libstdc++.so.6: version `GLIBCXX_3.4.21' not found #4953

xonez · 2016-11-05T22:00:05Z

Hi,
I am learning how to use caffe
I try to run the ipython notebook in the caffe/examples, but it comes to this error:
ImportError: /home/../anaconda2/lib/python2.7/site-packages/zmq/backend/cython/../../../../.././libstdc++.so.6: version GLIBCXX_3.4.21' not found (required by ../python/caffe/_caffe.so)`

I am using virtual machine ubuntu 16.04 and the caffe is cpu only version.

Can some one help with me?^_^

Steps to reproduce

If you are having difficulty building Caffe or training a model, please ask the caffe-users mailing list. If you are reporting a build error that seems to be due to a bug in Caffe, please attach your build configuration (either Makefile.config or CMakeCache.txt) and the output of the make (or cmake) command.

Your system configuration

Operating system:
Compiler:
CUDA version (if applicable):
CUDNN version (if applicable):
BLAS:
Python or MATLAB version (for pycaffe and matcaffe respectively):

The text was updated successfully, but these errors were encountered:

farazfazli · 2016-11-07T05:14:31Z

conda install libgcc

^ Should fix this error. Please ask installation questions only in the Caffe mailing list.

dangmanhtruong1995 · 2017-02-23T15:02:28Z

The solution provided by farazfazli worked, thank you very much :)

hopeai · 2017-03-12T11:55:16Z

@farazfazli After searching on forums this worked f me too 👍 Thanks a lot :)

JasonDoingGreat · 2017-04-11T03:05:37Z

@farazfazli Thank you really help!

tthtlc · 2017-05-06T01:54:06Z

how about this:

import xgboost as xgb

File "/home/tteikhua/anaconda2/lib/python2.7/site-packages/xgboost/init.py", line 11, in
from .core import DMatrix, Booster
File "/home/tteikhua/anaconda2/lib/python2.7/site-packages/xgboost/core.py", line 112, in
_LIB = _load_lib()
File "/home/tteikhua/anaconda2/lib/python2.7/site-packages/xgboost/core.py", line 106, in _load_lib
lib = ctypes.cdll.LoadLibrary(lib_path[0])
File "/home/tteikhua/anaconda2/lib/python2.7/ctypes/init.py", line 440, in LoadLibrary
return self._dlltype(name)
File "/home/tteikhua/anaconda2/lib/python2.7/ctypes/init.py", line 362, in init
self._handle = _dlopen(self._name, mode)
OSError: /home/tteikhua/anaconda2/lib/python2.7/site-packages/scipy/sparse/../../../../libstdc++.so.6: version `GLIBCXX_3.4.20' not found (required by /home/tteikhua/anaconda2/lib/python2.7/site-packages/xgboost/./lib/libxgboost.so)

moon-and-star · 2017-07-15T13:47:55Z

I have the same problem:
ImportError: /home/katydagoth/anaconda2/bin/../lib/libstdc++.so.6: version `GLIBCXX_3.4.21' not found (required by /home/katydagoth/Downloads/caffe2/caffe-master/python/caffe/_caffe.so),
but it appears only when anaconda is activated. When deactivated it works well. libgcc is already installed. How can I fix this?

yuanviola · 2017-10-05T20:50:29Z

I have same problems when
import rtree
If anyone could help, I really appreciate it!

monajalal · 2018-03-09T02:18:18Z

@farazfazli this didn't solve the issue for me:

$ sudo conda install libgcc
[sudo] password for jalal: 
Solving environment: done

## Package Plan ##

  environment location: /scratch/sjn-p2/anaconda/anaconda2

  added / updated specs: 
    - libgcc


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    libgcc-7.2.0               |       h69d50b8_2         304 KB

The following packages will be UPDATED:

    libgcc: 7.2.0-h69d50b8_2 anaconda --> 7.2.0-h69d50b8_2

Proceed ([y]/n)? y


Downloading and Extracting Packages
libgcc 7.2.0: ################################################################################################################################################################################### | 100% 
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
[jalal@goku pytorch_sentiment_rnn]$ python prepare.py 
/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
  from ._conv import register_converters as _register_converters
Using TensorFlow backend.
Traceback (most recent call last):
  File "prepare.py", line 6, in <module>
    from keras.preprocessing import sequence
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/keras/__init__.py", line 3, in <module>
    from . import utils
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/keras/utils/__init__.py", line 6, in <module>
    from . import conv_utils
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/keras/utils/conv_utils.py", line 9, in <module>
    from .. import backend as K
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/keras/backend/__init__.py", line 84, in <module>
    from .tensorflow_backend import *
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/keras/backend/tensorflow_backend.py", line 5, in <module>
    import tensorflow as tf
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/tensorflow/__init__.py", line 24, in <module>
    from tensorflow.python import *
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/tensorflow/python/__init__.py", line 52, in <module>
    from tensorflow.core.framework.graph_pb2 import *
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/tensorflow/core/framework/graph_pb2.py", line 6, in <module>
    from google.protobuf import descriptor as _descriptor
  File "/scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/google/protobuf/descriptor.py", line 46, in <module>
    from google.protobuf.pyext import _message
ImportError: /lib64/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /scratch/sjn-p2/anaconda/anaconda2/lib/python2.7/site-packages/google/protobuf/pyext/_message.so)

hopeai · 2018-03-09T09:06:31Z

@monajalal check this link. It might solve the problem.
https://askubuntu.com/questions/409821/libstdc-so-6-cannot-open-shared-object-file-no-such-file-or-directory

* updates reticulate-version required, removes r_to_py() references * removes r_to_py() from examples * switches over to vegawidget * impoprts the knit.print method for vegaspec from vegawidget * try again with travis * retry travis * again with travis * try installing twice * another trvais attempt * digging deeper on travis * removing cache on travis * travis: re-cache packages, adds apt-get upgrade * adds `conda install libgcc` according to BVLC/caffe#4953 (comment) * adjusts travis * investigating versions of libstdc++6 according to https://stackoverflow.com/questions/44773296/libstdc-so-6-version-glibcxx-3-4-20-not-found * upgrades libstdc++6 on travis * installs only libstdc++6 * adds additional apt repository to see if we can get a later version of GLIBCXX * tweaks travis * purge, suggested by https://askubuntu.com/questions/777803/apt-relocation-error-version-glibcxx-3-4-21-not-defined-in-file-libstdc-so-6 * adds ppa-purge to travis * trying to get python to downgrade to 3.6.6 * tweaks travis again * try again to downgrade python at travis * tries to force upgrade of pandas * downgrades pandas for travis * try another pandas downgrade * try again

Lucioric2000 · 2018-10-17T16:11:45Z

I fixed s similar problem reinstalling the affected program by PIP. (pip install -I ...). Conda broken dependencies are tiring me.

senjed · 2020-07-20T21:12:27Z

try:

conda install libgcc

Try running your code again. If it still does not work try finding the location of libstdc++.so.6. It is usually in /home/user/anaconda3/lib/ and set the LD_LIBRARY_PATH environment variable.

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/user/miniconda3/lib/

chenrq2005 · 2021-02-19T15:04:32Z

conda install libgcc worked for me.

brando90 · 2021-03-30T16:28:49Z

try:

conda install libgcc

Try running your code again. If it still does not work try finding the location of libstdc++.so.6. It is usually in /home/user/anaconda3/lib/ and set the LD_LIBRARY_PATH environment variable.

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/user/miniconda3/lib/

I did conda install libgcc and

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$HOME/miniconda3/lib/

and it worked.

Also make sure your not doing multiprocessing code. For me that gave me pickle errors.

bvannah · 2021-09-03T15:31:19Z

try:
conda install libgcc
Try running your code again. If it still does not work try finding the location of libstdc++.so.6. It is usually in /home/user/anaconda3/lib/ and set the LD_LIBRARY_PATH environment variable.
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/user/miniconda3/lib/

I did conda install libgcc and
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$HOME/miniconda3/lib/
and it worked.

Also make sure your not doing multiprocessing code. For me that gave me pickle errors.

Thank you, this worked for me

karkir0003 · 2022-08-02T00:11:29Z

Will this fix work for github actions?

szj-github · 2022-08-11T07:35:10Z

add export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/user/anaconda3/lib/ , it worked for me! thanks!

safelysparky · 2022-09-28T03:40:00Z

I was able to fix the issue by running
conda update libstdcxx-ng

ShunLu91 · 2022-11-17T11:34:23Z

try:

conda install libgcc

Try running your code again. If it still does not work try finding the location of libstdc++.so.6. It is usually in /home/user/anaconda3/lib/ and set the LD_LIBRARY_PATH environment variable.

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/user/miniconda3/lib/

Great thanks and this solution really helps me.

luq7 · 2023-06-22T18:58:06Z

I was able to fix the issue by running
conda update libstdcxx-ng

This worked for me

shelhamer closed this as completed Apr 12, 2017

ijlyttle added a commit to ijlyttle/altair that referenced this issue Jul 14, 2018

adds conda install libgcc according to BVLC/caffe#4953 (comment)

585f65c

peastman mentioned this issue Aug 7, 2019

ImportErrors in running any graph-base models deepchem/deepchem#1654

Closed

beckybai mentioned this issue Feb 21, 2020

try to install cmake innerlee/setup#6

Closed

dbdimitrov mentioned this issue Jul 27, 2021

Library issue with natmi and squidpy saezlab/liana#17

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merleyc mentioned this issue Aug 26, 2021

Commit v4.9.2 release appears as v4.5.1 in "transformers-cli env" huggingface/transformers#13270

Closed

2 tasks

etiennekintzler mentioned this issue Sep 6, 2021

ImportError : version `GLIBCXX_3.4.21' not found parlance/ctcdecode#191

Closed

ekofman mentioned this issue Oct 7, 2021

ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found (required by /home/ekofman/new_anaconda3/envs/mxfold2_python38/lib/python3.8/site-packages/mxfold2/interface.cpython-38-x86_64-linux-gnu.so) mxfold/mxfold2#6

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ChrisCummins mentioned this issue Jun 20, 2022

Failed installing the required toolchain on Ubuntu 20.04 facebookresearch/CompilerGym#714

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balajialg mentioned this issue Aug 17, 2022

Request more RAM for EE 120 Fall 2022 berkeley-dsep-infra/datahub#3566

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bhaktatejas922 mentioned this issue Oct 3, 2022

ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.21' not found Lightning-AI/pytorch-lightning#14985

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This was referenced Dec 5, 2023

ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found VKCOM/YouTokenToMe#113

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ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found pytorch/pytorch#115138

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libstdc++.so.6: version `GLIBCXX_3.4.21' not found #4953

libstdc++.so.6: version `GLIBCXX_3.4.21' not found #4953

xonez commented Nov 5, 2016

farazfazli commented Nov 7, 2016 •

edited

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dangmanhtruong1995 commented Feb 23, 2017

hopeai commented Mar 12, 2017

JasonDoingGreat commented Apr 11, 2017

tthtlc commented May 6, 2017

moon-and-star commented Jul 15, 2017

yuanviola commented Oct 5, 2017

monajalal commented Mar 9, 2018 •

edited

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hopeai commented Mar 9, 2018 •

edited

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Lucioric2000 commented Oct 17, 2018

senjed commented Jul 20, 2020

chenrq2005 commented Feb 19, 2021

brando90 commented Mar 30, 2021

bvannah commented Sep 3, 2021

karkir0003 commented Aug 2, 2022

szj-github commented Aug 11, 2022

safelysparky commented Sep 28, 2022

ShunLu91 commented Nov 17, 2022

luq7 commented Jun 22, 2023

libstdc++.so.6: version `GLIBCXX_3.4.21' not found #4953

libstdc++.so.6: version `GLIBCXX_3.4.21' not found #4953

Comments

xonez commented Nov 5, 2016

Steps to reproduce

Your system configuration

farazfazli commented Nov 7, 2016 • edited Loading

dangmanhtruong1995 commented Feb 23, 2017

hopeai commented Mar 12, 2017

JasonDoingGreat commented Apr 11, 2017

tthtlc commented May 6, 2017

moon-and-star commented Jul 15, 2017

yuanviola commented Oct 5, 2017

monajalal commented Mar 9, 2018 • edited Loading

hopeai commented Mar 9, 2018 • edited Loading

Lucioric2000 commented Oct 17, 2018

senjed commented Jul 20, 2020

chenrq2005 commented Feb 19, 2021

brando90 commented Mar 30, 2021

bvannah commented Sep 3, 2021

karkir0003 commented Aug 2, 2022

szj-github commented Aug 11, 2022

safelysparky commented Sep 28, 2022

ShunLu91 commented Nov 17, 2022

luq7 commented Jun 22, 2023

farazfazli commented Nov 7, 2016 •

edited

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monajalal commented Mar 9, 2018 •

edited

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hopeai commented Mar 9, 2018 •

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