Following installation instructions results in wget error on macOS

colinvwood commented 9 months ago

Following the native installation instructions fails at the wget <link to env file> step with the following error:

dyld[62076]: Library not loaded: @rpath/libidn2.0.dylib
  Referenced from: <1705387D-7F87-387E-9EAF-B86871B2FEF2> /Users/colinwood/miniconda3/bin/wget
  Reason: tried: '/Users/colinwood/miniconda3/bin/../lib/libidn2.0.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/Users/colinwood/miniconda3/bin/../lib/libidn2.0.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/usr/local/lib/libidn2.0.dylib' (no such file), '/usr/lib/libidn2.0.dylib' (no such file, not in dyld cache)
zsh: abort      wget

All previous steps succeed. This happens for me on two different M1 machines, one running Sonoma 14.1.2 and one running Ventura 13.2.1. Failures occur with a freshly installed Miniconda environment, as the docs suggest.

Updating the instructions to use curl -L -O <link to env file> instead of wget <link to env file> is a possible solution.

cherman2 commented 8 months ago

Just for additional info, I think this is a M1 specific error. I tested it on my machine and I had no problem. I have a non-M1 Mac

lizgehret commented 7 months ago

Hey @colinvwood, has wget ever worked on your machine? If so, did you update your OS recently?

gregcaporaso commented 7 months ago

I have an M1 mac, and just tested - the Native Install Instructions for macOS (Apple Silicon) are working for me.

colinvwood commented 7 months ago

Hey @lizgehret wget installed via conda has worked in the past but not for a while for me.

That's interesting @gregcaporaso yeah I guess I figure we would have seen this on the forum if it were affecting more people. Once I had it happen on two different machines I thought it was worth an issue though.

lizgehret commented 7 months ago

@colinvwood hmm that's interesting. I remember you had some issues with conda a while back when we were sorting through the conda vs mamba install - was it around that time? I'm wondering if you may want to just try installing wget via pip in your base env (since I don't think it particularly matters how wget is installed for qiime2 env stuff).

I did find one anecdotal SO post where someone with an M1 mac mentioned having to go through some circuitous install steps for wget, but I couldn't find any additional information on that, so not sure how reliable that is.

gregcaporaso commented 7 months ago

I installed wget on my M1 mac with Homebrew (ages ago), and that appears to still be the version that is used from my base conda environment.

qiime2 / docs

Following installation instructions results in wget error on macOS #570