diff options
Diffstat (limited to 'reproduce/software/patches')
6 files changed, 243 insertions, 60 deletions
diff --git a/reproduce/software/patches/README.md b/reproduce/software/patches/README.md new file mode 100644 index 0000000..804d7ec --- /dev/null +++ b/reproduce/software/patches/README.md @@ -0,0 +1,6 @@ +Patches to apply to software source +=================================== + +This directory is for keeping patches that may be necessary for some +versions of some software. So it may be empty in some instances (when no +software in that commit needs a patch). diff --git a/reproduce/software/patches/README.xz-5.2.5_src_liblzma_liblzma.map b/reproduce/software/patches/README.xz-5.2.5_src_liblzma_liblzma.map new file mode 100644 index 0000000..15e2787 --- /dev/null +++ b/reproduce/software/patches/README.xz-5.2.5_src_liblzma_liblzma.map @@ -0,0 +1,8 @@ +2022-07-14 B Roukema +xz-5.2.5_src_liblzma_liblzma.map is a patched version of xz-5.2.5/src/liblzma/liblzma.map +based on discussion at https://savannah.nongnu.org/bugs/index.php?62700 +and https://github.com/easybuilders/easybuild-easyconfigs/issues/14991 and +https://raw.githubusercontent.com/easybuilders/easybuild-easyconfigs/bcebb3320ffb63f9804ca8d4d64d1822ec7c9792/easybuild/easyconfigs/x/XZ/XZ-5.2.5_compat-libs.patch + +Since we don't yet have 'patch' in 'basic.mk', this file has to be copied +into place rather than patched. diff --git a/reproduce/software/patches/util-linux-2.38.1-macos.patch b/reproduce/software/patches/util-linux-2.38.1-macos.patch new file mode 100644 index 0000000..d89422d --- /dev/null +++ b/reproduce/software/patches/util-linux-2.38.1-macos.patch @@ -0,0 +1,114 @@ +From 3671d4a878fb58aa953810ecf9af41809317294f Mon Sep 17 00:00:00 2001 +From: Karel Zak <kzak@redhat.com> +Date: Mon, 4 Apr 2022 13:17:44 +0200 +Subject: [PATCH] build-sys: improve dependences for lib/procfs.c + +* add #ifdefs when use statfs() and include statfs.h or vfs.h + +Addresses: https://github.com/util-linux/util-linux/issues/1634 +Signed-off-by: Karel Zak <kzak@redhat.com> +--- + configure.ac | 2 ++ + include/statfs_magic.h | 4 +++- + lib/procfs.c | 15 +++++++++++++-- + misc-utils/hardlink.c | 2 +- + 4 files changed, 19 insertions(+), 4 deletions(-) + +diff --git a/configure.ac b/configure.ac +index 3fba95336a5b60b277d90615089093901fec723e..11c86b9a70809cbade98539b17fb2e1186984ebb 100644 +--- a/configure.ac ++++ b/configure.ac +@@ -346,6 +346,7 @@ AC_CHECK_HEADERS([ \ + sys/socket.h \ + sys/sockio.h \ + sys/stat.h \ ++ sys/statfs.h \ + sys/swap.h \ + sys/syscall.h \ + sys/sysmacros.h \ +@@ -355,6 +356,7 @@ AC_CHECK_HEADERS([ \ + sys/types.h \ + sys/ucred.h \ + sys/un.h \ ++ sys/vfs.h \ + sys/xattr.h \ + unistd.h \ + utmp.h \ +diff --git a/include/statfs_magic.h b/include/statfs_magic.h +index b6b0225e865aeb3c04610ecab177f3e95f1cc61a..67ad0af2595862795299f0bcdb7baa5778742185 100644 +--- a/include/statfs_magic.h ++++ b/include/statfs_magic.h +@@ -1,7 +1,9 @@ + #ifndef UTIL_LINUX_STATFS_MAGIC_H + #define UTIL_LINUX_STATFS_MAGIC_H + +-#include <sys/statfs.h> ++#ifdef HAVE_SYS_STATFS_H ++# include <sys/statfs.h> ++#endif + + /* + * If possible then don't depend on internal libc __SWORD_TYPE type. +diff --git a/lib/procfs.c b/lib/procfs.c +index 4d6d25b6d78eba56aada4cd9acacee4d2e69f656..0d58857c83b378cb1cb3baf00f88f992ff8dce1e 100644 +--- a/lib/procfs.c ++++ b/lib/procfs.c +@@ -6,9 +6,13 @@ + */ + #include <ctype.h> + #include <unistd.h> +-#include <sys/vfs.h> + #include <errno.h> + ++#ifdef HAVE_SYS_VFS_H ++# include <sys/vfs.h> ++# include "statfs_magic.h" ++#endif ++ + #include "c.h" + #include "pathnames.h" + #include "procfs.h" +@@ -16,7 +20,6 @@ + #include "all-io.h" + #include "debug.h" + #include "strutils.h" +-#include "statfs_magic.h" + + static void procfs_process_deinit_path(struct path_cxt *pc); + +@@ -356,6 +359,7 @@ int procfs_dirent_match_name(DIR *procfs, struct dirent *d, const char *name) + return 0; + } + ++#ifdef HAVE_SYS_VFS_H + /* checks if fd is file in a procfs; + * returns 1 if true, 0 if false or couldn't determine */ + int fd_is_procfs(int fd) +@@ -375,7 +379,14 @@ int fd_is_procfs(int fd) + } while (ret != 0); + + return st.f_type == STATFS_PROC_MAGIC; ++ return 0; + } ++#else ++int fd_is_procfs(int fd __attribute__((__unused__))) ++{ ++ return 0; ++} ++#endif + + static char *strdup_procfs_file(pid_t pid, const char *name) + { +diff --git a/misc-utils/hardlink.c b/misc-utils/hardlink.c +index dd55af12aab7903e6025d0a39ea020c2400300e8..08af2882c1359e41fba37377a08c9a18647b0f9f 100644 +--- a/misc-utils/hardlink.c ++++ b/misc-utils/hardlink.c +@@ -38,7 +38,7 @@ + #include <ctype.h> /* tolower() */ + #include <sys/ioctl.h> + +-#if defined(HAVE_LINUX_FIEMAP_H) ++#if defined(HAVE_LINUX_FIEMAP_H) && defined(HAVE_SYS_VFS_H) + # include <linux/fs.h> + # include <linux/fiemap.h> + # ifdef FICLONE diff --git a/reproduce/software/patches/valgrind-3.15.0-mpi-fix1.patch b/reproduce/software/patches/valgrind-3.15.0-mpi-fix1.patch deleted file mode 100644 index 94dcab5..0000000 --- a/reproduce/software/patches/valgrind-3.15.0-mpi-fix1.patch +++ /dev/null @@ -1,37 +0,0 @@ ---- - mpi/libmpiwrap.c | 12 +++++++++++- - 1 file changed, 11 insertions(+), 1 deletion(-) - Patch by Samuel Thibault: - https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=946329;msg=10 - and hacked further by Boud Roukema 2020-05-10. ---- a/mpi/libmpiwrap.c -+++ b/mpi/libmpiwrap.c -@@ -278,8 +278,12 @@ static void showTy ( FILE* f, MPI_Dataty - else if (ty == MPI_LONG_INT) fprintf(f,"LONG_INT"); - else if (ty == MPI_SHORT_INT) fprintf(f,"SHORT_INT"); - else if (ty == MPI_2INT) fprintf(f,"2INT"); -+# if defined(MPI_UB_ENABLED_IN_MPI1) - else if (ty == MPI_UB) fprintf(f,"UB"); -+# endif -+# if defined(MPI_LB_ENABLED_IN_MPI1) - else if (ty == MPI_LB) fprintf(f,"LB"); -+# endif - # if defined(MPI_WCHAR) - else if (ty == MPI_WCHAR) fprintf(f,"WCHAR"); - # endif -@@ -733,8 +737,14 @@ void walk_type ( void(*f)(void*,long), c - f(base + offsetof(Ty,loc), sizeof(int)); - return; - } -- if (ty == MPI_LB || ty == MPI_UB) -+#if defined(MPI_LB_ENABLED_IN_MPI1) -+ if (ty == MPI_LB) -+ return; /* have zero size, so nothing needs to be done */ -+#endif -+#if defined(MPI_UB_ENABLED_IN_MPI1) -+ if (ty == MPI_UB) - return; /* have zero size, so nothing needs to be done */ -+#endif - goto unhandled; - /*NOTREACHED*/ - } diff --git a/reproduce/software/patches/valgrind-3.15.0-mpi-fix2.patch b/reproduce/software/patches/valgrind-3.15.0-mpi-fix2.patch deleted file mode 100644 index 12b50a2..0000000 --- a/reproduce/software/patches/valgrind-3.15.0-mpi-fix2.patch +++ /dev/null @@ -1,23 +0,0 @@ -Index: valgrind-3.15.0/mpi/Makefile.am -=================================================================== - Patch by Samuel Thibault: - https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=946329;msg=22 ---- valgrind-3.15.0.orig/mpi/Makefile.am -+++ valgrind-3.15.0/mpi/Makefile.am -@@ -42,14 +42,14 @@ libmpiwrap_@VGCONF_ARCH_PRI@_@VGCONF_OS@ - libmpiwrap_@VGCONF_ARCH_PRI@_@VGCONF_OS@_so_CPPFLAGS = -I$(top_srcdir)/include - libmpiwrap_@VGCONF_ARCH_PRI@_@VGCONF_OS@_so_CFLAGS = \ - $(CFLAGS_MPI) $(MPI_FLAG_M3264_PRI) -Wno-deprecated-declarations --libmpiwrap_@VGCONF_ARCH_PRI@_@VGCONF_OS@_so_LDFLAGS = $(LDFLAGS_MPI) -+libmpiwrap_@VGCONF_ARCH_PRI@_@VGCONF_OS@_so_LDADD = $(LDFLAGS_MPI) - endif - if BUILD_MPIWRAP_SEC - libmpiwrap_@VGCONF_ARCH_SEC@_@VGCONF_OS@_so_SOURCES = libmpiwrap.c - libmpiwrap_@VGCONF_ARCH_SEC@_@VGCONF_OS@_so_CPPFLAGS = -I$(top_srcdir)/include - libmpiwrap_@VGCONF_ARCH_SEC@_@VGCONF_OS@_so_CFLAGS = \ - $(CFLAGS_MPI) $(MPI_FLAG_M3264_SEC) -Wno-deprecated-declarations --libmpiwrap_@VGCONF_ARCH_SEC@_@VGCONF_OS@_so_LDFLAGS = $(LDFLAGS_MPI) -+libmpiwrap_@VGCONF_ARCH_SEC@_@VGCONF_OS@_so_LDADD = $(LDFLAGS_MPI) - endif - - #---------------------------------------------------------------------------- diff --git a/reproduce/software/patches/xz-5.2.5_src_liblzma_liblzma.map b/reproduce/software/patches/xz-5.2.5_src_liblzma_liblzma.map new file mode 100644 index 0000000..8df17a9 --- /dev/null +++ b/reproduce/software/patches/xz-5.2.5_src_liblzma_liblzma.map @@ -0,0 +1,115 @@ +XZ_5.0 { +global: + lzma_alone_decoder; + lzma_alone_encoder; + lzma_auto_decoder; + lzma_block_buffer_bound; + lzma_block_buffer_decode; + lzma_block_buffer_encode; + lzma_block_compressed_size; + lzma_block_decoder; + lzma_block_encoder; + lzma_block_header_decode; + lzma_block_header_encode; + lzma_block_header_size; + lzma_block_total_size; + lzma_block_unpadded_size; + lzma_check_is_supported; + lzma_check_size; + lzma_code; + lzma_crc32; + lzma_crc64; + lzma_easy_buffer_encode; + lzma_easy_decoder_memusage; + lzma_easy_encoder; + lzma_easy_encoder_memusage; + lzma_end; + lzma_filter_decoder_is_supported; + lzma_filter_encoder_is_supported; + lzma_filter_flags_decode; + lzma_filter_flags_encode; + lzma_filter_flags_size; + lzma_filters_copy; + lzma_filters_update; + lzma_get_check; + lzma_index_append; + lzma_index_block_count; + lzma_index_buffer_decode; + lzma_index_buffer_encode; + lzma_index_cat; + lzma_index_checks; + lzma_index_decoder; + lzma_index_dup; + lzma_index_encoder; + lzma_index_end; + lzma_index_file_size; + lzma_index_hash_append; + lzma_index_hash_decode; + lzma_index_hash_end; + lzma_index_hash_init; + lzma_index_hash_size; + lzma_index_init; + lzma_index_iter_init; + lzma_index_iter_locate; + lzma_index_iter_next; + lzma_index_iter_rewind; + lzma_index_memusage; + lzma_index_memused; + lzma_index_size; + lzma_index_stream_count; + lzma_index_stream_flags; + lzma_index_stream_padding; + lzma_index_stream_size; + lzma_index_total_size; + lzma_index_uncompressed_size; + lzma_lzma_preset; + lzma_memlimit_get; + lzma_memlimit_set; + lzma_memusage; + lzma_mf_is_supported; + lzma_mode_is_supported; + lzma_physmem; + lzma_properties_decode; + lzma_properties_encode; + lzma_properties_size; + lzma_raw_buffer_decode; + lzma_raw_buffer_encode; + lzma_raw_decoder; + lzma_raw_decoder_memusage; + lzma_raw_encoder; + lzma_raw_encoder_memusage; + lzma_stream_buffer_bound; + lzma_stream_buffer_decode; + lzma_stream_buffer_encode; + lzma_stream_decoder; + lzma_stream_encoder; + lzma_stream_flags_compare; + lzma_stream_footer_decode; + lzma_stream_footer_encode; + lzma_stream_header_decode; + lzma_stream_header_encode; + lzma_version_number; + lzma_version_string; + lzma_vli_decode; + lzma_vli_encode; + lzma_vli_size; +}; + +XZ_5.1.2alpha { +global: + lzma_stream_encoder_mt; + lzma_stream_encoder_mt_memusage; +} XZ_5.0; + +XZ_5.2.2 { +global: + lzma_block_uncomp_encode; + lzma_cputhreads; + lzma_get_progress; + +local: + *; +} XZ_5.1.2alpha; + +XZ_5.2 { +} XZ_5.2.2; |