Merge remote-tracking branch 'origin/master' into rust-team

Change-Id: Ic45f7071abd6a02c2ccad411500e5103c8272ffb
author: Efraim Flashner <efraim@flashner.co.il> 2023-12-10 13:25:47 +0200
committer: Efraim Flashner <efraim@flashner.co.il> 2023-12-10 13:25:47 +0200
commit: 34eaf5714efcb847c9cba03a055a17e790c1d017 (patch)
tree: d9c534cac0e668052e6b3c5b11602d0773aa5068 /gnu/packages/patches
parent: 99f7f6457485d524c560bce428fb8c3997e2b553 (diff)
parent: 63e06f30ce20fa846a7e2e814976fefcd9eda7d3 (diff)
8 files changed, 348 insertions, 505 deletions
diff --git a/gnu/packages/patches/igraph-fix-varargs-integer-size.patch b/gnu/packages/patches/igraph-fix-varargs-integer-size.patch
new file mode 100644
index 0000000000..2d7ffd7e68
--- /dev/null
+++ b/gnu/packages/patches/igraph-fix-varargs-integer-size.patch
@@ -0,0 +1,39 @@
+If the size of int is different from IGRAPH_INTEGER_SIZE, the integer size
+passed to these vararg arguments is different from the assumed one,
+leading to undefined behavior.
+Submitted upstream: https://github.com/igraph/igraph/pull/2423
+
+
+diff -ur a/examples/simple/igraph_union.c b/examples/simple/igraph_union.c
+--- a/examples/simple/igraph_union.c
++++ b/examples/simple/igraph_union.c
+@@ -103,7 +103,7 @@
+     igraph_vector_ptr_init(&glist, 10);
+     for (i = 0; i < igraph_vector_ptr_size(&glist); i++) {
+         VECTOR(glist)[i] = calloc(1, sizeof(igraph_t));
+-        igraph_vector_int_init_int_end(&v, -1, i, i + 1, 1, 0, -1);
++        igraph_vector_int_init_int_end(&v, -1, (int) i, (int) i + 1, 1, 0, -1);
+         igraph_create(VECTOR(glist)[i], &v, 0, IGRAPH_DIRECTED);
+         igraph_vector_int_destroy(&v);
+     }
+@@ -123,7 +123,7 @@
+     igraph_vector_ptr_init(&glist, 10);
+     for (i = 0; i < igraph_vector_ptr_size(&glist); i++) {
+         VECTOR(glist)[i] = calloc(1, sizeof(igraph_t));
+-        igraph_vector_int_init_int_end(&v, -1, i, i + 1, 1, 0, -1);
++        igraph_vector_int_init_int_end(&v, -1, (int) i, (int) i + 1, 1, 0, -1);
+         igraph_create(VECTOR(glist)[i], &v, 0, IGRAPH_UNDIRECTED);
+         igraph_vector_int_destroy(&v);
+     }
+diff -ur a/src/core/matrix.pmt b/src/core/matrix.pmt
+--- a/src/core/matrix.pmt
++++ b/src/core/matrix.pmt
+@@ -1863,7 +1863,7 @@
+ #ifdef FPRINTFUNC_ALIGNED
+             FPRINTFUNC_ALIGNED(file, VECTOR(column_width)[j], MATRIX(*m, i, j));
+ #else
+-            fprintf(file, format, VECTOR(column_width)[j], MATRIX(*m, i, j));
++            fprintf(file, format, (int) VECTOR(column_width)[j], MATRIX(*m, i, j));
+ #endif
+         }
+         fprintf(file, "\n");
diff --git a/gnu/packages/patches/igt-gpu-tools-Use-libproc2.patch b/gnu/packages/patches/igt-gpu-tools-Use-libproc2.patch
deleted file mode 100644
index 131fea28fc..0000000000
--- a/gnu/packages/patches/igt-gpu-tools-Use-libproc2.patch
+++ /dev/null
@@ -1,505 +0,0 @@
-diff --git a/lib/igt_aux.c b/lib/igt_aux.c
-index 672d7d4b0..4c24b0928 100644
---- a/lib/igt_aux.c
-+++ b/lib/igt_aux.c
-@@ -52,8 +52,16 @@
- #include <assert.h>
- #include <grp.h>
- 
--#include <proc/readproc.h>
--#include <libudev.h>
-+#ifdef HAVE_LIBPROCPS
-+#  include <proc/readproc.h>
-+#else
-+#  include <libproc2/pids.h>
-+#endif
-+
-+#include <dirent.h>
-+#ifdef __linux__
-+#  include <libudev.h>
-+#endif
- 
- #include "drmtest.h"
- #include "i915_drm.h"
-@@ -1217,6 +1225,7 @@ void igt_unlock_mem(void)
-  */
- int igt_is_process_running(const char *comm)
- {
-+#if HAVE_LIBPROCPS
- 	PROCTAB *proc;
- 	proc_t *proc_info;
- 	bool found = false;
-@@ -1235,6 +1244,26 @@ int igt_is_process_running(const char *comm)
- 
- 	closeproc(proc);
- 	return found;
-+#else
-+	enum pids_item Item[] = { PIDS_CMD };
-+	struct pids_info *info = NULL;
-+	struct pids_stack *stack;
-+	char *pid_comm;
-+	bool found = false;
-+
-+	if (procps_pids_new(&info, Item, 1) < 0)
-+		return false;
-+	while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+		pid_comm = PIDS_VAL(0, str, stack, info);
-+		if (!strncasecmp(pid_comm, comm, strlen(pid_comm))) {
-+			found = true;
-+			break;
-+		}
-+	}
-+
-+	procps_pids_unref(&info);
-+	return found;
-+#endif
- }
- 
- /**
-@@ -1251,6 +1280,7 @@ int igt_is_process_running(const char *comm)
-  */
- int igt_terminate_process(int sig, const char *comm)
- {
-+#if HAVE_LIBPROCPS
- 	PROCTAB *proc;
- 	proc_t *proc_info;
- 	int err = 0;
-@@ -1272,6 +1302,28 @@ int igt_terminate_process(int sig, const char *comm)
- 
- 	closeproc(proc);
- 	return err;
-+#else
-+	enum pids_item Items[] = { PIDS_ID_PID, PIDS_CMD };
-+	struct pids_info *info = NULL;
-+	struct pids_stack *stack;
-+	char *pid_comm;
-+	int pid;
-+	int err = 0;
-+
-+	if (procps_pids_new(&info, Items, 2) < 0)
-+		return -errno;
-+	while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+		pid = PIDS_VAL(0, s_int, stack, info);
-+		pid_comm = PIDS_VAL(1, str, stack, info);
-+		if (!strncasecmp(pid_comm, comm, strlen(pid_comm))) {
-+			if (kill(pid, sig) < 0)
-+				err = -errno;
-+			break;
-+		}
-+	}
-+	procps_pids_unref(&info);
-+	return err;
-+#endif
- }
- 
- struct pinfo {
-@@ -1341,9 +1393,9 @@ igt_show_stat_header(void)
- }
- 
- static void
--igt_show_stat(proc_t *info, int *state, const char *fn)
-+igt_show_stat(const pid_t tid, const char *cmd, int *state, const char *fn)
- {
--	struct pinfo p = { .pid = info->tid, .comm = info->cmd, .fn = fn };
-+	struct pinfo p = { .pid = tid, .comm = cmd, .fn = fn };
- 
- 	if (!*state)
- 		igt_show_stat_header();
-@@ -1353,7 +1405,7 @@ igt_show_stat(proc_t *info, int *state, const char *fn)
- }
- 
- static void
--__igt_lsof_fds(proc_t *proc_info, int *state, char *proc_path, const char *dir)
-+__igt_lsof_fds(const pid_t tid, const char *cmd, int *state, char *proc_path, const char *dir)
- {
- 	struct dirent *d;
- 	struct stat st;
-@@ -1400,7 +1452,7 @@ again:
- 		dirn = dirname(copy_fd_lnk);
- 
- 		if (!strncmp(dir, dirn, strlen(dir)))
--			igt_show_stat(proc_info, state, fd_lnk);
-+			igt_show_stat(tid, cmd, state, fd_lnk);
- 
- 		free(copy_fd_lnk);
- 		free(fd_lnk);
-@@ -1416,13 +1468,13 @@ again:
- static void
- __igt_lsof(const char *dir)
- {
--	PROCTAB *proc;
--	proc_t *proc_info;
--
- 	char path[30];
- 	char *name_lnk;
- 	struct stat st;
- 	int state = 0;
-+#ifdef HAVE_LIBPROCPS
-+	PROCTAB *proc;
-+	proc_t *proc_info;
- 
- 	proc = openproc(PROC_FILLCOM | PROC_FILLSTAT | PROC_FILLARG);
- 	igt_assert(proc != NULL);
-@@ -1443,19 +1495,56 @@ __igt_lsof(const char *dir)
- 		name_lnk[read] = '\0';
- 
- 		if (!strncmp(dir, name_lnk, strlen(dir)))
--			igt_show_stat(proc_info, &state, name_lnk);
-+			igt_show_stat(proc_info->tid, proc_info->cmd, &state, name_lnk);
- 
- 		/* check also fd, seems that lsof(8) doesn't look here */
- 		memset(path, 0, sizeof(path));
- 		snprintf(path, sizeof(path), "/proc/%d/fd", proc_info->tid);
- 
--		__igt_lsof_fds(proc_info, &state, path, dir);
-+		__igt_lsof_fds(proc_info->tid, proc_info->cmd, &state, path, dir);
- 
- 		free(name_lnk);
- 		freeproc(proc_info);
- 	}
- 
- 	closeproc(proc);
-+#else
-+	enum pids_item Items[] = { PIDS_ID_PID, PIDS_CMD };
-+	struct pids_info *info = NULL;
-+	struct pids_stack *stack;
-+
-+	if (procps_pids_new(&info, Items, 2) < 0)
-+		return;
-+	while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+		ssize_t read;
-+		int tid = PIDS_VAL(0, s_int, stack, info);
-+		char *pid_comm = PIDS_VAL(1, str, stack, info);
-+
-+		/* check current working directory */
-+		memset(path, 0, sizeof(path));
-+		snprintf(path, sizeof(path), "/proc/%d/cwd", tid);
-+
-+		if (stat(path, &st) == -1)
-+			continue;
-+
-+		name_lnk = malloc(st.st_size + 1);
-+
-+		igt_assert((read = readlink(path, name_lnk, st.st_size + 1)));
-+		name_lnk[read] = '\0';
-+
-+		if (!strncmp(dir, name_lnk, strlen(dir)))
-+			igt_show_stat(tid, pid_comm, &state, name_lnk);
-+
-+		/* check also fd, seems that lsof(8) doesn't look here */
-+		memset(path, 0, sizeof(path));
-+		snprintf(path, sizeof(path), "/proc/%d/fd", tid);
-+
-+		__igt_lsof_fds(tid, pid_comm, &state, path, dir);
-+
-+		free(name_lnk);
-+	}
-+	procps_pids_unref(&info);
-+#endif
- }
- 
- /**
-@@ -1490,7 +1579,7 @@ igt_lsof(const char *dpath)
- 	free(sanitized);
- }
- 
--static void pulseaudio_unload_module(proc_t *proc_info)
-+static void pulseaudio_unload_module(const uid_t euid, const gid_t egid)
- {
- 	struct igt_helper_process pa_proc = {};
- 	char xdg_dir[PATH_MAX];
-@@ -1498,14 +1587,14 @@ static void pulseaudio_unload_module(proc_t *proc_info)
- 	struct passwd *pw;
- 
- 	igt_fork_helper(&pa_proc) {
--		pw = getpwuid(proc_info->euid);
-+		pw = getpwuid(euid);
- 		homedir = pw->pw_dir;
--		snprintf(xdg_dir, sizeof(xdg_dir), "/run/user/%d", proc_info->euid);
-+		snprintf(xdg_dir, sizeof(xdg_dir), "/run/user/%d", euid);
- 
- 		igt_info("Request pulseaudio to stop using audio device\n");
- 
--		setgid(proc_info->egid);
--		setuid(proc_info->euid);
-+		setgid(egid);
-+		setuid(euid);
- 		clearenv();
- 		setenv("HOME", homedir, 1);
- 		setenv("XDG_RUNTIME_DIR",xdg_dir, 1);
-@@ -1524,10 +1613,13 @@ static void pipewire_reserve_wait(void)
- 	char xdg_dir[PATH_MAX];
- 	const char *homedir;
- 	struct passwd *pw;
--	proc_t *proc_info;
--	PROCTAB *proc;
-+	int tid = 0, euid, egid;
- 
-+#ifdef HAVE_LIBPROCPS
- 	igt_fork_helper(&pw_reserve_proc) {
-+		proc_t *proc_info;
-+		PROCTAB *proc;
-+
- 		igt_info("Preventing pipewire-pulse to use the audio drivers\n");
- 
- 		proc = openproc(PROC_FILLCOM | PROC_FILLSTAT | PROC_FILLARG);
-@@ -1540,19 +1632,45 @@ static void pipewire_reserve_wait(void)
- 		}
- 		closeproc(proc);
- 
-+		tid = proc_info->tid;
-+		euid = proc_info->euid;
-+		egid = proc_info->egid;
-+		freeproc(proc_info);
-+#else
-+	igt_fork_helper(&pw_reserve_proc) {
-+		enum pids_item Items[] = { PIDS_ID_PID, PIDS_ID_EUID, PIDS_ID_EGID };
-+		enum rel_items { EU_PID, EU_EUID, EU_EGID };
-+		struct pids_info *info = NULL;
-+		struct pids_stack *stack;
-+
-+		igt_info("Preventing pipewire-pulse to use the audio drivers\n");
-+
-+		if (procps_pids_new(&info, Items, 3) < 0) {
-+			igt_info("error getting pids: %d\n", errno);
-+			exit(errno);
-+		}
-+		while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+			tid = PIDS_VAL(EU_PID, s_int, stack, info);
-+			if (pipewire_pulse_pid == tid)
-+				break;
-+		}
-+		euid = PIDS_VAL(EU_EUID, s_int, stack, info);
-+		egid = PIDS_VAL(EU_EGID, s_int, stack, info);
-+		procps_pids_unref(&info);
-+#endif
-+
- 		/* Sanity check: if it can't find the process, it means it has gone */
--		if (pipewire_pulse_pid != proc_info->tid)
-+		if (pipewire_pulse_pid != tid)
- 			exit(0);
- 
--		pw = getpwuid(proc_info->euid);
-+		pw = getpwuid(euid);
- 		homedir = pw->pw_dir;
--		snprintf(xdg_dir, sizeof(xdg_dir), "/run/user/%d", proc_info->euid);
--		setgid(proc_info->egid);
--		setuid(proc_info->euid);
-+		snprintf(xdg_dir, sizeof(xdg_dir), "/run/user/%d", euid);
-+		setgid(egid);
-+		setuid(euid);
- 		clearenv();
- 		setenv("HOME", homedir, 1);
- 		setenv("XDG_RUNTIME_DIR",xdg_dir, 1);
--		freeproc(proc_info);
- 
- 		/*
- 		 * pw-reserve will run in background. It will only exit when
-@@ -1570,9 +1688,7 @@ static void pipewire_reserve_wait(void)
- int pipewire_pulse_start_reserve(void)
- {
- 	bool is_pw_reserve_running = false;
--	proc_t *proc_info;
- 	int attempts = 0;
--	PROCTAB *proc;
- 
- 	if (!pipewire_pulse_pid)
- 		return 0;
-@@ -1584,6 +1700,10 @@ int pipewire_pulse_start_reserve(void)
- 	 * pipewire version 0.3.50 or upper.
- 	 */
- 	for (attempts = 0; attempts < PIPEWIRE_RESERVE_MAX_TIME; attempts++) {
-+#ifdef HAVE_LIBPROCPS
-+		PROCTAB *proc;
-+		proc_t *proc_info;
-+
- 		usleep(1000);
- 		proc = openproc(PROC_FILLCOM | PROC_FILLSTAT | PROC_FILLARG);
- 		igt_assert(proc != NULL);
-@@ -1598,6 +1718,24 @@ int pipewire_pulse_start_reserve(void)
- 			freeproc(proc_info);
- 		}
- 		closeproc(proc);
-+#else
-+		enum pids_item Items[] = { PIDS_ID_PID, PIDS_CMD };
-+		struct pids_info *info = NULL;
-+		struct pids_stack *stack;
-+
-+		usleep(1000);
-+
-+		if (procps_pids_new(&info, Items, 2) < 0)
-+			return 1;
-+		while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+			if (!strcmp(PIDS_VAL(1, str, stack, info), "pw-reserve")) {
-+				is_pw_reserve_running = true;
-+				pipewire_pw_reserve_pid = PIDS_VAL(0, s_int, stack, info);
-+				break;
-+			}
-+		}
-+		procps_pids_unref(&info);
-+#endif
- 		if (is_pw_reserve_running)
- 			break;
- 	}
-@@ -1645,7 +1783,7 @@ void pipewire_pulse_stop_reserve(void)
-  * If the check fails, it means that the process can simply be killed.
-  */
- static int
--__igt_lsof_audio_and_kill_proc(proc_t *proc_info, char *proc_path)
-+__igt_lsof_audio_and_kill_proc(const pid_t tid, const char *cmd, const uid_t euid, const gid_t egid, char *proc_path)
- {
- 	const char *audio_dev = "/dev/snd/";
- 	char path[PATH_MAX * 2];
-@@ -1670,10 +1808,10 @@ __igt_lsof_audio_and_kill_proc(proc_t *proc_info, char *proc_path)
- 	 * 2) unload/unbind the the audio driver(s);
- 	 * 3) stop the pw-reserve thread.
- 	 */
--	if (!strcmp(proc_info->cmd, "pipewire-pulse")) {
-+	if (!strcmp(cmd, "pipewire-pulse")) {
- 		igt_info("process %d (%s) is using audio device. Should be requested to stop using them.\n",
--			 proc_info->tid, proc_info->cmd);
--		pipewire_pulse_pid = proc_info->tid;
-+			 tid, cmd);
-+		pipewire_pulse_pid = tid;
- 		return 0;
- 	}
- 	/*
-@@ -1685,9 +1823,9 @@ __igt_lsof_audio_and_kill_proc(proc_t *proc_info, char *proc_path)
- 	 * will respawn them. So, just ignore here, they'll honor pw-reserve,
- 	 * when the time comes.
- 	 */
--	if (!strcmp(proc_info->cmd, "pipewire-media-session"))
-+	if (!strcmp(cmd, "pipewire-media-session"))
- 		return 0;
--	if (!strcmp(proc_info->cmd, "wireplumber"))
-+	if (!strcmp(cmd, "wireplumber"))
- 		return 0;
- 
- 	dp = opendir(proc_path);
-@@ -1723,22 +1861,22 @@ __igt_lsof_audio_and_kill_proc(proc_t *proc_info, char *proc_path)
- 		 * enough to unbind audio modules and won't cause race issues
- 		 * with systemd trying to reload it.
- 		 */
--		if (!strcmp(proc_info->cmd, "pulseaudio")) {
--			pulseaudio_unload_module(proc_info);
-+		if (!strcmp(cmd, "pulseaudio")) {
-+			pulseaudio_unload_module(euid, egid);
- 			break;
- 		}
- 
- 		/* For all other processes, just kill them */
- 		igt_info("process %d (%s) is using audio device. Should be terminated.\n",
--				proc_info->tid, proc_info->cmd);
-+				tid, cmd);
- 
--		if (kill(proc_info->tid, SIGTERM) < 0) {
-+		if (kill(tid, SIGTERM) < 0) {
- 			igt_info("Fail to terminate %s (pid: %d) with SIGTERM\n",
--				proc_info->cmd, proc_info->tid);
--			if (kill(proc_info->tid, SIGABRT) < 0) {
-+				cmd, tid);
-+			if (kill(tid, SIGABRT) < 0) {
- 				fail++;
- 				igt_info("Fail to terminate %s (pid: %d) with SIGABRT\n",
--					proc_info->cmd, proc_info->tid);
-+					cmd, tid);
- 			}
- 		}
- 
-@@ -1760,23 +1898,47 @@ int
- igt_lsof_kill_audio_processes(void)
- {
- 	char path[PATH_MAX];
-+	int fail = 0;
-+
-+#ifdef HAVE_LIBPROCPS
- 	proc_t *proc_info;
- 	PROCTAB *proc;
--	int fail = 0;
- 
- 	proc = openproc(PROC_FILLCOM | PROC_FILLSTAT | PROC_FILLARG);
- 	igt_assert(proc != NULL);
- 	pipewire_pulse_pid = 0;
--
- 	while ((proc_info = readproc(proc, NULL))) {
- 		if (snprintf(path, sizeof(path), "/proc/%d/fd", proc_info->tid) < 1)
- 			fail++;
- 		else
--			fail += __igt_lsof_audio_and_kill_proc(proc_info, path);
-+			fail += __igt_lsof_audio_and_kill_proc(proc_info->tid, proc_info->cmd, proc_info->euid, proc_info->egid, path);
- 
- 		freeproc(proc_info);
- 	}
- 	closeproc(proc);
-+#else
-+	enum pids_item Items[] = { PIDS_ID_PID, PIDS_CMD, PIDS_ID_EUID, PIDS_ID_EGID };
-+	enum rel_items { EU_PID, EU_CMD, EU_EUID, EU_EGID };
-+	struct pids_info *info = NULL;
-+	struct pids_stack *stack;
-+	pid_t tid;
-+
-+	if (procps_pids_new(&info, Items, 4) < 0)
-+		return 1;
-+	while ((stack = procps_pids_get(info, PIDS_FETCH_TASKS_ONLY))) {
-+		tid = PIDS_VAL(EU_PID, s_int, stack, info);
-+
-+		if (snprintf(path, sizeof(path), "/proc/%d/fd", tid) < 1)
-+			fail++;
-+		else
-+			fail += __igt_lsof_audio_and_kill_proc(tid,
-+				PIDS_VAL(EU_CMD, str, stack, info),
-+				PIDS_VAL(EU_EUID, s_int, stack, info),
-+				PIDS_VAL(EU_EGID, s_int, stack, info),
-+				path);
-+	}
-+	procps_pids_unref(&info);
-+#endif
- 
- 	return fail;
- }
-diff --git a/lib/meson.build b/lib/meson.build
-index 85f100f75..55efdc83b 100644
---- a/lib/meson.build
-+++ b/lib/meson.build
-@@ -114,7 +114,6 @@ lib_deps = [
- 	libdrm,
- 	libdw,
- 	libkmod,
--	libprocps,
- 	libudev,
- 	math,
- 	pciaccess,
-@@ -178,6 +177,12 @@ if chamelium.found()
- 	lib_sources += 'monitor_edids/monitor_edids_helper.c'
- endif
- 
-+if libprocps.found()
-+	lib_deps += libprocps
-+else
-+	lib_deps += libproc2
-+endif
-+
- if get_option('srcdir') != ''
-     srcdir = join_paths(get_option('srcdir'), 'tests')
- else
-diff --git a/meson.build b/meson.build
-index 1c872cc9c..0487158dc 100644
---- a/meson.build
-+++ b/meson.build
-@@ -125,7 +125,15 @@ build_info += 'With libdrm: ' + ','.join(libdrm_info)
- 
- pciaccess = dependency('pciaccess', version : '>=0.10')
- libkmod = dependency('libkmod')
--libprocps = dependency('libprocps', required : true)
-+libprocps = dependency('libprocps', required : false)
-+libproc2 = dependency('libproc2', required : false)
-+if libprocps.found()
-+  config.set('HAVE_LIBPROCPS', 1)
-+elif libproc2.found()
-+  config.set('HAVE_LIBPROC2', 1)
-+else
-+  error('Either libprocps or libproc2 is required')
-+endif
- 
- libunwind = dependency('libunwind', required : get_option('libunwind'))
- build_info += 'With libunwind: @0@'.format(libunwind.found())
diff --git a/gnu/packages/patches/plasp-fix-normalization.patch b/gnu/packages/patches/plasp-fix-normalization.patch
new file mode 100644
index 0000000000..dc2d3e4b98
--- /dev/null
+++ b/gnu/packages/patches/plasp-fix-normalization.patch
@@ -0,0 +1,51 @@
+From cddbfa3ade23695dd9996f6e208615702a3a42e1 Mon Sep 17 00:00:00 2001
+From: Liliana Marie Prikler <liliana.prikler@ist.tugraz.at>
+Date: Thu, 23 Nov 2023 09:53:38 +0100
+Subject: [PATCH 1/2] normalization: No longer work around compiler bugs in
+ Precondition.
+To: Patrick Lühne <patrick-github@luehne.de>
+Cc: Martin Gebser <martin.gebser@aau.at>
+
+Newer versions of GCC (such as GCC 11) point out that std::move is meaningless
+in this position, so remove it.
+---
+ lib/pddl/src/pddl/detail/normalization/Precondition.cpp | 9 +++------
+ 1 file changed, 3 insertions(+), 6 deletions(-)
+
+diff --git a/lib/pddl/src/pddl/detail/normalization/Precondition.cpp b/lib/pddl/src/pddl/detail/normalization/Precondition.cpp
+index 4eebfee..4297e52 100644
+--- a/lib/pddl/src/pddl/detail/normalization/Precondition.cpp
++++ b/lib/pddl/src/pddl/detail/normalization/Precondition.cpp
+@@ -83,8 +83,7 @@ normalizedAST::Literal normalizeNested(ast::AndPointer<ast::Precondition> &and_,
+ 
+ 	derivedPredicate->declaration->precondition = std::make_unique<normalizedAST::And<normalizedAST::Literal>>(std::move(normalizedArguments));
+ 
+-	// TODO: investigate, could be a compiler bug
+-	return std::move(derivedPredicate);
++	return derivedPredicate;
+ }
+ 
+ ////////////////////////////////////////////////////////////////////////////////////////////////////
+@@ -112,8 +111,7 @@ normalizedAST::Literal normalizeNested(ast::ExistsPointer<ast::Precondition> &ex
+ 			return normalizeTopLevel(x, normalizationContext);
+ 		});
+ 
+-	// TODO: investigate, could be a compiler bug
+-	return std::move(derivedPredicate);
++	return derivedPredicate;
+ }
+ 
+ ////////////////////////////////////////////////////////////////////////////////////////////////////
+@@ -174,8 +172,7 @@ normalizedAST::Literal normalizeNested(ast::OrPointer<ast::Precondition> &or_, d
+ 
+ 	derivedPredicate->declaration->precondition = std::make_unique<normalizedAST::Or<normalizedAST::Literal>>(std::move(normalizedArguments));
+ 
+-	// TODO: investigate, could be a compiler bug
+-	return std::move(derivedPredicate);
++	return derivedPredicate;
+ }
+ 
+ ////////////////////////////////////////////////////////////////////////////////////////////////////
+-- 
+2.41.0
+
diff --git a/gnu/packages/patches/plasp-include-iostream.patch b/gnu/packages/patches/plasp-include-iostream.patch
new file mode 100644
index 0000000000..9722e6fc03
--- /dev/null
+++ b/gnu/packages/patches/plasp-include-iostream.patch
@@ -0,0 +1,26 @@
+From 95c6a506e14cf248e2a3cae2ed3f41ed1eedf278 Mon Sep 17 00:00:00 2001
+From: Liliana Marie Prikler <liliana.prikler@ist.tugraz.at>
+Date: Thu, 23 Nov 2023 09:53:38 +0100
+Subject: [PATCH 2/2] app: Add missing #include <iostream>.
+To: Patrick Lühne <patrick-github@luehne.de>
+Cc: Martin Gebser <martin.gebser@aau.at>
+
+---
+ app/include/plasp-app/Command.h | 1 +
+ 1 file changed, 1 insertion(+)
+
+diff --git a/app/include/plasp-app/Command.h b/app/include/plasp-app/Command.h
+index 5755ee3..671804b 100644
+--- a/app/include/plasp-app/Command.h
++++ b/app/include/plasp-app/Command.h
+@@ -1,6 +1,7 @@
+ #ifndef __PLASP_APP__COMMAND_H
+ #define __PLASP_APP__COMMAND_H
+ 
++#include <iostream> // std::cout, std::endl
+ #include <tuple>
+ 
+ #include <cxxopts.hpp>
+-- 
+2.41.0
+
diff --git a/gnu/packages/patches/python-accupy-fix-use-of-perfplot.patch b/gnu/packages/patches/python-accupy-fix-use-of-perfplot.patch
new file mode 100644
index 0000000000..5b874e0056
--- /dev/null
+++ b/gnu/packages/patches/python-accupy-fix-use-of-perfplot.patch
@@ -0,0 +1,48 @@
+From 567558a4eb9b73ab30f9e469b36091eccf445f80 Mon Sep 17 00:00:00 2001
+From: Felix Gruber <felgru@posteo.net>
+Date: Sun, 23 Apr 2023 16:48:59 +0200
+Subject: [PATCH] Fix use of perfplot.
+
+data tuples are unpacked by perfplot before it calls the kernel
+functions.
+---
+ tests/test_dot.py | 16 ++++++++--------
+ 1 file changed, 8 insertions(+), 8 deletions(-)
+
+diff --git a/tests/test_dot.py b/tests/test_dot.py
+index a8160fe..51307ad 100644
+--- a/tests/test_dot.py
++++ b/tests/test_dot.py
+@@ -76,10 +76,10 @@ def test_speed_comparison1(n_range=None):
+     perfplot.plot(
+         setup=lambda n: (np.random.rand(n, 100), np.random.rand(100, n)),
+         kernels=[
+-            lambda xy: np.dot(*xy),
+-            lambda xy: accupy.kdot(*xy, K=2),
+-            lambda xy: accupy.kdot(*xy, K=3),
+-            lambda xy: accupy.fdot(*xy),
++            lambda x, y: np.dot(x, y),
++            lambda x, y: accupy.kdot(x, y, K=2),
++            lambda x, y: accupy.kdot(x, y, K=3),
++            lambda x, y: accupy.fdot(x, y),
+         ],
+         labels=["np.dot", "accupy.kdot[2]", "accupy.kdot[3]", "accupy.fdot"],
+         n_range=n_range,
+@@ -96,10 +96,10 @@ def test_speed_comparison2(n_range=None):
+     perfplot.plot(
+         setup=lambda n: (np.random.rand(100, n), np.random.rand(n, 100)),
+         kernels=[
+-            lambda xy: np.dot(*xy),
+-            lambda xy: accupy.kdot(*xy, K=2),
+-            lambda xy: accupy.kdot(*xy, K=3),
+-            lambda xy: accupy.fdot(*xy),
++            lambda x, y: np.dot(x, y),
++            lambda x, y: accupy.kdot(x, y, K=2),
++            lambda x, y: accupy.kdot(x, y, K=3),
++            lambda x, y: accupy.fdot(x, y),
+         ],
+         labels=["np.dot", "accupy.kdot[2]", "accupy.kdot[3]", "accupy.fdot"],
+         n_range=n_range,
+-- 
+2.39.2
+
diff --git a/gnu/packages/patches/python-accupy-use-matplotx.patch b/gnu/packages/patches/python-accupy-use-matplotx.patch
new file mode 100644
index 0000000000..f3dd17da22
--- /dev/null
+++ b/gnu/packages/patches/python-accupy-use-matplotx.patch
@@ -0,0 +1,113 @@
+From 1da1ed24cfba8a051b6c2f452a67ebfee77ca040 Mon Sep 17 00:00:00 2001
+From: Felix Gruber <felgru@posteo.net>
+Date: Sun, 23 Apr 2023 15:42:19 +0200
+Subject: [PATCH] Use dufte style from matplotx.
+
+The stand-alone dufte package has been deprecated in favor of the dufte
+style that has been integrated into matplotx.
+---
+ tests/test_dot.py  | 10 +++++-----
+ tests/test_sums.py | 12 ++++++------
+ tox.ini            |  2 +-
+ 3 files changed, 12 insertions(+), 12 deletions(-)
+
+diff --git a/tests/test_dot.py b/tests/test_dot.py
+index 0a40a0c..a8160fe 100644
+--- a/tests/test_dot.py
++++ b/tests/test_dot.py
+@@ -1,5 +1,5 @@
+-import dufte
+ import matplotlib.pyplot as plt
++import matplotx
+ import numpy as np
+ import perfplot
+ import pytest
+@@ -33,7 +33,7 @@ def test_fdot(cond):
+ 
+ 
+ def test_accuracy_comparison_illcond(target_cond=None):
+-    plt.style.use(dufte.style)
++    plt.style.use(matplotx.styles.dufte)
+ 
+     if target_cond is None:
+         target_cond = [10 ** k for k in range(2)]
+@@ -61,13 +61,13 @@ def test_accuracy_comparison_illcond(target_cond=None):
+     for label, d in zip(labels, data.T):
+         plt.loglog(condition_numbers, d, label=label)
+ 
+-    dufte.legend()
++    matplotx.line_labels()
+     plt.xlabel("condition number")
+-    dufte.ylabel("relative error")
++    matplotx.ylabel_top("relative error")
+ 
+ 
+ def test_speed_comparison1(n_range=None):
+-    plt.style.use(dufte.style)
++    plt.style.use(matplotx.styles.dufte)
+ 
+     if n_range is None:
+         n_range = [2 ** k for k in range(2)]
+diff --git a/tests/test_sums.py b/tests/test_sums.py
+index 1c0f6b0..8cd9ddb 100644
+--- a/tests/test_sums.py
++++ b/tests/test_sums.py
+@@ -1,5 +1,5 @@
+-import dufte
+ import matplotlib.pyplot as plt
++import matplotx
+ import numpy as np
+ import perfplot
+ import pytest
+@@ -32,7 +32,7 @@ def test_fsum(cond):
+ 
+ 
+ def test_accuracy_comparison_illcond(target_conds=None):
+-    plt.style.use(dufte.style)
++    plt.style.use(matplotx.styles.dufte)
+ 
+     if target_conds is None:
+         target_conds = [10 ** k for k in range(1, 2)]
+@@ -71,14 +71,14 @@ def test_accuracy_comparison_illcond(target_conds=None):
+     for label, color, d in zip(labels, colors, data.T):
+         plt.loglog(condition_numbers, d, label=label, color=color)
+ 
+-    dufte.legend()
++    matplotx.line_labels()
+     plt.xlabel("condition number")
+-    dufte.ylabel("relative error")
++    matplotx.ylabel_top("relative error")
+     # plt.gca().set_aspect(1.3)
+ 
+ 
+ def test_speed_comparison1(n_range=None):
+-    plt.style.use(dufte.style)
++    plt.style.use(matplotx.styles.dufte)
+ 
+     if n_range is None:
+         n_range = [2 ** k for k in range(2)]
+@@ -109,7 +109,7 @@ def test_speed_comparison1(n_range=None):
+ 
+ 
+ def test_speed_comparison2(n_range=None):
+-    plt.style.use(dufte.style)
++    plt.style.use(matplotx.styles.dufte)
+ 
+     if n_range is None:
+         n_range = [2 ** k for k in range(2)]
+diff --git a/tox.ini b/tox.ini
+index 79a53ec..524b3bc 100644
+--- a/tox.ini
++++ b/tox.ini
+@@ -4,7 +4,7 @@ isolated_build = True
+ 
+ [testenv]
+ deps =
+-    dufte
++    matplotx
+     perfplot
+     pytest
+     pytest-cov
+-- 
+2.39.2
+
diff --git a/gnu/packages/patches/python-sphinx-prompt-docutils-0.19.patch b/gnu/packages/patches/python-sphinx-prompt-docutils-0.19.patch
new file mode 100644
index 0000000000..01c1879f1c
--- /dev/null
+++ b/gnu/packages/patches/python-sphinx-prompt-docutils-0.19.patch
@@ -0,0 +1,35 @@
+From a885c54d54e71a089b916502f1c222ef14a07a93 Mon Sep 17 00:00:00 2001
+From: =?UTF-8?q?St=C3=A9phane=20Brunner?= <stephane.brunner@camptocamp.com>
+Date: Mon, 15 Aug 2022 10:41:40 +0200
+Subject: [PATCH] Fix the tests
+
+---
+ tests/test_sphinx_prompt.py | 12 +++++++++++-
+ 1 file changed, 11 insertions(+), 1 deletion(-)
+
+diff --git a/tests/test_sphinx_prompt.py b/tests/test_sphinx_prompt.py
+index 47d16c5..6a31798 100644
+--- a/tests/test_sphinx_prompt.py
++++ b/tests/test_sphinx_prompt.py
+@@ -1,3 +1,7 @@
++from io import StringIO
++
++import docutils.statemachine
++import docutils.utils
+ import pytest
+ 
+ sphinx_prompt = __import__("sphinx_prompt")
+@@ -150,6 +154,12 @@
+ def test(arguments, options, content, expected):
+     sphinx_prompt._cache.next_index = 1
+     sphinx_prompt._cache.prompts.clear()
+-    directive = sphinx_prompt.PromptDirective("prompt", arguments, options, content, 0, 0, "", None, None)
++    stream = StringIO()
++    reporter = docutils.utils.Reporter("test data", 2, 4, stream, 1)
++    statemachine = docutils.statemachine.StateMachine([], None)
++    setattr(statemachine, "reporter", reporter)
++    directive = sphinx_prompt.PromptDirective(
++        "prompt", arguments, options, content, 0, 0, "", None, statemachine
++    )
+     result = directive.run()
+     assert result[0].astext() == expected
diff --git a/gnu/packages/patches/zig-use-baseline-cpu-by-default.patch b/gnu/packages/patches/zig-use-baseline-cpu-by-default.patch
new file mode 100644
index 0000000000..be78d9c6c7
--- /dev/null
+++ b/gnu/packages/patches/zig-use-baseline-cpu-by-default.patch
@@ -0,0 +1,36 @@
+From 1dc188129950031243c5a0c80ec2562fab8ec549 Mon Sep 17 00:00:00 2001
+From: Ekaitz Zarraga <ekaitz@elenq.tech>
+Date: Sat, 18 Nov 2023 15:04:16 +0100
+Subject: [PATCH] Use `baseline` cpu by default.
+
+This helps Guix tune the package later. Tunning will only add
+`-Dcpu=whatever` which should override the standard behaviour.
+
+Zig by default uses `native`, which interferes with our build process.
+In our previous zig-build-system we chose to add `-Dcpu=baseline` flag
+in each `zig build` execution, but that doesn't allow us to tune the
+package later. Tunning is only designed to add extra flags in the
+command line call, and we already had one set for the baseline case.
+With this patch we set the standard behavior to `baseline` so we don't
+need to add the `-Dcpu=baseline` flag in the zig-build-system and we can
+tune with no issues.
+---
+ lib/std/zig/CrossTarget.zig | 2 +-
+ 1 file changed, 1 insertion(+), 1 deletion(-)
+
+diff --git a/lib/std/zig/CrossTarget.zig b/lib/std/zig/CrossTarget.zig
+index 6c59a4a3a..f5ec065fe 100644
+--- a/lib/std/zig/CrossTarget.zig
++++ b/lib/std/zig/CrossTarget.zig
+@@ -12,7 +12,7 @@ const mem = std.mem;
+ /// `null` means native.
+ cpu_arch: ?Target.Cpu.Arch = null,
+ 
+-cpu_model: CpuModel = CpuModel.determined_by_cpu_arch,
++cpu_model: CpuModel = CpuModel.baseline,
+ 
+ /// Sparse set of CPU features to add to the set from `cpu_model`.
+ cpu_features_add: Target.Cpu.Feature.Set = Target.Cpu.Feature.Set.empty,
+-- 
+2.41.0
+
author	Efraim Flashner <efraim@flashner.co.il>	2023-12-10 13:25:47 +0200
committer	Efraim Flashner <efraim@flashner.co.il>	2023-12-10 13:25:47 +0200
commit	34eaf5714efcb847c9cba03a055a17e790c1d017 (patch)
tree	d9c534cac0e668052e6b3c5b11602d0773aa5068 /gnu/packages/patches
parent	99f7f6457485d524c560bce428fb8c3997e2b553 (diff)
parent	63e06f30ce20fa846a7e2e814976fefcd9eda7d3 (diff)