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ComPlat / chem_scanner

Extraction and re-use(ability) of chemical information from common scientific documents containing ChemDraw files
https://eln.chemotion.net/chemscanner
GNU Affero General Public License v3.0
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Rdkit error #2

Open HamzaShaikh17 opened 3 years ago

HamzaShaikh17 commented 3 years ago

I am running example code snippet that throws an error

(base) hamza@mac Documents % ruby chem.rb
Traceback (most recent call last): 2: from chem.rb:1:in <main>' 1: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:54:inrequire' /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:54:in require': cannot load such file -- chem_scanner (LoadError) 8: from chem.rb:1:in

' 7: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:34:in require' 6: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:130:inrescue in require' 5: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:130:in require' 4: from /Library/Ruby/Gems/2.6.0/gems/chem_scanner-0.1.3/lib/chem_scanner.rb:2:in<top (required)>' 3: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:54:in require' 2: from /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems/core_ext/kernel_require.rb:54:inrequire' 1: from /Library/Ruby/Gems/2.6.0/gems/rdkit_chem-2019.03.3.1/lib/rdkit_chem.rb:1:in <top (required)>' /Library/Ruby/Gems/2.6.0/gems/rdkit_chem-2019.03.3.1/lib/rdkit_chem.rb:1:inrequire_relative': cannot load such file -- /Library/Ruby/Gems/2.6.0/gems/rdkit_chem-2019.03.3.1/rdkit/Code/lib/RDKitChem (LoadError)

After getting this error I have tried to install dependent rdkit library by following command:

gem install rdkit_chem

But it still throwing the same error

is there any solution?

CamAnNguyen commented 3 years ago

Hi @HS1S, the chem_scanner gem is using rdkit_chem gem, therefore it requires dependencies of rdkit_chem. Could you please install the required package listed here and reinstall the gem?