield
-    finally:
-        os.environ.clear()
-        for name, val in old_env.items():
-            os.environ[name] = val
-
-
 def log_output(*args, **kwargs):
     """Context manager that logs its output to a file.
 
@@ -447,7 +427,6 @@ def __init__(
         self.echo = echo
         self.debug = debug
         self.buffer = buffer
-        self.env = env  # the environment to use for _writer_daemon
         self.filter_fn = filter_fn
 
         self._active = False  # used to prevent re-entry
@@ -519,21 +498,20 @@ def __enter__(self):
                 # just don't forward input if this fails
                 pass
 
-            with replace_environment(self.env):
-                self.process = multiprocessing.Process(
-                    target=_writer_daemon,
-                    args=(
-                        input_fd,
-                        read_fd,
-                        self.write_fd,
-                        self.echo,
-                        self.log_file,
-                        child_pipe,
-                        self.filter_fn,
-                    ),
-                )
-                self.process.daemon = True  # must set before start()
-                self.process.start()
+            self.process = multiprocessing.Process(
+                target=_writer_daemon,
+                args=(
+                    input_fd,
+                    read_fd,
+                    self.write_fd,
+                    self.echo,
+                    self.log_file,
+                    child_pipe,
+                    self.filter_fn,
+                ),
+            )
+            self.process.daemon = True  # must set before start()
+            self.process.start()
 
         finally:
             if input_fd:
@@ -729,10 +707,7 @@ class winlog:
     Does not support the use of 'v' toggling as nixlog does.
     """
 
-    def __init__(
-        self, file_like=None, echo=False, debug=0, buffer=False, env=None, filter_fn=None
-    ):
-        self.env = env
+    def __init__(self, file_like=None, echo=False, debug=0, buffer=False, filter_fn=None):
         self.debug = debug
         self.echo = echo
         self.logfile = file_like
@@ -789,11 +764,10 @@ def background_reader(reader, echo_writer, _kill):
                     reader.close()
 
             self._active = True
-            with replace_environment(self.env):
-                self._thread = Thread(
-                    target=background_reader, args=(self.reader, self.echo_writer, self._kill)
-                )
-                self._thread.start()
+            self._thread = Thread(
+                target=background_reader, args=(self.reader, self.echo_writer, self._kill)
+            )
+            self._thread.start()
         return self
 
     def __exit__(self, exc_type, exc_val, exc_tb):

lib/spack/spack/installer.py

@@ -2436,11 +2436,7 @@ def _real_install(self) -> None:
                     # DEBUGGING TIP - to debug this section, insert an IPython
                     # embed here, and run the sections below without log capture
                     log_contextmanager = log_output(
-                        log_file,
-                        self.echo,
-                        True,
-                        env=self.unmodified_env,
-                        filter_fn=self.filter_fn,
+                        log_file, self.echo, True, filter_fn=self.filter_fn
                     )
 
                     with log_contextmanager as logger:

lib/spack/spack/package_base.py

@@ -2284,14 +2284,6 @@ def rpath_args(self):
 build_system_flags = PackageBase.build_system_flags
 
 
-def use_cray_compiler_names():
-    """Compiler names for builds that rely on cray compiler names."""
-    os.environ["CC"] = "cc"
-    os.environ["CXX"] = "CC"
-    os.environ["FC"] = "ftn"
-    os.environ["F77"] = "ftn"
-
-
 def possible_dependencies(
     *pkg_or_spec: Union[str, spack.spec.Spec, typing.Type[PackageBase]],
     transitive: bool = True,

var/spack/repos/builtin/packages/ascent/package.py

@@ -148,6 +148,14 @@ class Ascent(CMakePackage, CudaPackage):
     # https://github.com/Alpine-DAV/ascent/pull/1123
     patch("ascent-find-raja-pr1123.patch", when="@0.9.0")
 
+    # patch for fix typo in coord_type
+    # https://github.com/Alpine-DAV/ascent/pull/1408
+    patch(
+        "https://github.com/Alpine-DAV/ascent/pull/1408.patch?full_index=1",
+        when="@0.9.3 %oneapi@2025:",
+        sha256="7de7f51e57f3d743c39ad80d8783a4eb482be1def51eb2d3f9259246c661f164",
+    )
+
     ##########################################################################
     # package dependencies
     ###########################################################################
@@ -468,6 +476,9 @@ def hostconfig(self):
         if cflags:
             cfg.write(cmake_cache_entry("CMAKE_C_FLAGS", cflags))
         cxxflags = cppflags + " ".join(spec.compiler_flags["cxxflags"])
+        if spec.satisfies("%oneapi@2025:"):
+            cxxflags += "-Wno-error=missing-template-arg-list-after-template-kw "
+            cxxflags += "-Wno-missing-template-arg-list-after-template-kw"
         if cxxflags:
             cfg.write(cmake_cache_entry("CMAKE_CXX_FLAGS", cxxflags))
         fflags = " ".join(spec.compiler_flags["fflags"])

var/spack/repos/builtin/packages/duckdb/package.py

@@ -17,6 +17,7 @@ class Duckdb(MakefilePackage):
     maintainers("glentner", "teaguesterling")
 
     version("master", branch="master")
+    version("1.2.0", sha256="f22c97e18c071fa8e43b5e150c03c6ab4bcc510cca6e6b50cbe13af8535fa701")
     version("1.1.3", sha256="2aea0af898ad753fee82b776fea1bf78ccbc9648986e7f7a87372df5e74cdb98")
     version("1.1.2", sha256="a3319a64c390ed0454c869b2e4fc0af2413cd49f55cd0f1400aaed9069cdbc4c")
     version("1.1.1", sha256="a764cef80287ccfd8555884d8facbe962154e7c747043c0842cd07873b4d6752")
@@ -92,7 +93,6 @@ class Duckdb(MakefilePackage):
     # Extensions
     variant("autocomplete", default=True, description="Include autocomplete for CLI in build")
     variant("excel", default=True, description="Include Excel formatting extension in build")
-    variant("fts", default=True, description="Include FTS (full text search) support in build")
     variant("httpfs", default=True, description="Include HTTPFS (& S3) support in build")
     variant("inet", default=True, description="Include INET (ip address) support in build")
     variant("json", default=True, description="Include JSON support in build")
@@ -100,6 +100,14 @@ class Duckdb(MakefilePackage):
     variant("tpce", default=False, description="Include TPCE in build")
     variant("tpch", default=False, description="Include TPCH in build")
 
+    # FTS was moved to an out-of-tree extension after v1.1.3
+    variant(
+        "fts",
+        default=True,
+        description="Include FTS (full text search) support in build",
+        when="@:1.1",
+    )
+
     # APIs
     variant("python", default=True, description="Build with Python driver")
     extends("python", when="+python")

var/spack/repos/builtin/packages/extrae/package.py

@@ -73,10 +73,6 @@ class Extrae(AutotoolsPackage):
     depends_on("mpi")
     depends_on("libunwind")
 
-    # TODO: replace this with an explicit list of components of Boost,
-    # for instance depends_on('boost +filesystem')
-    # See https://github.com/spack/spack/pull/22303 for reference
-    depends_on(Boost.with_default_variants)
     depends_on("libdwarf")
     depends_on("elf", type="link")
     depends_on("libxml2")
@@ -92,6 +88,10 @@ class Extrae(AutotoolsPackage):
     variant("dyninst", default=False, description="Use dyninst for dynamic code installation")
     with when("+dyninst"):
         depends_on("dyninst@10.1.0:")
+        # TODO: replace this with an explicit list of components of Boost,
+        # for instance depends_on('boost +filesystem')
+        # See https://github.com/spack/spack/pull/22303 for reference
+        depends_on(Boost.with_default_variants)
         depends_on("elfutils", when="@4.1.2:")
         depends_on("intel-oneapi-tbb", when="@4.1.2:")
 
@@ -127,7 +127,6 @@ def configure_args(self):
         args = [
             "--with-mpi=%s" % mpiroot,
             "--with-unwind=%s" % spec["libunwind"].prefix,
-            "--with-boost=%s" % spec["boost"].prefix,
             "--with-dwarf=%s" % spec["libdwarf"].prefix,
             "--with-elf=%s" % spec["elf"].prefix,
             "--with-xml-prefix=%s" % spec["libxml2"].prefix,
@@ -141,7 +140,10 @@ def configure_args(self):
         )
 
         if spec.satisfies("+dyninst"):
-            args += ["--with-dyninst={spec['dyninst'].prefix}"]
+            args += [
+                f"--with-dyninst={spec['dyninst'].prefix}",
+                f"--with-boost={spec['boost'].prefix}",
+            ]
 
             if spec.satisfies("@4.1.2:"):
                 args += [

var/spack/repos/builtin/packages/fargparse/package.py

@@ -19,6 +19,7 @@ class Fargparse(CMakePackage):
     version("develop", branch="develop")
     version("main", branch="main")
 
+    version("1.9.0", sha256="c83c13fa90b6b45adf8d84fe00571174acfa118d2a0d1e8c467f74bbd7dec49d")
     version("1.8.0", sha256="37108bd3c65d892d8c24611ce4d8e5451767e4afe81445fde67eab652178dd01")
     version("1.7.0", sha256="9889e7eca9c020b742787fba2be0ba16edcc3fcf52929261ccb7d09996a35f89")
     version("1.6.0", sha256="055a0af44f50c302f8f20a8bcf3d26c5bbeacf5222cdbaa5b19da4cff56eb9c0")

var/spack/repos/builtin/packages/flux-sched/package.py

@@ -22,6 +22,7 @@ class FluxSched(CMakePackage, AutotoolsPackage):
     license("LGPL-3.0-only")
 
     version("master", branch="master")
+    version("0.42.1", sha256="ab56b257e4918ad7e26ef6a375d0ea500a4929bf6633937f0c11c06e21db56b9")
     version("0.41.0", sha256="c89baf72867031847748c157aa99f3b36755f2801df917aae66010d2112e10fe")
     version("0.40.0", sha256="1484befcf8628b0af7833bf550d0bb3864db32b70f2c1bb363c35e30ada1ecc5")
     version("0.39.0", sha256="7e87029f8ad17b9286096e4e2d44982b5d6634908aefde3282497bdd3f44f2f8")

var/spack/repos/builtin/packages/gftl-shared/package.py

@@ -24,6 +24,7 @@ class GftlShared(CMakePackage):
 
     version("main", branch="main")
 
+    version("1.10.0", sha256="42158fe75fa6bee336516c7531b4c6c4e7252dee2fed541eec740209a07ceafe")
     version("1.9.0", sha256="a3291ce61b512fe88628cc074b02363c2ba3081e7b453371089121988482dd6f")
     version("1.8.0", sha256="3450161508c573ea053b2a23cdbf2a1d6fd6fdb78c162d31fc0019da0f8dd03c")
     version("1.7.0", sha256="8ba567133fcee6b93bc71f61b3bb2053b4b07c6d78f6ad98a04dfc40aa478de7")

var/spack/repos/builtin/packages/gftl/package.py

@@ -38,6 +38,7 @@ class Gftl(CMakePackage):
     version("develop", branch="develop")
     version("main", branch="main")
 
+    version("1.15.1", sha256="13b9e17b7ec5e9ba19d0ee3ad1957bfa2015055b654891c6bb0bbe68b7a040d7")
     version("1.14.0", sha256="bf8e3ba3f708ea327c7eb1a5bd1afdce41358c6df1a323aba0f73575c25d5fc8")
     version("1.13.0", sha256="d8ef4bca5fb67e63dcd69e5377a0cef8336b00178a97450e79010552000d0a52")
     version("1.12.0", sha256="b50e17cb2109372819b3ee676e6e61fd3a517dc4c1ea293937c8a83f03b0cbd6")

var/spack/repos/builtin/packages/go/package.py

@@ -38,6 +38,8 @@ class Go(Package):
 
     license("BSD-3-Clause")
 
+    version("1.23.6", sha256="039c5b04e65279daceee8a6f71e70bd05cf5b801782b6f77c6e19e2ed0511222")
+    version("1.23.5", sha256="a6f3f4bbd3e6bdd626f79b668f212fbb5649daf75084fb79b678a0ae4d97423b")
     version("1.23.4", sha256="ad345ac421e90814293a9699cca19dd5238251c3f687980bbcae28495b263531")
     version("1.23.3", sha256="8d6a77332487557c6afa2421131b50f83db4ae3c579c3bc72e670ee1f6968599")
     version("1.23.2", sha256="36930162a93df417d90bd22c6e14daff4705baac2b02418edda671cdfa9cd07f")

var/spack/repos/builtin/packages/libgcrypt/o_flag_munging-1.10.patch

@@ -0,0 +1,39 @@
+From 7cea256ef1a6017e722bdfd5b7381fa90580d55a Mon Sep 17 00:00:00 2001
+From: "simit.ghane" <simit.ghane@lge.com>
+Date: Tue, 7 May 2024 14:09:03 +0530
+Subject: [PATCH] fix o_flag_munging
+
+---
+ cipher/Makefile.am | 2 +-
+ random/Makefile.am | 2 +-
+ 2 files changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/cipher/Makefile.am b/cipher/Makefile.am
+index c3d642b2..04bf25e9 100644
+--- a/cipher/Makefile.am
++++ b/cipher/Makefile.am
+@@ -153,7 +153,7 @@ gost-s-box: gost-s-box.c
+ 
+ 
+ if ENABLE_O_FLAG_MUNGING
+-o_flag_munging = sed -e 's/-O\([2-9sgz][2-9sgz]*\)/-O1/' -e 's/-Ofast/-O1/g'
++o_flag_munging = sed -e 's/[[:blank:]]-O\([2-9sgz][2-9sgz]*\)/ -O1 /g' -e 's/[[:blank:]]-Ofast/ -O1 /g'
+ else
+ o_flag_munging = cat
+ endif
+diff --git a/random/Makefile.am b/random/Makefile.am
+index 0c935a05..a42e4306 100644
+--- a/random/Makefile.am
++++ b/random/Makefile.am
+@@ -56,7 +56,7 @@ jitterentropy-base.c jitterentropy.h jitterentropy-base-user.h
+ 
+ # The rndjent module needs to be compiled without optimization.  */
+ if ENABLE_O_FLAG_MUNGING
+-o_flag_munging = sed -e 's/-O\([1-9sgz][1-9sgz]*\)/-O0/g' -e 's/-Ofast/-O0/g'
++o_flag_munging = sed -e 's/[[:blank:]]-O\([1-9sgz][1-9sgz]*\)/ -O0 /g' -e 's/[[:blank:]]-Ofast/ -O0 /g'
+ else
+ o_flag_munging = cat
+ endif
+-- 
+2.43.0
+

var/spack/repos/builtin/packages/libgcrypt/o_flag_munging-1.11.patch

@@ -0,0 +1,50 @@
+From 9c11f1e12a6ddbd49b5fd38c94e6a004f8da6e29 Mon Sep 17 00:00:00 2001
+From: "simit.ghane" <simit.ghane@lge.com>
+Date: Tue, 11 Jun 2024 07:22:28 +0530
+Subject: [PATCH] random:cipher: handle substitution in sed command
+
+* cipher/Makefile.am (o_flag_munging): Add 'g' flag for first sed
+expression.
+* random/Makefile.am (o_flag_munging): Likewise.
+--
+
+It was there earlier and accidentally removed from
+Makefile.am of cipher and random
+
+Signed-off-by: simit.ghane <simit.ghane@lge.com>
+[jk: add changelog to commit message]
+Signed-off-by: Jussi Kivilinna <jussi.kivilinna@iki.fi>
+---
+ cipher/Makefile.am | 2 +-
+ random/Makefile.am | 2 +-
+ 2 files changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/cipher/Makefile.am b/cipher/Makefile.am
+index ea9014cc..149c9f21 100644
+--- a/cipher/Makefile.am
++++ b/cipher/Makefile.am
+@@ -169,7 +169,7 @@ gost-s-box$(EXEEXT_FOR_BUILD): gost-s-box.c
+ 
+ 
+ if ENABLE_O_FLAG_MUNGING
+-o_flag_munging = sed -e 's/[[:blank:]]-O\([2-9sgz][2-9sgz]*\)/ -O1 /' -e 's/[[:blank:]]-Ofast/ -O1 /g'
++o_flag_munging = sed -e 's/[[:blank:]]-O\([2-9sgz][2-9sgz]*\)/ -O1 /g' -e 's/[[:blank:]]-Ofast/ -O1 /g'
+ else
+ o_flag_munging = cat
+ endif
+diff --git a/random/Makefile.am b/random/Makefile.am
+index c7100ef8..a42e4306 100644
+--- a/random/Makefile.am
++++ b/random/Makefile.am
+@@ -56,7 +56,7 @@ jitterentropy-base.c jitterentropy.h jitterentropy-base-user.h
+ 
+ # The rndjent module needs to be compiled without optimization.  */
+ if ENABLE_O_FLAG_MUNGING
+-o_flag_munging = sed -e 's/[[:blank:]]-O\([1-9sgz][1-9sgz]*\)/ -O0 /' -e 's/[[:blank:]]-Ofast/ -O0 /g'
++o_flag_munging = sed -e 's/[[:blank:]]-O\([1-9sgz][1-9sgz]*\)/ -O0 /g' -e 's/[[:blank:]]-Ofast/ -O0 /g'
+ else
+ o_flag_munging = cat
+ endif
+-- 
+2.43.0
+

var/spack/repos/builtin/packages/libgcrypt/package.py

@@ -17,26 +17,26 @@ class Libgcrypt(AutotoolsPackage):
 
     version("1.11.0", sha256="09120c9867ce7f2081d6aaa1775386b98c2f2f246135761aae47d81f58685b9c")
     version("1.10.3", sha256="8b0870897ac5ac67ded568dcfadf45969cfa8a6beb0fd60af2a9eadc2a3272aa")
-    version("1.10.2", sha256="3b9c02a004b68c256add99701de00b383accccf37177e0d6c58289664cce0c03")
-    version("1.10.1", sha256="ef14ae546b0084cd84259f61a55e07a38c3b53afc0f546bffcef2f01baffe9de")
-    version("1.10.0", sha256="6a00f5c05caa4c4acc120c46b63857da0d4ff61dc4b4b03933fa8d46013fae81")
 
-    # End of life: 2024-03-31
     with default_args(deprecated=True):
-        version("1.9.4", sha256="ea849c83a72454e3ed4267697e8ca03390aee972ab421e7df69dfe42b65caaf7")
-        version("1.9.3", sha256="97ebe4f94e2f7e35b752194ce15a0f3c66324e0ff6af26659bbfb5ff2ec328fd")
-        version("1.9.2", sha256="b2c10d091513b271e47177274607b1ffba3d95b188bbfa8797f948aec9053c5a")
-        version("1.9.1", sha256="c5a67a8b9b2bd370fb415ed1ee31c7172e5683076493cf4a3678a0fbdf0265d9")
+        version(
+            "1.10.2", sha256="3b9c02a004b68c256add99701de00b383accccf37177e0d6c58289664cce0c03"
+        )
+        version(
+            "1.10.1", sha256="ef14ae546b0084cd84259f61a55e07a38c3b53afc0f546bffcef2f01baffe9de"
+        )
+        version(
+            "1.10.0", sha256="6a00f5c05caa4c4acc120c46b63857da0d4ff61dc4b4b03933fa8d46013fae81"
+        )
+        # End of life: 2024-12-31 (LTS)
+        version("1.8.9", sha256="2bda4790aa5f0895d3407cf7bf6bd7727fd992f25a45a63d92fef10767fa3769")
+        version("1.8.7", sha256="03b70f028299561b7034b8966d7dd77ef16ed139c43440925fe8782561974748")
+        version("1.8.6", sha256="0cba2700617b99fc33864a0c16b1fa7fdf9781d9ed3509f5d767178e5fd7b975")
+        version("1.8.5", sha256="3b4a2a94cb637eff5bdebbcaf46f4d95c4f25206f459809339cdada0eb577ac3")
+        version("1.8.4", sha256="f638143a0672628fde0cad745e9b14deb85dffb175709cacc1f4fe24b93f2227")
+        version("1.8.1", sha256="7a2875f8b1ae0301732e878c0cca2c9664ff09ef71408f085c50e332656a78b3")
 
-    # End of life: 2024-12-31 (LTS)
-    version("1.8.9", sha256="2bda4790aa5f0895d3407cf7bf6bd7727fd992f25a45a63d92fef10767fa3769")
-    version("1.8.7", sha256="03b70f028299561b7034b8966d7dd77ef16ed139c43440925fe8782561974748")
-    version("1.8.6", sha256="0cba2700617b99fc33864a0c16b1fa7fdf9781d9ed3509f5d767178e5fd7b975")
-    version("1.8.5", sha256="3b4a2a94cb637eff5bdebbcaf46f4d95c4f25206f459809339cdada0eb577ac3")
-    version("1.8.4", sha256="f638143a0672628fde0cad745e9b14deb85dffb175709cacc1f4fe24b93f2227")
-    version("1.8.1", sha256="7a2875f8b1ae0301732e878c0cca2c9664ff09ef71408f085c50e332656a78b3")
-
-    depends_on("c", type="build")  # generated
+    depends_on("c", type="build")
 
     depends_on("libgpg-error@1.25:")
     depends_on("libgpg-error@1.27:", when="@1.9:")
@@ -58,6 +58,9 @@ def flag_handler(self, name, flags):
     # https://git.gnupg.org/cgi-bin/gitweb.cgi?p=libgcrypt.git;a=commit;h=b42116d6067a5233f72e5598032d4b396bb8eaac
     patch("conditional_avx512.patch", when="@1.11.0")
 
+    patch("o_flag_munging-1.10.patch", when="@1.10")
+    patch("o_flag_munging-1.11.patch", when="@1.11")
+
     def check(self):
         # Without this hack, `make check` fails on macOS when SIP is enabled
         # https://bugs.gnupg.org/gnupg/issue2056

var/spack/repos/builtin/packages/mapl/package.py

@@ -38,6 +38,8 @@ class Mapl(CMakePackage):
     version("develop", branch="develop")
     version("main", branch="main")
 
+    version("2.54.1", sha256="2430ded45a98989e9100037f54cf22f5a5083e17196514b3667d3003413e49e1")
+    version("2.53.1", sha256="8371a75d4d81294eb9d99d66702f8cf62d4bd954cec3e247e1afae621b4e4726")
     version("2.53.0", sha256="68c24e6c0e3340645b1fb685972c96ef80746d5a289572c9883e520680708ebe")
     version("2.52.0", sha256="c30be3a6ed3fca40aea903e10ee51e2fb50b4ef2445fdc959d4871baf3c20585")
     version("2.51.2", sha256="f6df2be24d0c113af3d0424b674d970621660bf11e59a699373f014a14d0716e")

var/spack/repos/builtin/packages/nim/package.py

@@ -15,7 +15,7 @@ class Nim(Package):
     """
 
     homepage = "https://nim-lang.org/"
-    url = "https://nim-lang.org/download/nim-2.2.0.tar.xz"
+    url = "https://nim-lang.org/download/nim-2.2.2.tar.xz"
     git = "https://github.com/nim-lang/Nim.git"
 
     license("MIT", checked_by="Buldram")
@@ -23,6 +23,7 @@ class Nim(Package):
     maintainers("Buldram")
 
     version("devel", branch="devel")
+    version("2.2.2", sha256="7fcc9b87ac9c0ba5a489fdc26e2d8480ce96a3ca622100d6267ef92135fd8a1f")
     version("2.2.0", sha256="ce9842849c9760e487ecdd1cdadf7c0f2844cafae605401c7c72ae257644893c")
     version("2.0.14", sha256="d420b955833294b7861e3fb65021dac26d1c19c528c4d6e139ccd379e2c15a43")
     version("2.0.12", sha256="c4887949c5eb8d7f9a9f56f0aeb2bf2140fabf0aee0f0580a319e2a09815733a")

var/spack/repos/builtin/packages/nwchem/oneapi2025.patch

@@ -0,0 +1,36 @@
+diff -ruN spack-src/src/config/makefile.h spack-src-patched/src/config/makefile.h
+--- spack-src/src/config/makefile.h	2024-08-28 02:30:22.000000000 +0000
++++ spack-src-patched/src/config/makefile.h	2025-02-07 16:03:07.315882016 +0000
+@@ -2364,15 +2364,14 @@
+ 		    _GOTAVX2 := $(shell cat /proc/cpuinfo | grep fma | tail -n 1 | awk ' /fma/  {print "Y"}')
+ 		    _GOTAVX512F := $(shell cat /proc/cpuinfo | grep avx512f | tail -n 1 | awk ' /avx512f/  {print "Y"}')
+                 endif
+-		_IFCE := $(shell ifort -V  2>&1 |head -1 |awk ' /64/ {print "Y";exit};')
+-		_IFCV7 := $(shell ifort -v  2>&1|grep "Version "|head -n 1|awk ' /7./  {print "Y";exit}')
+-		_IFCV11 := $(shell ifort -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 11) {print "Y";exit}}')
+-		_IFCV12 := $(shell ifort -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 12) {print "Y";exit}}')
+-		_IFCV14 := $(shell ifort -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 14) {print "Y";exit}}')
+-		_IFCV15ORNEWER := $(shell ifort -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 15) {print "Y";exit}}')
+-	       _IFCV17 := $(shell ifort -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 17) {print "Y";exit}}')
+-	       _IFCV18 := $(shell ifort -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 18) {print "Y";exit}}')
+-
++                _IFCE := $(shell $(FC) -V  2>&1 |head -1 |awk ' /64/ {print "Y";exit};')
++		_IFCV7 := $(shell $(FC) -v  2>&1|grep "Version "|head -n 1|awk ' /7./  {print "Y";exit}')
++		_IFCV11 := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 11) {print "Y";exit}}')
++		_IFCV12 := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 12) {print "Y";exit}}')
++		_IFCV14 := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1|sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 14) {print "Y";exit}}')
++		_IFCV15ORNEWER := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 15) {print "Y";exit}}')
++	        _IFCV17 := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 17) {print "Y";exit}}')
++	        _IFCV18 := $(shell $(FC) -logo  2>&1|grep "Version "|head -n 1 | sed 's/.*Version \([0-9][0-9]\).*/\1/' | awk '{if ($$1 >= 18) {print "Y";exit}}')
+ #               Intel EM64T is required
+                 ifneq ($(_IFCE),Y)
+                     defineFCE:
+@@ -2406,7 +2405,7 @@
+ #               CPP=fpp -P
+ #
+                 ifeq ($(_IFCV15ORNEWER), Y)
+-		 IFORTVER := $(shell ifort -v 2>&1|cut -d " " -f 3)
++                 IFORTVER := $(shell $(FC) -v 2>&1|cut -d " " -f 3)
+ #                ifeq ($(IFORTVER),2021.7.0)
+ #                   $(info     )
+ #                   $(info     ifort 2021.7.0 not validated)

var/spack/repos/builtin/packages/nwchem/package.py

@@ -13,11 +13,14 @@ class Nwchem(Package):
 
     homepage = "https://nwchemgit.github.io"
     url = "https://github.com/nwchemgit/nwchem/releases/download/v7.2.0-release/nwchem-7.2.0-release.revision-d0d141fd-srconly.2023-03-10.tar.bz2"
+    git = "https://github.com/nwchemgit/nwchem.git"
 
     tags = ["ecp", "ecp-apps"]
 
     maintainers("jeffhammond")
 
+    version("master", branch="master")
+
     version(
         "7.2.3",
         sha256="8cb4ec065215bc0316d8e01f67f1674a572f7d0f565c52e4a327975c04ddb6eb",
@@ -69,6 +72,9 @@ class Nwchem(Package):
         "elpa", default=False, description="Enable optimised diagonalisation routines from ELPA"
     )
 
+    # https://github.com/nwchemgit/nwchem/pull/1034
+    patch("oneapi2025.patch", when="@7.2.3 %oneapi@2025:")
+
     # This patch is for the modification of the build system (e.g. compiler flags) and
     # Fortran syntax to enable the compilation with Fujitsu compilers. The modification
     # will be merged to the next release of NWChem (see https://github.com/nwchemgit/nwchem/issues/347

var/spack/repos/builtin/packages/openmpi/package.py

@@ -64,6 +64,9 @@ class Openmpi(AutotoolsPackage, CudaPackage):
     version(
         "5.0.0", sha256="9d845ca94bc1aeb445f83d98d238cd08f6ec7ad0f73b0f79ec1668dbfdacd613"
     )  # libmpi.so.40.40.0
+    version(
+        "4.1.8", sha256="466f68e3132a1dc02710cc2011fafced8336d98359fa2dae4dddcfd5719f12a9"
+    )  # libmpi.so.40.30.8
     version(
         "4.1.7", sha256="54a33cb7ad81ff0976f15a6cc8003c3922f0f3d8ceed14e1813ef3603f22cd34"
     )  # libmpi.so.40.30.7

var/spack/repos/builtin/packages/pflogger/package.py

@@ -21,6 +21,7 @@ class Pflogger(CMakePackage):
     version("develop", branch="develop")
     version("main", branch="main")
 
+    version("1.16.1", sha256="82ae8d008dda3984e12df3e92a61486a8f5c0b87182d54087f1d004ecc141fff")
     version("1.15.0", sha256="454f05731a3ba50c7ae3ef9463b642c53248ae84ccb3b93455ef2ae2b6858235")
     version("1.14.0", sha256="63422493136f66f61d5148b7b1d278b1e5ca76bd37c578e45e4ae0e967351823")
     version("1.13.2", sha256="934e573134f7f1a22b14eb582ea38dd68eb9dccb10526bfabe51229efe106352")

var/spack/repos/builtin/packages/pfunit/package.py

@@ -18,6 +18,7 @@ class Pfunit(CMakePackage):
 
     maintainers("mathomp4", "tclune")
 
+    version("4.11.1", sha256="db954ce44e857fe17cf4212f91223d2ab73248de0c3af405e2e1224f92ed8d42")
     version("4.10.0", sha256="ee5e899dfb786bac46e3629b272d120920bafdb7f6a677980fc345f6acda0f99")
     version("4.9.0", sha256="caea019f623d4e02dd3e8442cee88e6087b4c431a2628e9ec2de55b527b51ab6")
     version("4.8.0", sha256="b5c66ab949fd23bee5c3b4d93069254f7ea40decb8d21f622fd6aa45ee68ef10")

var/spack/repos/builtin/packages/py-einops/package.py

@@ -16,6 +16,7 @@ class PyEinops(PythonPackage):
     license("MIT")
     maintainers("adamjstewart")
 
+    version("0.8.1", sha256="de5d960a7a761225532e0f1959e5315ebeafc0cd43394732f103ca44b9837e84")
     version("0.8.0", sha256="63486517fed345712a8385c100cb279108d9d47e6ae59099b07657e983deae85")
     version("0.7.0", sha256="b2b04ad6081a3b227080c9bf5e3ace7160357ff03043cd66cc5b2319eb7031d1")
     version("0.6.1", sha256="f95f8d00f4ded90dbc4b19b6f98b177332614b0357dde66997f3ae5d474dc8c8")

var/spack/repos/builtin/packages/py-iterative-stats/package.py

@@ -10,25 +10,28 @@ class PyIterativeStats(PythonPackage):
 
     pypi = "iterative-stats/iterative_stats-0.1.0.tar.gz"
     git = "https://github.com/IterativeStatistics/BasicIterativeStatistics.git"
-    maintainers("robcaulk")
+    maintainers("robcaulk", "viperML", "abhishek1297")
 
     license("BSD-3-Clause")
 
     version("main", branch="main")
+    version("0.1.1", sha256="c2be6045e720aa7ff5c8dbbcd01d082d1b66f2c2a8613ad825528535e3ce0436")
     version("0.1.0", sha256="bb4f378a8fa117d1f24e9ea5ac0f1bd13c04b1ab3693a148ba936ffb237f2fba")
     version("0.0.4", sha256="7e838aa79de867b0e312be8cdf9319bb70824b624c684e968636cc8d4c9d5712")
 
-    # main dependencies
-    depends_on("python@3.8.0:3.10", type=("build", "run"))
-    depends_on("py-poetry-core@1.0.0:", type=("build"))
-    depends_on("py-pyyaml@6.0", type=("build", "run"))
-    depends_on("py-numpy@1.19:1", type=("build", "run"))
+    with default_args(type=("build", "run")):
+        depends_on("python@3.8:3.10", when="@:0.1.0")
+        depends_on("python@3.9:3.12", when="@0.1.1:")
+        depends_on("py-pyyaml@6.0:")
+        depends_on("py-numpy@1.19:1")
 
-    # dev dependencies
-    depends_on("py-pytest@6.2.1:6", type=("test"))
-    depends_on("py-autopep8@1.6.0", type=("test"))
-    depends_on("openturns@1.19+python+libxml2", type=("test"))
-    depends_on("py-scipy@1.8", type=("test"))
+    depends_on("py-poetry-core@1.0.0:", type=("build"))
+
+    with default_args(type=("test")):
+        depends_on("py-pytest@6.2.1:6")
+        depends_on("py-autopep8@1.6.0")
+        depends_on("openturns@1.19+python+libxml2")
+        depends_on("py-scipy@1.8:1")
 
     @run_after("install")
     @on_package_attributes(run_tests=True)

var/spack/repos/builtin/packages/python/package.py

@@ -57,15 +57,21 @@ class Python(Package):
 
     license("0BSD")
 
+    version("3.13.2", sha256="b8d79530e3b7c96a5cb2d40d431ddb512af4a563e863728d8713039aa50203f9")
     version("3.13.1", sha256="1513925a9f255ef0793dbf2f78bb4533c9f184bdd0ad19763fd7f47a400a7c55")
     version("3.13.0", sha256="12445c7b3db3126c41190bfdc1c8239c39c719404e844babbd015a1bc3fafcd4")
+    version("3.12.9", sha256="45313e4c5f0e8acdec9580161d565cf5fea578e3eabf25df7cc6355bf4afa1ee")
     version("3.12.8", sha256="5978435c479a376648cb02854df3b892ace9ed7d32b1fead652712bee9d03a45")
+    version("3.12.7", sha256="73ac8fe780227bf371add8373c3079f42a0dc62deff8d612cd15a618082ab623")
+    version("3.12.6", sha256="85a4c1be906d20e5c5a69f2466b00da769c221d6a684acfd3a514dbf5bf10a66")
     version("3.12.5", sha256="38dc4e2c261d49c661196066edbfb70fdb16be4a79cc8220c224dfeb5636d405")
     version("3.12.4", sha256="01b3c1c082196f3b33168d344a9c85fb07bfe0e7ecfe77fee4443420d1ce2ad9")
     version("3.12.3", sha256="a6b9459f45a6ebbbc1af44f5762623fa355a0c87208ed417628b379d762dddb0")
     version("3.12.2", sha256="a7c4f6a9dc423d8c328003254ab0c9338b83037bd787d680826a5bf84308116e")
     version("3.12.1", sha256="d01ec6a33bc10009b09c17da95cc2759af5a580a7316b3a446eb4190e13f97b2")
     version("3.12.0", sha256="51412956d24a1ef7c97f1cb5f70e185c13e3de1f50d131c0aac6338080687afb")
+    version("3.11.11", sha256="883bddee3c92fcb91cf9c09c5343196953cbb9ced826213545849693970868ed")
+    version("3.11.10", sha256="92f2faf242681bfa406d53a51e17d42c5373affe23a130cd9697e132ef574706")
     version("3.11.9", sha256="e7de3240a8bc2b1e1ba5c81bf943f06861ff494b69fda990ce2722a504c6153d")
     version("3.11.8", sha256="d3019a613b9e8761d260d9ebe3bd4df63976de30464e5c0189566e1ae3f61889")
     version("3.11.7", sha256="068c05f82262e57641bd93458dfa883128858f5f4997aad7a36fd25b13b29209")
@@ -76,6 +82,8 @@ class Python(Package):
     version("3.11.2", sha256="2411c74bda5bbcfcddaf4531f66d1adc73f247f529aee981b029513aefdbf849")
     version("3.11.1", sha256="baed518e26b337d4d8105679caf68c5c32630d702614fc174e98cb95c46bdfa4")
     version("3.11.0", sha256="64424e96e2457abbac899b90f9530985b51eef2905951febd935f0e73414caeb")
+    version("3.10.16", sha256="f2e22ed965a93cfeb642378ed6e6cdbc127682664b24123679f3d013fafe9cd0")
+    version("3.10.15", sha256="a27864e5ba2a4474f8f6c58ab92ff52767ac8b66f1646923355a53fe3ef15074")
     version("3.10.14", sha256="cefea32d3be89c02436711c95a45c7f8e880105514b78680c14fe76f5709a0f6")
     version("3.10.13", sha256="698ec55234c1363bd813b460ed53b0f108877c7a133d48bde9a50a1eb57b7e65")
     version("3.10.12", sha256="a43cd383f3999a6f4a7db2062b2fc9594fefa73e175b3aedafa295a51a7bb65c")
@@ -91,6 +99,8 @@ class Python(Package):
     version("3.10.2", sha256="3c0ede893011319f9b0a56b44953a3d52c7abf9657c23fb4bc9ced93b86e9c97")
     version("3.10.1", sha256="b76117670e7c5064344b9c138e141a377e686b9063f3a8a620ff674fa8ec90d3")
     version("3.10.0", sha256="c4e0cbad57c90690cb813fb4663ef670b4d0f587d8171e2c42bd4c9245bd2758")
+    version("3.9.21", sha256="667c3ba2ca98d39ead1162f6548c3475768582e2ff89e0821d25eb956ac09944")
+    version("3.9.20", sha256="1e71f006222666e0a39f5a47be8221415c22c4dd8f25334cc41aee260b3d379e")
     version("3.9.19", sha256="f5f9ec8088abca9e399c3b62fd8ef31dbd2e1472c0ccb35070d4d136821aaf71")
     version("3.9.18", sha256="504ce8cfd59addc04c22f590377c6be454ae7406cb1ebf6f5a350149225a9354")
     version("3.9.17", sha256="8ead58f669f7e19d777c3556b62fae29a81d7f06a7122ff9bc57f7dd82d7e014")
@@ -112,6 +122,9 @@ class Python(Package):
     version("3.9.1", sha256="29cb91ba038346da0bd9ab84a0a55a845d872c341a4da6879f462e94c741f117")
     version("3.9.0", sha256="df796b2dc8ef085edae2597a41c1c0a63625ebd92487adaef2fed22b567873e8")
     with default_args(deprecated=True):
+        version(
+            "3.8.20", sha256="9f2d5962c2583e67ef75924cd56d0c1af78bf45ec57035cf8a2cc09f74f4bf78"
+        )
         version(
             "3.8.19", sha256="c7fa55a36e5c7a19ec37d8f90f60a2197548908c9ac8b31e7c0dbffdd470eeac"
         )
@@ -159,8 +172,8 @@ class Python(Package):
             "3.6.15", sha256="54570b7e339e2cfd72b29c7e2fdb47c0b7b18b7412e61de5b463fc087c13b043"
         )
 
-    depends_on("c", type="build")  # generated
-    depends_on("cxx", type="build")  # generated
+    depends_on("c", type="build")
+    depends_on("cxx", type="build")
 
     extendable = True
 

var/spack/repos/builtin/packages/qmcpack/package.py

@@ -16,13 +16,14 @@ class Qmcpack(CMakePackage, CudaPackage):
     maintainers("ye-luo")
     tags = ["ecp", "ecp-apps"]
 
-    license("CC0-1.0")
+    license("NCSA", checked_by="prckent")
 
     # This download method is untrusted, and is not recommended by the
     # Spack manual. However, it is easier to maintain because github hashes
     # can occasionally change.
     # NOTE: 12/19/2017 QMCPACK 3.0.0 does not build properly with Spack.
     version("develop")
+    version("4.0.0", tag="v4.0.0", commit="0199944fb644b4798446fdfc0549c81666a4a943")
     version("3.17.1", tag="v3.17.1", commit="9d0d968139fc33f71dbf9159f526dd7b47f10a3b")
     version("3.17.0", tag="v3.17.0", commit="9049a90626d1fe3c431f55c56a7197f8a13d5fc6")
     version("3.16.0", tag="v3.16.0", commit="5b7544c40be105b0aafa1602601ccb0cf23ea547")

var/spack/repos/builtin/packages/quantum-espresso/package.py

@@ -24,6 +24,7 @@ class QuantumEspresso(CMakePackage, Package):
     license("GPL-2.0-only")
 
     version("develop", branch="develop")
+    version("7.4.1", sha256="6ef9c53dbf0add2a5bf5ad2a372c0bff935ad56c4472baa001003e4f932cab97")
     version("7.4", sha256="b15dcfe25f4fbf15ccd34c1194021e90996393478226e601d876f7dea481d104")
     version("7.3.1", sha256="2c58b8fadfe4177de5a8b69eba447db5e623420b070dea6fd26c1533b081d844")
     version("7.3", sha256="edc2a0f3315c69966df4f82ec86ab9f682187bc9430ef6d2bacad5f27f08972c")

var/spack/repos/builtin/packages/reframe/package.py

@@ -25,6 +25,11 @@ class Reframe(Package):
     license("BSD-3-Clause")
 
     version("develop", branch="develop")
+    version("4.7.3", sha256="74b8f56dc622d1c75fc1152d15d45e00edab9d2db1f6bc8fd7290125d69c74dd")
+    version("4.7.2", sha256="90e04eaaa21afd5c29a9c6218204c3df4503f624f21f2fe773f90e148d30c152")
+    version("4.7.1", sha256="ed693368d8b47327981a0db2b984c88d7dd703add1ffe736c95f9193ef727baf")
+    version("4.7.0", sha256="4a2604616cd492ab21b09f8234482239eff1a07e1ee61f4e4493fd973e7d5dc2")
+    version("4.6.4", sha256="6167ecfe6711fb9c412c0198cab549f4826eae502c9b592f18eb0192390e740e")
     version("4.6.3", sha256="0f335e588d21a26d76beb011bc86baf80ba633d875512ecd564d0aeb320fcf2c")
     version("4.6.2", sha256="d3343815ee3d2c330b91a1cdb924ba184119ed7d9fc88a4a754b939a4259df82")
     version("4.6.1", sha256="058b05c430af26d2958851af0da32bac0f4bff1af7d78ce6a132c32bbe40ec5c")
@@ -133,6 +138,8 @@ class Reframe(Package):
     depends_on("py-pyyaml", when="@3.4.1:", type="run")
     depends_on("py-requests", when="@3.4.1:", type="run")
     depends_on("py-semver", when="@3.4.2:", type="run")
+    depends_on("py-filelock", when="@4.7:", type="run")
+    depends_on("py-tabulate", when="@4.7:", type="run")
 
     # extension dependencies
     depends_on("py-pygelf", when="+gelf", type="run")
@@ -144,7 +151,7 @@ class Reframe(Package):
 
     # sanity check
     sanity_check_is_file = ["bin/reframe"]
-    sanity_check_is_dir = ["bin", "config", "docs", "reframe", "tutorials", "unittests"]
+    sanity_check_is_dir = ["bin", "docs", "reframe"]
 
     # check if we can run reframe
     @run_after("install")

var/spack/repos/builtin/packages/serialbox/package.py

@@ -18,6 +18,7 @@ class Serialbox(CMakePackage):
 
     license("BSD-2-Clause")
 
+    version("2.6.2", sha256="d1b4c79078e3b1d4a45b7b024eb647d21873498ac666e41a5ee8b8e13c95a7ac")
     version("2.6.1", sha256="b795ce576e8c4fd137e48e502b07b136079c595c82c660cfa2e284b0ef873342")
     version("2.6.0", sha256="9199f8637afbd7f2b3c5ba932d1c63e9e14d553a0cafe6c29107df0e04ee9fae")
     version("2.5.4", sha256="f4aee8ef284f58e6847968fe4620e222ac7019d805bbbb26c199e4b6a5094fee")

var/spack/repos/builtin/packages/trexio/package.py

@@ -47,18 +47,16 @@ class Trexio(AutotoolsPackage, CMakePackage):
     depends_on("hdf5@1.8:+hl", when="@:2.3.0 +hdf5")
     depends_on("hdf5@1.8:", when="+hdf5")
 
-    # Append -lhdf5_hl to LIBS when hdf5 variant is activated
-    # or use --without-hdf5 option otherwise.
-
 
 class AutotoolsBuilder(autotools.AutotoolsBuilder):
     def configure_args(self):
         config_args = []
         if "+hdf5" in self.spec:
-            if self.spec("@:2.3.0"):
+            if self.spec.satisfies("@:2.3.0"):
+                # Autotools should take care of adding the necessary flags for HDF5
+                # In older versions, it is not always the case for "hdf5_hl"
+                # Append -lhdf5_hl to LIBS when hdf5 variant is activated
                 config_args.append("LIBS=-lhdf5_hl")
-            else:
-                config.args.append("LIBS=-lhdf5")
         else:
             config_args.append("--without-hdf5")
 

var/spack/repos/builtin/packages/yafyaml/package.py

@@ -31,6 +31,7 @@ class Yafyaml(CMakePackage):
 
     version("main", branch="main")
 
+    version("1.5.1", sha256="c9e7f873fdcb579fca53196f3a1ad68149dc6e980e6533e1119687f5a7463cc1")
     version("1.4.0", sha256="2a415087eb26d291ff40da4430d668c702d22601ed52a72d001140d97372bc7d")
     version("1.3.0", sha256="a3882210b2620485471e3337d995edc1e653b49d9caaa902a43293826a61a635")
     version("1.2.0", sha256="912a4248bbf2e2e84cf3e36f2ae8483bee6b32d2eaa4406dd2100ad660c9bfc6")