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Bug 633712

Summary: dev-lang/python fails to cross-compile: libffi not found
Product: Gentoo Linux Reporter: Ilia Pavlikhin <owl>
Component: Current packagesAssignee: Python Gentoo Team <python>
Status: RESOLVED WORKSFORME    
Severity: normal CC: arm64, kentnl, sam
Priority: Normal    
Version: unspecified   
Hardware: AMD64   
OS: Linux   
Whiteboard:
Package list:
Runtime testing required: ---
Attachments: python.3.4.5-build.log
python.3.6.3-build.log
patch to add --sysroot option to CFLAGS/LDFLAGS

Description Ilia Pavlikhin 2017-10-07 17:17:23 UTC
dev-lang/python-3.4.5:3.4/3.4m crash while building throw crossdev (arm64 on adm64) emerge. When build with host system emerge - all is fine.

Reproducible: Always

Steps to Reproduce:
1. crossdev -S -v -t aarch64-unknown-linux-gnu --genv 'USE="cxx multilib fortran -mudflap nls openmp -sanitize"'
2. echo ">dev-lang/python-3.4.5" >> /usr/aarch64-unknown-linux-gnu/etc/portage/package.mask
3. aarch64-unknown-linux-gnu-emerge -va python
Actual Results:  
In build.log I recieve this line:

error: [Errno 2] No such file or directory: '/usr/aarch64-unknown-linux-gnu/tmp/portage/dev-lang/python-3.4.5/work/Python-3.4.5/Modules/_ctypes/libffi'

And build is failed.

Expected Results:  
Builded and installed package.

Portage 2.3.8 (python 3.4.5-final-0, default/linux/arm64/13.0, gcc-5.4.0, unavailable, 4.12.12-gentoo x86_64)
=================================================================
System uname: Linux-4.12.12-gentoo-x86_64-Intel-R-_Xeon-R-_CPU_D-1541_@_2.10GHz-with-gentoo-2.3
KiB Mem:    65933640 total,  47872812 free
KiB Swap:   63737852 total,  63737852 free
Timestamp of repository gentoo: Sat, 07 Oct 2017 07:30:01 +0000
Head commit of repository gentoo: e6ac6cd2cf934ed317f541a7ff651c90c9474c47
sh bash 4.3_p48-r1
ld GNU ld (Gentoo 2.26.1 p1.0) 2.26.1
app-shells/bash:    4.4_p12::gentoo
dev-lang/python:    2.7.14::gentoo
sys-apps/openrc:    0.32::gentoo
sys-apps/sandbox:   2.12::gentoo
sys-devel/binutils: 2.29.1::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000

ACCEPT_KEYWORDS="arm64 ~arm64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -fomit-frame-pointer"
CHOST="aarch64-unknown-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/easy-rsa /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O2 -pipe -fomit-frame-pointer"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2"
FEATURES="assume-digests binpkg-logs buildpkg config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync multilib-strict news nodoc noinfo noman parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LC_ALL="ru_RU.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
PKGDIR="/usr/aarch64-unknown-linux-gnu/packages/"
PORTAGE_CONFIGROOT="/usr/aarch64-unknown-linux-gnu/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git"
PORTAGE_TMPDIR="/usr/aarch64-unknown-linux-gnu/tmp/"
USE="acl arm64 berkdb bzip2 cli cracklib crypt cxx dri fortran gdbm iconv ipv6 modules multilib ncurses nls nptl openmp pcre readline seccomp session ssl tcpd unicode xattr zlib" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_ARM="edsp neon thumb thumb2 v4 v5 v6 v7 v8 vfp vfp-d32 vfpv3 vfpv4" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="libinput keyboard mouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6" POSTGRES_TARGETS="postgres9_5" PYTHON_SINGLE_TARGET="python3_4" PYTHON_TARGETS="python2_7 python3_4" RUBY_TARGETS="ruby21 ruby22" USERLAND="GNU" VIDEO_CARDS="fbdev dummy v4l" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CC, CPPFLAGS, CTARGET, CXX, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, MAKEOPTS, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
Comment 1 Ilia Pavlikhin 2017-10-07 17:18:01 UTC
Created attachment 498050 [details]
python.3.4.5-build.log
Comment 2 Ilia Pavlikhin 2017-10-07 18:17:08 UTC
Created attachment 498052 [details]
python.3.6.3-build.log
Comment 3 Ilia Pavlikhin 2017-10-07 18:18:32 UTC
Bug reproduced with python 3.6.3. System libffi installed ih host system:

[ebuild   R    ] dev-libs/libffi-3.2.1::gentoo  USE="-debug -pax_kernel -static-libs {-test}" ABI_X86="(64) -32 (-x32)" 0 KiB

and chroot system:

[ebuild   R    ] dev-libs/libffi-3.2.1::gentoo to /usr/aarch64-unknown-linux-gnu/ USE="-debug -pax_kernel -static-libs {-test}" 0 KiB
Comment 4 Reva Denis 2019-12-03 05:55:38 UTC
Bug reproduced with python 3.7
Comment 5 Scott Howard 2020-05-07 17:12:16 UTC
I think the libffi cross build installs into the wrong location, or at least into a location poorly suited to the task at hand.

My workaround for this, which worked for me for aarch64 and python3.6, is to create two symlinks:

ln -sv ../lib/libffi/include/ffi.h /usr/aarch64-unknown-linux-gnu/usr/include/ffi.h
ln -sv ../lib/libffi/include/ffitarget.h /usr/aarch64-unknown-linux-gnu/usr/include/ffitarget.h

If those paths aren't the exact ones on your host/target combination, find them with:

find /usr/aarch64-unknown-linux-gnu -name "ffi.h"
Comment 6 Kent Fredric (IRC: kent\n) (RETIRED) gentoo-dev 2020-10-12 19:00:11 UTC
py3.6 > warning: building with the bundled copy of libffi is deprecated on this platform.  It will not be distributed with Python 3.7

py3.7 > checking for --with-system-ffi... yes
> configure: WARNING: --with(out)-system-ffi is ignored on this platform

py3.8 > configure: WARNING: --with(out)-system-ffi is ignored on this platform

So it seems that at least since py3.7, the additional handling in the ebuilds for making sure things use system libffi are redundant.
Comment 7 Alex Kovryhin 2021-04-05 20:58:06 UTC
I can confirm this issue on python:3.8

It looks like the whole lib and include dirs discovery is broken for "setup.py build" when cross-compiling - it fails to build a few modules because "the necessary bits were not found" (sqlite3, zlib)

I think that the most elegant way to fix this would be to use "--sysroot" parameter of the compiler/linker, setup.py already parses it and appends to search paths (this fixes the build), but that also affects build stage where libs/includes are already discovered correctly.

Another option would be to patch SYSROOT discovery in setup.py

So I am not sure which workaround is the best, any ideas?

(In reply to Scott Howard from comment #5)
> I think the libffi cross build installs into the wrong location, or at least
> into a location poorly suited to the task at hand.

I believe this behaviour is correct, it is explained in libffi ebuild, https://gitweb.gentoo.org/repo/gentoo.git/tree/dev-libs/libffi/libffi-3.3-r2.ebuild#n61
Comment 8 Alex Kovryhin 2021-04-05 20:59:40 UTC
Created attachment 697809 [details, diff]
patch to add --sysroot option to CFLAGS/LDFLAGS
Comment 9 Alex Kovryhin 2021-07-17 15:12:41 UTC
With dev-lang/python-3.9.5_p2 this issue does not happen
Comment 10 Sam James archtester Gentoo Infrastructure gentoo-dev Security 2021-10-14 04:40:31 UTC
(In reply to Alex Kovryhin from comment #9)
> With dev-lang/python-3.9.5_p2 this issue does not happen

Thank you.
Comment 11 manphiz 2021-12-06 02:28:53 UTC
Hi,

I seem to have reproduced this issue with "dev-lang/python-3.9.9" when trying to do crossdev for mips64el.  Relevant logs:

```
mips64el-unknown-linux-gnu-gcc -fPIC -Wno-unused-result -Wsign-compare -DNDEBUG -march=loongson2f -Wa,-mfix-loongson2f-nop -O2 -pipe -fwrapv -std=c99 -Wextra -Wno-unused-result -Wno-unused-parameter -Wno-missing-field-initializers -Wstrict-prototypes -Werror=implicit-function-declaration -fvisibility=hidden -I./Include/internal -I./Include -I. -I/usr/mips64el-unknown-linux-gnu/usr/include/ncursesw -I/usr/mips64el-unknown-linux-gnu/usr/include -I/usr/mips64el-unknown-linux-gnu/tmp/portage/dev-lang/python-3.9.9/work/Python-3.9.9/Include -I/usr/mips64el-unknown-linux-gnu/tmp/portage/dev-lang/python-3.9.9/work/Python-3.9.9 -c /usr/mips64el-unknown-linux-gnu/tmp/portage/dev-lang/python-3.9.9/work/Python-3.9.9/Modules/_ctypes/_ctypes.c -o build/temp.linux-mips64el-3.9/usr/mips64el-unknown-linux-gnu/tmp/portage/dev-lang/python-3.9.9/work/Python-3.9.9/Modules/_ctypes/_ctypes.o -DPy_BUILD_CORE_MODULE                          
/usr/mips64el-unknown-linux-gnu/tmp/portage/dev-lang/python-3.9.9/work/Python-3.9.9/Modules/_ctypes/_ctypes.c:107:10: fatal error: ffi.h: No such file or directory                       
  107 | #include <ffi.h>                                                                                                                                                                  
      |          ^~~~~~~                                                                                                                                                                  
compilation terminated.                                                                                                                                                                   
                                                                                                                                                                                          
Python build finished successfully!                                                                                                                                                       
The necessary bits to build these optional modules were not found:                                                                                                                        
_bz2                  _curses               _curses_panel                                                                                                                                 
_dbm                  _gdbm                 _lzma                                                                                                                                         
_tkinter              readline              zlib                                                                                                                                          
To find the necessary bits, look in setup.py in detect_modules() for the module's name.                                                                                                   
                                                                                                                                                                                          
                                                                                                                                                                                          
The following modules found by detect_modules() in setup.py, have been                                                                                                                    
built by the Makefile instead, as configured by the Setup files:                                                                                                                          
_abc                  atexit                pwd                                                                                                                                           
time                                                                                                                                                                                      
                                                                                                                                                                                          
                                                                                                                                                                                          
Failed to build these modules:                                                                                                                                                            
_ctypes                                                                                                                                                                                   

```

My "emerge --info":
```
Portage 3.0.28 (python 3.9.9-final-0, default/linux/amd64/17.1, gcc-11.2.0, glibc-2.33-r7, 5.10.78-gentoo-dist x86_64)
=================================================================
System uname: Linux-5.10.78-gentoo-dist-x86_64-Intel-R-_Core-TM-_i7-4558U_CPU_@_2.80GHz-with-glibc2.33
KiB Mem:     8150292 total,   5945968 free
KiB Swap:   10485756 total,  10485756 free
Timestamp of repository gentoo: Sun, 05 Dec 2021 00:45:01 +0000
Head commit of repository gentoo: f860b3e4f444f2bc3b9c474c2438a0d42c1a6d21
sh bash 5.1_p8
ld GNU ld (Gentoo 2.37_p1 p0) 2.37
app-shells/bash:          5.1_p8::gentoo
dev-lang/perl:            5.34.0-r3::gentoo
dev-lang/python:          3.9.9::gentoo, 3.10.0_p1::gentoo
sys-apps/baselayout:      2.7-r3::gentoo
sys-apps/openrc:          0.44.9::gentoo
sys-apps/sandbox:         2.25::gentoo
sys-devel/autoconf:       2.71-r1::gentoo
sys-devel/automake:       1.16.4::gentoo
sys-devel/binutils:       2.37_p1::gentoo
sys-devel/gcc:            11.2.0::gentoo
sys-devel/gcc-config:     2.4::gentoo
sys-devel/libtool:        2.4.6-r6::gentoo
sys-devel/make:           4.3::gentoo
sys-kernel/linux-headers: 5.10-r1::gentoo (virtual/os-headers)
sys-libs/glibc:           2.33-r7::gentoo
Repositories:

gentoo
    location: /var/db/repos/gentoo
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-extra-opts: 
    sync-rsync-verify-max-age: 24
    sync-rsync-verify-jobs: 1
    sync-rsync-verify-metamanifest: yes

crossdev
    location: /var/db/repos/crossdev
    masters: gentoo
    priority: 10

ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="@FREE"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=native -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/gconf /etc/gentoo-release /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-march=native -O2 -pipe"
DISTDIR="/var/cache/distfiles"
ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR"
FCFLAGS="-march=native -O2 -pipe"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-march=native -O2 -pipe"
GENTOO_MIRRORS="https://gentoo.osuosl.org/"
LANG="en_US.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
PKGDIR="/var/cache/binpkgs"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git"
PORTAGE_TMPDIR="/var/tmp"
USE="acl amd64 bzip2 cli crypt dri fortran gdbm iconv ipv6 libglvnd libtirpc multilib ncurses nls nptl openmp pam pcre readline seccomp split-usr ssl unicode xattr zlib" ABI_X86="64" ADA_TARGET="gnat_2020" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="mmx mmxext sse sse2" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="libinput" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-3 php7-4" POSTGRES_TARGETS="postgres12 postgres13" PYTHON_SINGLE_TARGET="python3_9" PYTHON_TARGETS="python3_9" RUBY_TARGETS="ruby26 ruby27" USERLAND="GNU" VIDEO_CARDS="amdgpu fbdev intel nouveau radeon radeonsi vesa dummy v4l" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq proto steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CC, CPPFLAGS, CTARGET, CXX, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, LINGUAS, MAKEOPTS, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RUSTFLAGS
```
Comment 12 manphiz 2021-12-06 03:10:48 UTC
For now the workaround in https://bugs.gentoo.org/633712#c5 still works.  It would still be great for it to be fixed.
Comment 13 Larry the Git Cow gentoo-dev 2022-12-06 19:39:16 UTC
The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3478cabb5f94e9d90ae1ed9e3f7909a1146aa471

commit 3478cabb5f94e9d90ae1ed9e3f7909a1146aa471
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2022-12-06 19:35:41 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2022-12-06 19:38:51 +0000

    dev-lang/python: disable _ctypes, _crypt for cross (CBUILD) Python
    
    * Use a hack to deduce libdir to nudge the build system in the right
      direction because get_libdir can't handle BROOT/CBUILD right now.
    
    * Disable _ctypes (libffi) and _crypt (lib(x)crypt) modules for cross (CBUILD)
      Python as they're not needed and Python struggles to find the libraries
      correctly.
    
      This avoids an issue where setup.py can't handle deducing libdir
      (or even being passed it) for cross-compilation. Fortunately, cpython
      is migrating away from setup.py to autotools.
    
    Note that this isn't the same as what bug 633712 would've been at the time
    it was reported, but it certainly showed up the same way on more modern
    Pythons since we introduced the CBUILD part a few months ago.
    
    Bug: https://bugs.gentoo.org/633712
    Bug: https://bugs.gentoo.org/794181
    Bug: https://bugs.gentoo.org/864911
    Signed-off-by: Sam James <sam@gentoo.org>

 dev-lang/python/python-3.10.8_p3.ebuild     | 13 +++++++++++--
 dev-lang/python/python-3.11.0_p2.ebuild     | 13 +++++++++++--
 dev-lang/python/python-3.12.0_alpha2.ebuild | 13 +++++++++++--
 dev-lang/python/python-3.8.15_p3.ebuild     | 13 +++++++++++--
 dev-lang/python/python-3.9.15_p3.ebuild     | 13 +++++++++++--
 5 files changed, 55 insertions(+), 10 deletions(-)