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Clustalw2 installation problem in mac
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/iosfwd:209:32: note: 
      template is declared here
    class _LIBCPP_TEMPLATE_VIS basic_string;
                               ^
2 errors generated.
make[3]: *** [VectorOutOfRange.o] Error 1
make[2]: *** [all-recursive] Error 1
make[1]: *** [all] Error 2
make: *** [all-recursive] Error 1

Anybody, guide me about this error

software error
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updated by zorbax zorbax • written by padanaabdullah • padanaabdullah

Which macOS are you using? If you are trying to use it on catalina (macOS v.10.5.x) this is likely not going to work since clustalW is probably a 32-bit application.

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written by GenoMax GenoMax

yes i am using macOS Catalina (10.15.6), no i don't want dmg. i am downloading by command line. i have need to install for adding in Path.

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written by padanaabdullah • padanaabdullah

Please don't add the same content in multiple answers.

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written by GenoMax GenoMax

did you get this error with the dmg installer? You need to provide more information.

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written by zorbax zorbax

yes i am using macOS Catalina (10.15.6), no i don't want dmg. i am downloading by command line. i have need to install for adding in Path.

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written by padanaabdullah • padanaabdullah

1 answer

You are using a gcc compiler >= 10 if you have the latest version of Xcode tools. You can use a previous version of gcc with brew or if you prefer you can install it with conda and solve the issue:

conda create -n clustalw2 -c biobuilds -y clustalw
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written by zorbax zorbax

Do you know first hand if this is going to work on macOS catalina, which only allows 64-bit applications?

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written by GenoMax GenoMax

you don't need modify anything in your bashrc/bash_profile, only load the conda environment and clustal will be available in your PATH "inside" the conda env. Every time that you want to use clustal you should use the activation/deactivation steps.

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written by zorbax zorbax

Conda environment for clustalw needs to be active.

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written by GenoMax GenoMax

ok but still not available, if search clustalw or clustalw2 from terminal.

i am using one code that still showing clustalw is missing.

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written by padanaabdullah • padanaabdullah 
$ conda activate clustalw2
$ which clustalw2
/path_to/miniconda3/envs/clustalw2/bin/clustalw2
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written by GenoMax GenoMax

Please check it after close this terminal. For default because i need to use code and for code should be default , you try it after close the terminal again. Thank you so much.

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written by padanaabdullah • padanaabdullah

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