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auditwheel repair requires patchelf >= 0.14. #66

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krtschmr opened this issue Nov 6, 2022 · 5 comments
Closed

auditwheel repair requires patchelf >= 0.14. #66

krtschmr opened this issue Nov 6, 2022 · 5 comments

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@krtschmr
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krtschmr commented Nov 6, 2022 •
edited by ajnisbet
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Get:63 http://deb.debian.org/debian bullseye/main amd64 patchelf amd64 0.12-1 [61.9 kB]

⬆️ this seems to be the issue. is this on my end?

image

then docker system prune and retried, but same outcome

tim@virtual:~/rails/opentopodata$ docker system prune 
tim@virtual:~/rails/opentopodata$ docker system prune

WARNING! This will remove:

  - all stopped containers

  - all networks not used by at least one container

  - all dangling images

  - all dangling build cache



Are you sure you want to continue? [y/N] y

Deleted Containers:

36f0bbd34ec78607c80abc07158cf202ce1864a700c3355c186d84c9c8ecd716

f4cadf00732312bcff43e87481892fc64edb31b1cc18f7e8fd84ff10423d4984

94d6c5b56165081eaaffce56ad4f2e5bf79c82fe93cec8503271adc2fe460035



Deleted Images:

deleted: sha256:a929305d17fb4dad2cb010811e8fa8e00e63a71be0fc5632313060c74dc50650

deleted: sha256:509c766c41029b1e1dd193a9037e642acc31ed027dcbc7792bebd698d547c0be



Total reclaimed space: 363.5MB

tim@virtual:~/rails/opentopodata$ 

tim@virtual:~/rails/opentopodata$ 

tim@virtual:~/rails/opentopodata$ make build

docker build --tag opentopodata:`cat VERSION` --file docker/Dockerfile .

Sending build context to Docker daemon  33.02MB

Step 1/17 : FROM python:3.9.13-slim-bullseye as builder

 ---> 5da6ce3c33c6

Step 2/17 : RUN set -e &&     apt-get update &&     apt-get install -y --no-install-recommends         build-essential         gcc         libmemcached-dev         patchelf         python3.9-dev

 ---> Running in bd556d275925

Get:1 http://deb.debian.org/debian bullseye InRelease [116 kB]

Get:2 http://deb.debian.org/debian-security bullseye-security InRelease [48.4 kB]

Get:3 http://deb.debian.org/debian bullseye-updates InRelease [44.1 kB]

Get:4 http://deb.debian.org/debian bullseye/main amd64 Packages [8184 kB]

Get:5 http://deb.debian.org/debian-security bullseye-security/main amd64 Packages [194 kB]

Get:6 http://deb.debian.org/debian bullseye-updates/main amd64 Packages [14.6 kB]

Fetched 8600 kB in 1s (5803 kB/s)

Reading package lists...

Reading package lists...

Building dependency tree...

Reading state information...

The following additional packages will be installed:

  binutils binutils-common binutils-x86-64-linux-gnu bzip2 cpp cpp-10 dpkg-dev

  g++ g++-10 gcc-10 libasan6 libatomic1 libbinutils libc-dev-bin libc6

  libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libdpkg-perl libexpat1

  libexpat1-dev libgcc-10-dev libgdbm-compat4 libgomp1 libhashkit-dev

  libhashkit2 libisl23 libitm1 liblsan0 libmemcached11 libmemcachedutil2

  libmpc3 libmpdec3 libmpfr6 libnsl-dev libperl5.32 libpython3.9

  libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib libquadmath0

  libsasl2-2 libsasl2-dev libsasl2-modules-db libstdc++-10-dev libtirpc-dev

  libtsan0 libubsan1 linux-libc-dev make media-types patch perl

  perl-modules-5.32 python3.9 python3.9-minimal xz-utils zlib1g zlib1g-dev

Suggested packages:

  binutils-doc bzip2-doc cpp-doc gcc-10-locales debian-keyring g++-multilib

  g++-10-multilib gcc-10-doc gcc-multilib manpages-dev autoconf automake

  libtool flex bison gdb gcc-doc gcc-10-multilib glibc-doc libc-l10n locales

  gnupg sensible-utils git bzr libstdc++-10-doc make-doc ed diffutils-doc

  perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl

  libtap-harness-archive-perl python3.9-venv python3.9-doc binfmt-support

Recommended packages:

  fakeroot gnupg libalgorithm-merge-perl manpages manpages-dev libc-devtools

  libnss-nis libnss-nisplus libfile-fcntllock-perl liblocale-gettext-perl

  libsasl2-modules

The following NEW packages will be installed:

  binutils binutils-common binutils-x86-64-linux-gnu build-essential bzip2 cpp

  cpp-10 dpkg-dev g++ g++-10 gcc gcc-10 libasan6 libatomic1 libbinutils

  libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0

  libdpkg-perl libexpat1-dev libgcc-10-dev libgdbm-compat4 libgomp1

  libhashkit-dev libhashkit2 libisl23 libitm1 liblsan0 libmemcached-dev

  libmemcached11 libmemcachedutil2 libmpc3 libmpdec3 libmpfr6 libnsl-dev

  libperl5.32 libpython3.9 libpython3.9-dev libpython3.9-minimal

  libpython3.9-stdlib libquadmath0 libsasl2-2 libsasl2-dev libsasl2-modules-db

  libstdc++-10-dev libtirpc-dev libtsan0 libubsan1 linux-libc-dev make

  media-types patch patchelf perl perl-modules-5.32 python3.9 python3.9-dev

  python3.9-minimal xz-utils zlib1g-dev

The following packages will be upgraded:

  libc6 libexpat1 zlib1g

3 upgraded, 63 newly installed, 0 to remove and 11 not upgraded.

Need to get 84.6 MB of archives.

After this operation, 326 MB of additional disk space will be used.

Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-modules-5.32 all 5.32.1-4+deb11u2 [2823 kB]

Get:2 http://deb.debian.org/debian bullseye-updates/main amd64 libc6 amd64 2.31-13+deb11u5 [2825 kB]

Get:3 http://deb.debian.org/debian bullseye/main amd64 libgdbm-compat4 amd64 1.19-2 [44.7 kB]

Get:4 http://deb.debian.org/debian bullseye/main amd64 zlib1g amd64 1:1.2.11.dfsg-2+deb11u2 [91.4 kB]

Get:5 http://deb.debian.org/debian bullseye/main amd64 libperl5.32 amd64 5.32.1-4+deb11u2 [4106 kB]

Get:6 http://deb.debian.org/debian bullseye/main amd64 perl amd64 5.32.1-4+deb11u2 [293 kB]

Get:7 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB]

Get:8 http://deb.debian.org/debian-security bullseye-security/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB]

Get:9 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB]

Get:10 http://deb.debian.org/debian bullseye/main amd64 bzip2 amd64 1.0.8-4 [49.3 kB]

Get:11 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB]

Get:12 http://deb.debian.org/debian bullseye/main amd64 xz-utils amd64 5.2.5-2.1~deb11u1 [220 kB]

Get:13 http://deb.debian.org/debian bullseye/main amd64 binutils-common amd64 2.35.2-2 [2220 kB]

Get:14 http://deb.debian.org/debian bullseye/main amd64 libbinutils amd64 2.35.2-2 [570 kB]

Get:15 http://deb.debian.org/debian bullseye/main amd64 libctf-nobfd0 amd64 2.35.2-2 [110 kB]

Get:16 http://deb.debian.org/debian bullseye/main amd64 libctf0 amd64 2.35.2-2 [53.2 kB]

Get:17 http://deb.debian.org/debian bullseye/main amd64 binutils-x86-64-linux-gnu amd64 2.35.2-2 [1809 kB]

Get:18 http://deb.debian.org/debian bullseye/main amd64 binutils amd64 2.35.2-2 [61.2 kB]

Get:19 http://deb.debian.org/debian bullseye-updates/main amd64 libc-dev-bin amd64 2.31-13+deb11u5 [276 kB]

Get:20 http://deb.debian.org/debian-security bullseye-security/main amd64 linux-libc-dev amd64 5.10.149-2 [1551 kB]

Get:21 http://deb.debian.org/debian bullseye/main amd64 libcrypt-dev amd64 1:4.4.18-4 [104 kB]

Get:22 http://deb.debian.org/debian bullseye/main amd64 libtirpc-dev amd64 1.3.1-1+deb11u1 [191 kB]

Get:23 http://deb.debian.org/debian bullseye/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB]

Get:24 http://deb.debian.org/debian bullseye-updates/main amd64 libc6-dev amd64 2.31-13+deb11u5 [2359 kB]

Get:25 http://deb.debian.org/debian bullseye/main amd64 libisl23 amd64 0.23-1 [676 kB]

Get:26 http://deb.debian.org/debian bullseye/main amd64 libmpfr6 amd64 4.1.0-3 [2012 kB]

Get:27 http://deb.debian.org/debian bullseye/main amd64 libmpc3 amd64 1.2.0-1 [45.0 kB]

Get:28 http://deb.debian.org/debian bullseye/main amd64 cpp-10 amd64 10.2.1-6 [8528 kB]

Get:29 http://deb.debian.org/debian bullseye/main amd64 cpp amd64 4:10.2.1-1 [19.7 kB]

Get:30 http://deb.debian.org/debian bullseye/main amd64 libcc1-0 amd64 10.2.1-6 [47.0 kB]

Get:31 http://deb.debian.org/debian bullseye/main amd64 libgomp1 amd64 10.2.1-6 [99.9 kB]

Get:32 http://deb.debian.org/debian bullseye/main amd64 libitm1 amd64 10.2.1-6 [25.8 kB]

Get:33 http://deb.debian.org/debian bullseye/main amd64 libatomic1 amd64 10.2.1-6 [9008 B]

Get:34 http://deb.debian.org/debian bullseye/main amd64 libasan6 amd64 10.2.1-6 [2065 kB]

Get:35 http://deb.debian.org/debian bullseye/main amd64 liblsan0 amd64 10.2.1-6 [828 kB]

Get:36 http://deb.debian.org/debian bullseye/main amd64 libtsan0 amd64 10.2.1-6 [2000 kB]

Get:37 http://deb.debian.org/debian bullseye/main amd64 libubsan1 amd64 10.2.1-6 [777 kB]

Get:38 http://deb.debian.org/debian bullseye/main amd64 libquadmath0 amd64 10.2.1-6 [145 kB]

Get:39 http://deb.debian.org/debian bullseye/main amd64 libgcc-10-dev amd64 10.2.1-6 [2328 kB]

Get:40 http://deb.debian.org/debian bullseye/main amd64 gcc-10 amd64 10.2.1-6 [17.0 MB]

Get:41 http://deb.debian.org/debian bullseye/main amd64 gcc amd64 4:10.2.1-1 [5192 B]

Get:42 http://deb.debian.org/debian bullseye/main amd64 libstdc++-10-dev amd64 10.2.1-6 [1741 kB]

Get:43 http://deb.debian.org/debian bullseye/main amd64 g++-10 amd64 10.2.1-6 [9380 kB]

Get:44 http://deb.debian.org/debian bullseye/main amd64 g++ amd64 4:10.2.1-1 [1644 B]

Get:45 http://deb.debian.org/debian bullseye/main amd64 make amd64 4.3-4.1 [396 kB]

Get:46 http://deb.debian.org/debian bullseye/main amd64 libdpkg-perl all 1.20.12 [1551 kB]

Get:47 http://deb.debian.org/debian bullseye/main amd64 patch amd64 2.7.6-7 [128 kB]

Get:48 http://deb.debian.org/debian bullseye/main amd64 dpkg-dev all 1.20.12 [2312 kB]

Get:49 http://deb.debian.org/debian bullseye/main amd64 build-essential amd64 12.9 [7704 B]

Get:50 http://deb.debian.org/debian-security bullseye-security/main amd64 libexpat1-dev amd64 2.2.10-2+deb11u5 [141 kB]

Get:51 http://deb.debian.org/debian bullseye/main amd64 libhashkit2 amd64 1.0.18-4.2 [46.2 kB]

Get:52 http://deb.debian.org/debian bullseye/main amd64 libhashkit-dev amd64 1.0.18-4.2 [36.7 kB]

Get:53 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB]

Get:54 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB]

Get:55 http://deb.debian.org/debian bullseye/main amd64 libmemcached11 amd64 1.0.18-4.2 [94.5 kB]

Get:56 http://deb.debian.org/debian bullseye/main amd64 libmemcachedutil2 amd64 1.0.18-4.2 [22.3 kB]

Get:57 http://deb.debian.org/debian bullseye/main amd64 libsasl2-dev amd64 2.1.27+dfsg-2.1+deb11u1 [281 kB]

Get:58 http://deb.debian.org/debian bullseye/main amd64 libmemcached-dev amd64 1.0.18-4.2 [251 kB]

Get:59 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB]

Get:60 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB]

Get:61 http://deb.debian.org/debian bullseye/main amd64 libpython3.9 amd64 3.9.2-1 [1691 kB]

Get:62 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-dev amd64 3.9.2-1 [4028 kB]

Get:63 http://deb.debian.org/debian bullseye/main amd64 patchelf amd64 0.12-1 [61.9 kB]

Get:64 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB]

Get:65 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB]

Get:66 http://deb.debian.org/debian bullseye/main amd64 python3.9-dev amd64 3.9.2-1 [515 kB]

debconf: delaying package configuration, since apt-utils is not installed

Fetched 84.6 MB in 6s (13.9 MB/s)

Selecting previously unselected package perl-modules-5.32.

(Reading database ... 7031 files and directories currently installed.)

Preparing to unpack .../perl-modules-5.32_5.32.1-4+deb11u2_all.deb ...

Unpacking perl-modules-5.32 (5.32.1-4+deb11u2) ...

Preparing to unpack .../libc6_2.31-13+deb11u5_amd64.deb ...

debconf: unable to initialize frontend: Dialog

debconf: (TERM is not set, so the dialog frontend is not usable.)

debconf: falling back to frontend: Readline

debconf: unable to initialize frontend: Dialog

debconf: (TERM is not set, so the dialog frontend is not usable.)

debconf: falling back to frontend: Readline

Unpacking libc6:amd64 (2.31-13+deb11u5) over (2.31-13+deb11u3) ...

Setting up libc6:amd64 (2.31-13+deb11u5) ...

debconf: unable to initialize frontend: Dialog

debconf: (TERM is not set, so the dialog frontend is not usable.)

debconf: falling back to frontend: Readline

Selecting previously unselected package libgdbm-compat4:amd64.

(Reading database ... 8425 files and directories currently installed.)

Preparing to unpack .../libgdbm-compat4_1.19-2_amd64.deb ...

Unpacking libgdbm-compat4:amd64 (1.19-2) ...

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Unpacking zlib1g:amd64 (1:1.2.11.dfsg-2+deb11u2) over (1:1.2.11.dfsg-2+deb11u1) ...

Setting up zlib1g:amd64 (1:1.2.11.dfsg-2+deb11u2) ...

Selecting previously unselected package libperl5.32:amd64.

(Reading database ... 8431 files and directories currently installed.)

Preparing to unpack .../00-libperl5.32_5.32.1-4+deb11u2_amd64.deb ...

Unpacking libperl5.32:amd64 (5.32.1-4+deb11u2) ...

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Unpacking perl (5.32.1-4+deb11u2) ...

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Removing intermediate container bd556d275925

 ---> 59a80e612765

Step 3/17 : RUN pip config set global.disable-pip-version-check true &&     pip wheel --wheel-dir=/root/wheels uwsgi==2.0.19.1 &&     pip wheel --wheel-dir=/root/wheels regex==2021.11.10 &&     pip wheel --wheel-dir=/tmp/wheels pylibmc==1.6.1 &&     pip install --no-cache-dir auditwheel &&     auditwheel repair /tmp/wheels/pylibmc-*.whl -w /root/wheels --plat manylinux_2_27_x86_64

 ---> Running in 0b873bbcaeb0

Writing to /root/.config/pip/pip.conf

Collecting uwsgi==2.0.19.1

  Downloading uWSGI-2.0.19.1.tar.gz (803 kB)

     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 803.9/803.9 KB 10.0 MB/s eta 0:00:00

  Preparing metadata (setup.py): started

  Preparing metadata (setup.py): finished with status 'done'

Building wheels for collected packages: uwsgi

  Building wheel for uwsgi (setup.py): started

  Building wheel for uwsgi (setup.py): finished with status 'done'

  Created wheel for uwsgi: filename=uWSGI-2.0.19.1-cp39-cp39-linux_x86_64.whl size=510318 sha256=89e08f122446b5771ffea02d0a7129c51c8a38edcd1865261c2bebe894fad7e9

  Stored in directory: /root/.cache/pip/wheels/17/66/cf/112237fefe0b8011e4a481305ba799b696ece8590219bd527f

Successfully built uwsgi

Collecting regex==2021.11.10

  Downloading regex-2021.11.10-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (763 kB)

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Saved /root/wheels/regex-2021.11.10-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl

Collecting pylibmc==1.6.1

  Downloading pylibmc-1.6.1.tar.gz (64 kB)

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  Preparing metadata (setup.py): started

  Preparing metadata (setup.py): finished with status 'done'

Building wheels for collected packages: pylibmc

  Building wheel for pylibmc (setup.py): started

  Building wheel for pylibmc (setup.py): finished with status 'done'

  Created wheel for pylibmc: filename=pylibmc-1.6.1-cp39-cp39-linux_x86_64.whl size=34719 sha256=57bad210fba9b1fc7c836345d2d48af62c2d54490499f3b6748e32dcc15cd6a5

  Stored in directory: /root/.cache/pip/wheels/3c/07/69/ef98d2a15137c0196d1e9a0d27e01c7200f793491b83656755

Successfully built pylibmc

Collecting auditwheel

  Downloading auditwheel-5.2.1-py3-none-any.whl (53 kB)

     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 53.4/53.4 KB 7.8 MB/s eta 0:00:00

Collecting pyelftools>=0.24

  Downloading pyelftools-0.29-py2.py3-none-any.whl (174 kB)

     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 174.3/174.3 KB 10.6 MB/s eta 0:00:00

Installing collected packages: pyelftools, auditwheel

Successfully installed auditwheel-5.2.1 pyelftools-0.29

WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv

INFO:auditwheel.main_repair:Repairing pylibmc-1.6.1-cp39-cp39-linux_x86_64.whl

Traceback (most recent call last):

  File "/usr/local/bin/auditwheel", line 8, in <module>

    sys.exit(main())

  File "/usr/local/lib/python3.9/site-packages/auditwheel/main.py", line 59, in main

    rval = args.func(args, p)

  File "/usr/local/lib/python3.9/site-packages/auditwheel/main_repair.py", line 172, in execute

    patcher = Patchelf()

  File "/usr/local/lib/python3.9/site-packages/auditwheel/patcher.py", line 44, in __init__

    _verify_patchelf()

  File "/usr/local/lib/python3.9/site-packages/auditwheel/patcher.py", line 37, in _verify_patchelf

    raise ValueError(

ValueError: patchelf patchelf 0.12

 found. auditwheel repair requires patchelf >= 0.14.

The command '/bin/sh -c pip config set global.disable-pip-version-check true &&     pip wheel --wheel-dir=/root/wheels uwsgi==2.0.19.1 &&     pip wheel --wheel-dir=/root/wheels regex==2021.11.10 &&     pip wheel --wheel-dir=/tmp/wheels pylibmc==1.6.1 &&     pip install --no-cache-dir auditwheel &&     auditwheel repair /tmp/wheels/pylibmc-*.whl -w /root/wheels --plat manylinux_2_27_x86_64' returned a non-zero code: 1

make: *** [Makefile:5: build] Error 1
@ajnisbet
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ajnisbet commented Nov 7, 2022

Ah that's a pain, thanks for letting me know!

That autditwheel stuff was pretty hacky, I've removed it in the dev branch: master...dev

It'll probably be easier to cut a new release from dev than to fix this, I'll work on that in the next few days.

@ajnisbet
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ajnisbet commented Nov 7, 2022

(And in the meantime if you

git checkout dev
make build

that should work.)

@krtschmr
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krtschmr commented Nov 7, 2022

i didn't realized there are multi branches :-)
then i can try it out later myself. thanks for letting me know.

@ajnisbet
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ajnisbet commented Nov 7, 2022

No problem: I wouldn't recommend people using any other branches cause sometimes I try out and revert experimental features, but the automated CI tests seem to be passing!

Other options are to rollback to an older version of opentopodata

git checkout master
git checkout b3f34f517

or use the apple-silicon.Dockerfile image (which despite the name also works for x86/linux/windows, it's just slower to build and larger):

make build-m1

@ajnisbet
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ajnisbet commented Nov 8, 2022

This is now fixed in master, sorry you had to deal with a broken image, and thank you so much for bringing it to my attention!

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