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From "Ngin Yun Chuan (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (SINGA-409) [Singa 1.2.0] Basic `singa-cpu` import throws error
Date Fri, 23 Nov 2018 09:20:00 GMT

    [ https://issues.apache.org/jira/browse/SINGA-409?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16696552#comment-16696552
] 

Ngin Yun Chuan commented on SINGA-409:
--------------------------------------

Hi wangwei,

Thanks for the link to understanding more about shared libraries! I've read it.

Just after the fix has been pushed, I went to try installing `singa-cpu=1.2.0` again, using
the same Dockerfile as above. However, the _exact_ same error as _above_ occurs. 

Below is my `conda list`:

{noformat}
# packages in environment at /usr/local/envs/rafiki:
#
# Name                    Version                   Build  Channel
blas                      1.0                         mkl
ca-certificates           2018.03.07                    0
certifi                   2018.10.15               py36_0
click                     7.0                      py36_0
flask                     1.0.2                    py36_1
flask-cors                3.0.7                    py36_0
freetype                  2.9.1                h8a8886c_1
future                    0.17.1                   py36_0
glog                      0.3.4                         0
intel-openmp              2019.1                      144
itsdangerous              1.1.0                    py36_0
jinja2                    2.10                     py36_0
jpeg                      9b                   h024ee3a_2
libedit                   3.1.20170329         h6b74fdf_2
libffi                    3.2.1                hd88cf55_4
libgcc                    4.8.5                         2
libgcc-ng                 8.2.0                hdf63c60_1
libgfortran               3.0.0                         1
libgfortran-ng            7.3.0                hdf63c60_0
libpng                    1.6.35               hbc83047_0
libprotobuf               3.6.1                hd408876_0
libstdcxx-ng              8.2.0                hdf63c60_1
libtiff                   4.0.9                he85c1e1_2
markupsafe                1.1.0            py36h7b6447c_0
mkl                       2018.0.3                      1
mkl_fft                   1.0.6            py36h7dd41cf_0
mkl_random                1.0.1            py36h4414c95_1
ncurses                   6.1                  hf484d3e_0
numpy                     1.15.4           py36h1d66e8a_0
numpy-base                1.15.4           py36h81de0dd_0
olefile                   0.46                     py36_0
openblas                  0.2.19                        0
openssl                   1.1.1a               h7b6447c_0
pillow                    5.3.0            py36h34e0f95_0
pip                       18.1                     py36_0
protobuf                  3.6.1            py36he6710b0_0
python                    3.6.7                h0371630_0
readline                  7.0                  h7b6447c_5
setuptools                40.6.2                   py36_0
singa                     1.2.0                  py36_cpu    nusdbsystem
singa-cpu                 1.2.0                         0    nusdbsystem
six                       1.11.0                   py36_1
sqlite                    3.25.3               h7b6447c_0
tk                        8.6.8                hbc83047_0
tqdm                      4.28.1           py36h28b3542_0
werkzeug                  0.14.1                   py36_0
wheel                     0.32.3                   py36_0
xz                        5.2.4                h14c3975_4
zlib                      1.2.11               h7b6447c_3
{noformat}

I wanted to verify that `singa-cpu=1.2.0` gives me the same error on my MacOS natively, but
I failed to install it as it seems like `singa-cpu=1.2.0` for OSX is not out...? (https://conda.anaconda.org/nusdbsystem/osx-64)

Let me know if there's something wrong with what I am doing.

A note that for Rafiki, it is no longer a requirement to upgrade `protobuf` to 3.6.1 (ref.
to [SINGA-396]). This is because we are no longer pre-installing both Tensorflow and Singa
on the base worker image. However, if a model developer specifies the installation of both
Tensorflow and Singa <=1.1.1, one of these might not work due to the possible version conflict
in `protobuf`.


> [Singa 1.2.0] Basic `singa-cpu` import throws error
> ---------------------------------------------------
>
>                 Key: SINGA-409
>                 URL: https://issues.apache.org/jira/browse/SINGA-409
>             Project: Singa
>          Issue Type: Bug
>         Environment: MacOS Mojave 10.14
>            Reporter: Ngin Yun Chuan
>            Priority: Major
>
> When I run the image built from this Dockerfile in Docker:
> {noformat}
> FROM ubuntu:16.04
> RUN apt-get update && apt-get -y upgrade
> # Install conda with pip and python 3.6
> RUN apt-get -y install curl bzip2 \
> && curl -sSL https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
-o /tmp/miniconda.sh \
> && bash /tmp/miniconda.sh -bfp /usr/local \
> && rm -rf /tmp/miniconda.sh \
> && conda create -y --name rafiki python=3.6 \
> && conda clean --all --yes
> ENV PATH /usr/local/envs/rafiki/bin:$PATH
> RUN conda install --name rafiki -y -c nusdbsystem singa-cpu==1.2.0
> CMD python -c 'import singa'
> {noformat}
> I get an error:
> {noformat}
> >>> import singa
> Traceback (most recent call last):
>   File "/usr/local/envs/rafiki/lib/python3.6/site-packages/singa/singa_wrap.py", line
18, in swig_import_helper
>     return importlib.import_module(mname)
>   File "/usr/local/envs/rafiki/lib/python3.6/importlib/__init__.py", line 126, in import_module
>     return _bootstrap._gcd_import(name[level:], package, level)
>   File "<frozen importlib._bootstrap>", line 994, in _gcd_import
>   File "<frozen importlib._bootstrap>", line 971, in _find_and_load
>   File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked
>   File "<frozen importlib._bootstrap>", line 658, in _load_unlocked
>   File "<frozen importlib._bootstrap>", line 571, in module_from_spec
>   File "<frozen importlib._bootstrap_external>", line 922, in create_module
>   File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
> ImportError: /usr/local/envs/rafiki/lib/python3.6/site-packages/singa/../../../libstdc++.so.6:
version `GLIBCXX_3.4.20' not found (required by /usr/local/envs/rafiki/lib/python3.6/site-packages/singa/../../../libprotobuf.so.17)
> During handling of the above exception, another exception occurred:
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File "/usr/local/envs/rafiki/lib/python3.6/site-packages/singa/__init__.py", line 18,
in <module>
>     from . import singa_wrap
>   File "/usr/local/envs/rafiki/lib/python3.6/site-packages/singa/singa_wrap.py", line
21, in <module>
>     _singa_wrap = swig_import_helper()
>   File "/usr/local/envs/rafiki/lib/python3.6/site-packages/singa/singa_wrap.py", line
20, in swig_import_helper
>     return importlib.import_module('_singa_wrap')
>   File "/usr/local/envs/rafiki/lib/python3.6/importlib/__init__.py", line 126, in import_module
>     return _bootstrap._gcd_import(name[level:], package, level)
> ModuleNotFoundError: No module named '_singa_wrap'
> {noformat}
> On the other hand, when I downgrade the version from `1.2.0` to `1.1.1`, it seem to work
fine.



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