libpoppler.so.71: cannot open shared object file: No such file or directory #104
Comments
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I change the LD_LIBRARY_PATH. It can be imported now,but it does not work |
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Hi @xigrug thinks seems to be a problem with a GDAL dependency (conda-forge/osmnx-feedstock#23). Can you try deleting your environment and reinstalling everything? It might have been fixed already. If not, please report back. |
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I have the same problem on my end. Fresh install. Here is the output: >>> import gmt
Traceback (most recent call last):
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/clib/utils.py", line 159, in load_libgmt
libgmt = ctypes.CDLL('.'.join([libname, clib_extension()]))
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/ctypes/__init__.py", line 348, in __init__
self._handle = _dlopen(self._name, mode)
OSError: dlopen(libgmt.dylib, 6): Library not loaded: @rpath/libpoppler.71.dylib
Referenced from: /Users/adamprice/anaconda/envs/gmtpy/lib/libgdal.20.dylib
Reason: image not found
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/__init__.py", line 28, in <module>
_begin()
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/session_management.py", line 17, in begin
with LibGMT() as lib:
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/clib/core.py", line 103, in __init__
self._bind_clib_functions(libname)
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/clib/core.py", line 136, in _bind_clib_functions
self._libgmt = load_libgmt(libname)
File "/Users/adamprice/anaconda/envs/gmtpy/lib/python3.6/site-packages/gmt/clib/utils.py", line 168, in load_libgmt
raise GMTCLibNotFoundError(msg)
gmt.exceptions.GMTCLibNotFoundError: Couldn't find the GMT shared library 'libgmt'. Have you tried setting the LD_LIBRARY_PATH environment variable?
Original error message:
dlopen(libgmt.dylib, 6): Library not loaded: @rpath/libpoppler.71.dylib
Referenced from: /Users/adamprice/anaconda/envs/gmtpy/lib/libgdal.20.dylib
Reason: image not found |
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@adamnicholasprice thanks for reporting the issue. Did you follow the instructions in http:https://www.gmtpython.xyz/install.html for installing in a conda environment? If so, could you please post the output of |
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Yes I followed the install instructions (even cloned the git on the second time install). |
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@adamnicholasprice thanks! I think I see a problem. Your gdal isn't coming from conda-forge for some reason but poppler is. That might be causing the linking issue. Could you try the following please?
More information about these issues on the conda-forge documentation: https://conda-forge.org/docs/conda-forge_gotchas.html |
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@leouieda That did not work for me but I was able to resolve it using the instructions in https://github.com/conda-forge/gdal-feedstock . Looking forward to using the package! |
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I'm glad it's working! Would you mind sharing what you did so that we can have it as a reference? Also, did you check if your gdal is now coming from conda-forge? |
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This is the line of syntax seemed to have fixed by issue. After which run the command to make sure packages are coming from conda-forge |
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I had the same issue this morning. @adamnicholasprice solution also worked for me. Thanks! |
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@btozer thanks for reporting. I'll add these instructions to the documentation. |
Not having conda-forge in the conda config can cause problems with conflicting versions of gdal and other dependencies. This can be fixed by calling `conda config` before doing anything. The added advantage is that we don't need the `-c conda-forge` in every conda command anymore. Fixes #104
Not having conda-forge in the conda config can cause problems with conflicting versions of gdal and other dependencies. This can be fixed by calling `conda config` before doing anything. The added advantage is that we don't need the `-c conda-forge` in every conda command anymore. Fixes #104
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I've updated the install instructions to reflect the solution by @adamnicholasprice: http:https://www.gmtpython.xyz/install.html#installing-gmt-and-other-dependencies Could anyone please give it a try to see if it works in machines other than mine? |
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Hi, I'm very new to Python and Anaconda and tried to reproduce the mentioned steps, but sadly the error still occur: The output of my |
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@DennisScuba I've had the same issue as yours and ended up building a new conda env. |
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@DennisScuba and @AloshkaD yes, please use a separate environment for now. Also, notice that you have the wrong version of GMT (5.4.3 instead of 6.0.0). |
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I know this is closed but......I had a lot of problem recently with these issues. gmt would switch down to 5.4 when trying to work the conda-forge feedstock, having errors like @rpath/libpoppler.76.dylib I checked my conda list and gdal was from the conda feedstock. But libgdal wasnt. So.. conda install -c conda-forge libgdal This worked. Great program - Only thing with the install instructions I would say may help is to link/integrate the install instructions to the feedstock instructions a little more. Just a bit of friendly feedback - feel free to ignore if Im being an idiot! I got a little confused - thanks :) |
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Hi @hammytheham, thanks for the feedback!
Not at all! This has been a major problem from the start and a constant source of headaches for me :) Conda-forge is a relatively new resource and things are still a bit unstable. They have been doing a lot of work to get things better integrated with the default Anaconda. This will hopefully solve a large amount of these issues. I'm constantly tweaking this process but it's really hard to prepare for these errors since I don't get them. Also, I really love to get contributions of this kind! The only way to have a robust set of install instructions is if people with diverse setups contribute to it. Would you like to try adding some words to the instructions? I would really appreciate it if you could help clarify what you found confusing and what eventually cleared things up. You can do that online by going to https://github.com/GenericMappingTools/gmt-python/blob/master/doc/install.rst and clicking in the little pencil icon. |
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Done :) |
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I was having the same issue. so i opened anaconda navigator and go to the env. then in the channels, you can see default and conda-forge so you can delete conda-forge. then again install gdal, poppler. both will be available on default channel. this works for me |
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