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sagemath: update to 9.7. Closes: #39876 [via git-merge-pr]
2022-10-10 05:49:01 +02:00
From 9feec282d039ca25bbefa50710f8217b775ce111 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Thu, 3 Mar 2022 14:47:00 -0300
Subject: gap: do not directly dlopen() the gap library
This needs the soname (as in sage.env.GAP_SO) which has issues for
system gap as explained in #33446.
Instead we dlopen() the extension module sage.libs.gap.util which,
having a link time dependency to libgap, will indirectly dlopen() it.
For the record: by the time we run dlopen() the libgap should be already
loaded. The purpose of doing it is to change mode to RTLD_GLOBAL so that
symbols in libgap are placed in the global symbol table. This is
required to compiled load gap packages.
An easy test that this is working ok is:
sage: libgap.LoadPackage("io")
true
This requires optional spkg `gap_packages` to be installed.
---
src/sage/libs/gap/util.pyx | 12 ++++++------
1 file changed, 6 insertions(+), 6 deletions(-)
diff --git a/src/sage/libs/gap/util.pyx b/src/sage/libs/gap/util.pyx
index 344ab88..aff604b 100644
--- a/src/sage/libs/gap/util.pyx
+++ b/src/sage/libs/gap/util.pyx
@@ -13,7 +13,7 @@ Utility functions for GAP
#*****************************************************************************
from libc.signal cimport signal, SIGCHLD, SIG_DFL
-from posix.dlfcn cimport dlopen, dlclose, RTLD_NOW, RTLD_GLOBAL
+from posix.dlfcn cimport dlopen, dlclose, dlerror, RTLD_LAZY, RTLD_GLOBAL
from cpython.exc cimport PyErr_Fetch, PyErr_Restore
from cpython.object cimport Py_LT, Py_LE, Py_EQ, Py_NE, Py_GT, Py_GE
@@ -232,12 +232,12 @@ cdef initialize():
# this isn't portable
cdef void* handle
- libgapname = str_to_bytes(sage.env.GAP_SO)
- handle = dlopen(libgapname, RTLD_NOW | RTLD_GLOBAL)
+ # reload the current module to force reload of libgap (see #33446)
+ lib = str_to_bytes(__loader__.path, FS_ENCODING, "surrogateescape")
+ handle = dlopen(lib, RTLD_GLOBAL|RTLD_LAZY)
if handle is NULL:
- raise RuntimeError(
- "Could not dlopen() libgap even though it should already "
- "be loaded!")
+ err = dlerror()
+ raise RuntimeError(f"Could not reload gap library with RTLD_GLOBAL ({err})")
dlclose(handle)
# Define argv variable, which we will pass in to
--
cgit v1.0-1-gd88e
From 704a7953b97ab726e2af610724726aa562bc8bf8 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Thu, 3 Mar 2022 23:00:07 -0300
Subject: singular: do not directly dlopen() the singular library
Same as for gap in the previous commit. Instead of requiring the soname
(as in sage.env.LIBSINGULAR_PATH) we dlopen() the extension module
sage.libs.singular.singular which will indirectly dlopen() libSingular.
---
src/sage/libs/singular/singular.pyx | 15 ++++-----------
1 file changed, 4 insertions(+), 11 deletions(-)
diff --git a/src/sage/libs/singular/singular.pyx b/src/sage/libs/singular/singular.pyx
index d8ea7b0..4beb177 100644
--- a/src/sage/libs/singular/singular.pyx
+++ b/src/sage/libs/singular/singular.pyx
@@ -1705,14 +1705,7 @@ cdef object si2sa_intvec(intvec *v):
cdef extern from *: # hack to get at cython macro
int unlikely(int)
-cdef extern from "dlfcn.h":
- void *dlopen(char *, long)
- char *dlerror()
- void dlclose(void *handle)
-
-cdef extern from "dlfcn.h":
- cdef long RTLD_LAZY
- cdef long RTLD_GLOBAL
+from posix.dlfcn cimport dlopen, dlclose, dlerror, RTLD_LAZY, RTLD_GLOBAL
cdef int overflow_check(unsigned long e, ring *_ring) except -1:
"""
@@ -1762,8 +1755,6 @@ cdef init_libsingular():
cdef void *handle = NULL
- from sage.env import LIBSINGULAR_PATH
- lib = str_to_bytes(LIBSINGULAR_PATH, FS_ENCODING, "surrogateescape")
# This is a workaround for https://github.com/Singular/Singular/issues/1113
# and can be removed once that fix makes it into release of Singular that
@@ -1780,10 +1771,12 @@ cdef init_libsingular():
import platform
if not platform.system().startswith("CYGWIN"):
+ # reload the current module to force reload of libSingular (see #33446)
+ lib = str_to_bytes(__loader__.path, FS_ENCODING, "surrogateescape")
handle = dlopen(lib, RTLD_GLOBAL|RTLD_LAZY)
if not handle:
err = dlerror()
- raise ImportError(f"cannot load Singular library from {LIBSINGULAR_PATH} ({err})")
+ raise RuntimeError(f"Could not reload Singular library with RTLD_GLOBAL ({err})")
# load SINGULAR
siInit(lib)
--
cgit v1.0-1-gd88e
From d7145c14ef58acfbe00d8f941d2802e96ad4ba15 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Fri, 4 Mar 2022 16:37:34 -0300
Subject: singular: remove LIBSINGULAR_PATH, no longer needed
---
build/pkgs/singular/spkg-configure.m4 | 63 +----------------------------------
pkgs/sage-conf/_sage_conf/_conf.py.in | 3 --
src/sage/env.py | 6 ----
3 files changed, 1 insertion(+), 71 deletions(-)
diff --git a/build/pkgs/singular/spkg-configure.m4 b/build/pkgs/singular/spkg-configure.m4
index af2eb85..6d3d3da 100644
--- a/build/pkgs/singular/spkg-configure.m4
+++ b/build/pkgs/singular/spkg-configure.m4
@@ -9,52 +9,7 @@ SAGE_SPKG_CONFIGURE([singular], [
AC_MSG_CHECKING([that Singular's help is working])
AS_IF([test x`printf "system(\"--browser\", \"builtin\"); \n help;" | Singular 2>&1 | grep "error\ occurred"` = x], [
AC_MSG_RESULT(yes)
- dnl We have Singular. Now determine the shared library path on
- dnl platforms on which sage.libs.singular needs to reload the library with RTLD_GLOBAL.
- AS_CASE([$host_os],
- [cygwin*], [dnl Nothing to do
- ],
- [dnl Use pkg-config to get singular's libdir while we're at it. As a
- dnl moral compromise for using pkg-config, this ultimately allows us
- dnl to pass an absolute path to dlopen(), which is the only approach
- dnl that POSIX guarantees will work.
- PKG_CHECK_VAR([SINGULAR_LIB_DIR], [Singular], [libdir])
- dnl The acl_shlibext variable is set in the top-level configure.ac.
- AC_LANG_PUSH(C)
- ORIG_LIBS="${LIBS}"
- LIBS="${LIBS} -ldl"
- AC_MSG_CHECKING([if we can dlopen($LIBSINGULAR_PATH)])
- LIBSINGULAR_PATH="${SINGULAR_LIB_DIR}/libSingular.${acl_shlibext}"
-
- dnl if we can dlopen() it, substitute the name for sage_conf;
- dnl otherwise, fall back to using the SPKG.
- AC_RUN_IFELSE(
- [AC_LANG_PROGRAM(
- [[#include <dlfcn.h>]],
- [[void* h = dlopen("${LIBSINGULAR_PATH}", RTLD_LAZY | RTLD_GLOBAL);
- if (h == 0) { return 1; } else { return dlclose(h); }]]
- )], [
- AC_MSG_RESULT(yes)
- ], [
- dnl try Debian-specific name
- LIBSINGULAR_PATH="${SINGULAR_LIB_DIR}/libsingular-Singular.${acl_shlibext}"
- AC_RUN_IFELSE(
- [AC_LANG_PROGRAM(
- [[#include <dlfcn.h>]],
- [[void* h = dlopen("${LIBSINGULAR_PATH}", RTLD_LAZY | RTLD_GLOBAL);
- if (h == 0) { return 1; } else { return dlclose(h); }]]
- )], [
- AC_MSG_RESULT(yes)
- ], [
- AC_MSG_RESULT(no)
- sage_spkg_install_singular=yes
- ], [AC_MSG_RESULT(yes)])
- ], [AC_MSG_RESULT(yes)])
-
- AC_LANG_POP()
- LIBS="${ORIG_LIBS}"
- ]
- )], [
+ ], [
AC_MSG_RESULT(no)
sage_spkg_install_singular=yes
]
@@ -64,20 +19,4 @@ SAGE_SPKG_CONFIGURE([singular], [
])
])
])
-],[],[],[
- dnl Post-check phase
- dnl We make the sage_conf substitutions here, because the "default"
- dnl substitution needs to be made even if we skipped the system-Singular
- dnl checks themselves.
- AS_IF([test "x${sage_spkg_install_singular}" = "xyes"], [
- AS_CASE([$host_os],
- [cygwin*], [dnl Nothing to do
- ],
- [dnl Set shared library path, needed for reloading the library with RTLD_GLOBAL
- LIBSINGULAR_PATH="\$SAGE_LOCAL/lib/libSingular.${acl_shlibext}"
- ]
- )
- ])
-
- AC_SUBST(LIBSINGULAR_PATH, "${LIBSINGULAR_PATH}")
])
diff --git a/pkgs/sage-conf/_sage_conf/_conf.py.in b/pkgs/sage-conf/_sage_conf/_conf.py.in
index 6cd28f5..d66bdb3 100644
--- a/pkgs/sage-conf/_sage_conf/_conf.py.in
+++ b/pkgs/sage-conf/_sage_conf/_conf.py.in
@@ -55,9 +55,6 @@ THREEJS_DIR = SAGE_LOCAL + "/share/threejs-sage"
OPENMP_CFLAGS = "@OPENMP_CFLAGS@"
OPENMP_CXXFLAGS = "@OPENMP_CXXFLAGS@"
-# The full absolute path to the main Singular library.
-LIBSINGULAR_PATH = "@LIBSINGULAR_PATH@".replace('$SAGE_LOCAL', SAGE_LOCAL)
-
# Installation location of wheels. This is determined at configuration time
# and does not depend on the installation location of sage-conf.
SAGE_SPKG_WHEELS = "@SAGE_VENV@".replace('${SAGE_LOCAL}', SAGE_LOCAL) + "/var/lib/sage/wheels"
diff --git a/src/sage/env.py b/src/sage/env.py
index 911f34b..93f79de 100644
--- a/src/sage/env.py
+++ b/src/sage/env.py
@@ -229,12 +229,6 @@ NTL_LIBDIR = var("NTL_LIBDIR")
LIE_INFO_DIR = var("LIE_INFO_DIR", join(SAGE_LOCAL, "lib", "LiE"))
SINGULAR_BIN = var("SINGULAR_BIN") or "Singular"
-# The path to libSingular, to be passed to dlopen(). This will
-# typically be set to an absolute path in sage_conf, but the relative
-# fallback path here works on systems where dlopen() searches the
-# system's library locations.
-LIBSINGULAR_PATH = var("LIBSINGULAR_PATH", "libSingular.so")
-
# OpenMP
OPENMP_CFLAGS = var("OPENMP_CFLAGS", "")
OPENMP_CXXFLAGS = var("OPENMP_CXXFLAGS", "")
--
cgit v1.0-1-gd88e
From 92e5a211c792f86f5325d601abfddf667da6a776 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Fri, 4 Mar 2022 15:49:26 -0300
Subject: Revert "src/sage/interfaces/gap_workspace.py: Use hash of GAP_SO to
disambiguate the workspace file, not SAGE_LOCAL"
This reverts commit a801e6d85bd420b60ea75b1671856eb43ac6b18b.
See #33446.
---
src/sage/interfaces/gap_workspace.py | 7 ++-----
1 file changed, 2 insertions(+), 5 deletions(-)
diff --git a/src/sage/interfaces/gap_workspace.py b/src/sage/interfaces/gap_workspace.py
index 33a87dd..953dc85 100644
--- a/src/sage/interfaces/gap_workspace.py
+++ b/src/sage/interfaces/gap_workspace.py
@@ -16,7 +16,7 @@ Support for (lib)GAP workspace files
import os
import time
import hashlib
-from sage.env import DOT_SAGE, GAP_SO
+from sage.env import DOT_SAGE, SAGE_LOCAL
def gap_workspace_file(system="gap", name="workspace", dir=None):
@@ -59,10 +59,7 @@ def gap_workspace_file(system="gap", name="workspace", dir=None):
if dir is None:
dir = os.path.join(DOT_SAGE, 'gap')
- if GAP_SO:
- h = hashlib.sha1(GAP_SO.encode('utf-8')).hexdigest()
- else:
- h = 'unknown'
+ h = hashlib.sha1(SAGE_LOCAL.encode('utf-8')).hexdigest()
return os.path.join(dir, '%s-%s-%s' % (system, name, h))
--
cgit v1.0-1-gd88e
From b45e555b5711ae10d369b568333940c2aa771053 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Fri, 4 Mar 2022 16:38:49 -0300
Subject: gap: remove GAP_SO, no longer needed
---
src/sage/env.py | 75 ---------------------------------------------------------
1 file changed, 75 deletions(-)
diff --git a/src/sage/env.py b/src/sage/env.py
index 93f79de..c16a094 100644
--- a/src/sage/env.py
+++ b/src/sage/env.py
@@ -249,81 +249,6 @@ if SAGE_GAP_MEMORY is not None:
SAGE_GAP_COMMAND = var('SAGE_GAP_COMMAND', _gap_cmd)
-def _get_shared_lib_path(*libnames: str) -> Optional[str]:
- """
- Return the full path to a shared library file installed in
- ``$SAGE_LOCAL/lib`` or the directories associated with the
- Python sysconfig.
-
- This can also be passed more than one library name (e.g. for cases where
- some library may have multiple names depending on the platform) in which
- case the first one found is returned.
-
- This supports most *NIX variants (in which ``lib<libname>.so`` is found
- under ``$SAGE_LOCAL/lib``), macOS (same, but with the ``.dylib``
- extension), and Cygwin (under ``$SAGE_LOCAL/bin/cyg<libname>.dll``,
- or ``$SAGE_LOCAL/bin/cyg<libname>-*.dll`` for versioned DLLs).
-
- For distributions like Debian that use a multiarch layout, we also try the
- multiarch lib paths (i.e. ``/usr/lib/<arch>/``).
-
- This returns ``None`` if no matching library file could be found.
-
- EXAMPLES::
-
- sage: from sage.env import _get_shared_lib_path
- sage: "gap" in _get_shared_lib_path("gap")
- True
- sage: _get_shared_lib_path("an_absurd_lib") is None
- True
-
- """
-
- for libname in libnames:
- search_directories: List[Path] = []
- patterns: List[str] = []
- if sys.platform == 'cygwin':
- # Later down we take the first matching DLL found, so search
- # SAGE_LOCAL first so that it takes precedence
- if SAGE_LOCAL:
- search_directories.append(Path(SAGE_LOCAL) / 'bin')
- search_directories.append(Path(sysconfig.get_config_var('BINDIR')))
- # Note: The following is not very robust, since if there are multible
- # versions for the same library this just selects one more or less
- # at arbitrary. However, practically speaking, on Cygwin, there
- # will only ever be one version
- patterns = [f'cyg{libname}.dll', f'cyg{libname}-*.dll']
- else:
- if sys.platform == 'darwin':
- ext = 'dylib'
- else:
- ext = 'so'
-
- if SAGE_LOCAL:
- search_directories.append(Path(SAGE_LOCAL) / 'lib')
- libdir = sysconfig.get_config_var('LIBDIR')
- if libdir is not None:
- libdir = Path(libdir)
- search_directories.append(libdir)
-
- multiarchlib = sysconfig.get_config_var('MULTIARCH')
- if multiarchlib is not None:
- search_directories.append(libdir / multiarchlib),
-
- patterns = [f'lib{libname}.{ext}']
-
- for directory in search_directories:
- for pattern in patterns:
- path = next(directory.glob(pattern), None)
- if path is not None:
- return str(path.resolve())
-
- # Just return None if no files were found
- return None
-
-# locate libgap shared object
-GAP_SO = var("GAP_SO", _get_shared_lib_path("gap", ""))
-
# post process
if DOT_SAGE is not None and ' ' in DOT_SAGE:
if UNAME[:6] == 'CYGWIN':
--
cgit v1.0-1-gd88e
From 31e3fc4ec8b8687bccd22d2e3161c86cf5553e06 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Gonzalo=20Tornar=C3=ADa?= <tornaria@cmat.edu.uy>
Date: Sun, 6 Mar 2022 12:10:37 -0300
Subject: gap_workspace_file: include hostname and gap version
---
src/sage/interfaces/gap_workspace.py | 11 ++++++++---
1 file changed, 8 insertions(+), 3 deletions(-)
diff --git a/src/sage/interfaces/gap_workspace.py b/src/sage/interfaces/gap_workspace.py
index 953dc85..8c03b6b 100644
--- a/src/sage/interfaces/gap_workspace.py
+++ b/src/sage/interfaces/gap_workspace.py
@@ -16,7 +16,8 @@ Support for (lib)GAP workspace files
import os
import time
import hashlib
-from sage.env import DOT_SAGE, SAGE_LOCAL
+import subprocess
+from sage.env import DOT_SAGE, SAGE_LOCAL, HOSTNAME, GAP_ROOT_DIR
def gap_workspace_file(system="gap", name="workspace", dir=None):
@@ -59,8 +60,12 @@ def gap_workspace_file(system="gap", name="workspace", dir=None):
if dir is None:
dir = os.path.join(DOT_SAGE, 'gap')
- h = hashlib.sha1(SAGE_LOCAL.encode('utf-8')).hexdigest()
- return os.path.join(dir, '%s-%s-%s' % (system, name, h))
+ data = SAGE_LOCAL
+ sysinfo = os.path.join(GAP_ROOT_DIR, "sysinfo.gap")
+ if os.path.exists(sysinfo):
+ data += subprocess.getoutput(f'. "{sysinfo}" && echo ":$GAP_VERSION:$GAParch"')
+ h = hashlib.sha1(data.encode('utf-8')).hexdigest()
+ return os.path.join(dir, '%s-%s-%s-%s' % (system, name, HOSTNAME, h))
def prepare_workspace_dir(dir=None):
--
cgit v1.0-1-gd88e