pmdk: Update to 1.8

Licence-Update: Update copyright headers and drop jeamalloc [1]

* Drop upstreamed patch
* Drop jemalloc patch, its no longer applicable
* Fix build with gcc10

[1] https://github.com/pmem/pmdk/commit/bd13816e7c784430343bcc2a7b53314ab998bf62#diff-9879d6db96fd29134fc802214163b95a

Signed-off-by: Khem Raj <raj.khem@gmail.com>

meta-oe/recipes-extended/pmdk/files/0001-examples-Initialize-child_idx.patch

@@ -0,0 +1,47 @@
+From 721a48e5397bd4ab454482041e55671eae7b189f Mon Sep 17 00:00:00 2001
+From: Khem Raj <raj.khem@gmail.com>
+Date: Mon, 11 May 2020 18:01:11 -0700
+Subject: [PATCH] examples: Initialize child_idx
+
+Assign UINT_MAX and assert it
+
+Fixes warning
+rtree_map.c:358:12: error: 'child_idx' may be used uninitialized
+in this function [-Werror=maybe-uninitialized]
+
+Upstream-Status: Submitted [https://github.com/pmem/pmdk/pull/4802]
+Signed-off-by: Khem Raj <raj.khem@gmail.com>
+---
+ src/examples/libpmemobj/tree_map/rtree_map.c | 4 +++-
+ 1 file changed, 3 insertions(+), 1 deletion(-)
+
+diff --git a/src/examples/libpmemobj/tree_map/rtree_map.c b/src/examples/libpmemobj/tree_map/rtree_map.c
+index 995e22bb9..6b3ead65c 100644
+--- a/src/examples/libpmemobj/tree_map/rtree_map.c
++++ b/src/examples/libpmemobj/tree_map/rtree_map.c
+@@ -8,6 +8,7 @@
+ #include <ex_common.h>
+ #include <assert.h>
+ #include <errno.h>
++#include <limits.h>
+ #include <stdlib.h>
+ #include <stdbool.h>
+ 
+@@ -320,12 +321,13 @@ has_only_one_child(TOID(struct tree_map_node) node, unsigned *child_idx)
+ static void
+ remove_extra_node(TOID(struct tree_map_node) *node)
+ {
+-	unsigned child_idx;
++	unsigned child_idx = UINT_MAX;
+ 	TOID(struct tree_map_node) tmp, tmp_child;
+ 
+ 	/* Our node has child with only one child. */
+ 	tmp = *node;
+ 	has_only_one_child(tmp, &child_idx);
++	assert(child_idx != UINT_MAX);
+ 	tmp_child = D_RO(tmp)->slots[child_idx];
+ 
+ 	/*
+-- 
+2.26.2
+

meta-oe/recipes-extended/pmdk/files/0001-jemalloc-jemalloc.cfg-Specify-the-host-when-building.patch

@@ -1,29 +0,0 @@
-From 231eb4c75fbfaaf90bca7702bdaf55cf701a3527 Mon Sep 17 00:00:00 2001
-From: Alistair Francis <alistair.francis@wdc.com>
-Date: Mon, 23 Jul 2018 11:23:39 -0700
-Subject: [PATCH] jemalloc/jemalloc.cfg: Specify the host when building
- jemalloc
-
-To avoid this error:
-    configure: error: cannot run C compiled programs.
-    If you meant to cross compile, use `--host'.
-when cross compiling specify the host when configuring jemalloc.
-
-Signed-off-by: Alistair Francis <alistair.francis@wdc.com>
-Upstream-Status: Inappropriate [configuration]
----
- src/jemalloc/jemalloc.cfg | 1 +
- 1 file changed, 1 insertion(+)
-
-diff --git a/src/jemalloc/jemalloc.cfg b/src/jemalloc/jemalloc.cfg
-index 196129de6..79ebbab1c 100644
---- a/src/jemalloc/jemalloc.cfg
-+++ b/src/jemalloc/jemalloc.cfg
-@@ -3,3 +3,4 @@
- --with-private-namespace=je_vmem_
- --disable-xmalloc
- --disable-munmap
-+--host=${HOST_SYS}
--- 
-2.14.4
-

meta-oe/recipes-extended/pmdk/files/0001-os_posix-Use-__FreeBSD__-to-control-secure_getenv-de.patch

@@ -1,33 +0,0 @@
-From 7d0732d69a774e28bc46b8b487d9f61bdd8afbff Mon Sep 17 00:00:00 2001
-From: Khem Raj <raj.khem@gmail.com>
-Date: Sun, 6 Oct 2019 18:15:44 -0700
-Subject: [PATCH] os_posix: Use __FreeBSD__ to control secure_getenv definition
-
-__USE_GNU does not cover all Linux platforms, e.g. when using musl as C
-library, __USE_GNU may not be defined but it does provide secure_getenv
-so instead of narrowing the else condition, lets speicifically check for
-FreeBSD being the platform, since that seems to be the intention here
-anyway
-
-Upstream-Status: Submitted [https://github.com/pmem/pmdk/pull/3999]
-Signed-off-by: Khem Raj <raj.khem@gmail.com>
----
- src/common/os_posix.c | 2 +-
- 1 file changed, 1 insertion(+), 1 deletion(-)
-
-diff --git a/src/common/os_posix.c b/src/common/os_posix.c
-index a9a37ef84..052db2383 100644
---- a/src/common/os_posix.c
-+++ b/src/common/os_posix.c
-@@ -346,7 +346,7 @@ os_setenv(const char *name, const char *value, int overwrite)
- /*
-  * secure_getenv -- provide GNU secure_getenv for FreeBSD
-  */
--#ifndef __USE_GNU
-+#if defined(__FreeBSD__)
- static char *
- secure_getenv(const char *name)
- {
--- 
-2.23.0
-

meta-oe/recipes-extended/pmdk/pmdk_1.8.bb

@@ -3,7 +3,7 @@ DESCRIPTION = "Persistent Memory Development Kit"
 HOMEPAGE = "http://pmem.io"
 SECTION = "libs"
 LICENSE = "BSD-3-Clause"
-LIC_FILES_CHKSUM = "file://LICENSE;md5=7db1106255a1baa80391fd2e21eebab7"
+LIC_FILES_CHKSUM = "file://LICENSE;md5=1b8430f251523f1bff0c9fb95da7e0ca"
 DEPENDS = "ndctl"
 
 # Required to have the fts.h header for musl
@@ -12,12 +12,11 @@ DEPENDS_append_libc-musl = " fts"
 S = "${WORKDIR}/git"
 
 SRC_URI = "git://github.com/pmem/pmdk.git \
-           file://0001-jemalloc-jemalloc.cfg-Specify-the-host-when-building.patch \
+           file://0001-examples-Initialize-child_idx.patch \
            file://0002-Makefile-Don-t-install-the-docs.patch \
-           file://0001-os_posix-Use-__FreeBSD__-to-control-secure_getenv-de.patch \
           "
 
-SRCREV = "bc5e309485df61c452d08367e4b13ba9dfed5071"
+SRCREV = "0245d75eaf0f6106c86a7926a45fdf2149e37eaa"
 
 inherit autotools-brokensep pkgconfig
 
@@ -31,6 +30,10 @@ EXTRA_OEMAKE = "BUILD_EXAMPLES='n' HOST_SYS='${HOST_SYS}' EXTRA_CFLAGS='${SELECT
 # Fix the missing fts libs when using musl
 EXTRA_OEMAKE_append_libc-musl = " EXTRA_LIBS='-lfts'"
 
+do_configure_prepend() {
+	touch .skip-doc
+}
+
 do_install() {
 	oe_runmake prefix=${prefix} DESTDIR=${D} install