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Using a Mac with M1 chip, I'm trying to install the following Bioconda packages:

cutadapt  
trim-galore  
samtools  
bedtools.  
htseq.   
bowtie2.    
deeptools.  
macs2

I've been able to install picard and fastqc with no issues, but all others turn out one of two error messages:

PackagesNotFoundError: The following packages are not available from current channels:

or

Found conflicts! Looking for incompatible packages.
This can take several minutes.  Press CTRL-C to abort.
failed                                                                          

UnsatisfiableError:

I do have the correct channels though:

conda config --show channels 
channels:
  - conda-forge
  - bioconda
  - defaults

Not sure how to fix this

Timur Shtatland
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JT0820
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  • How did you install Conda? Bioconda doesn't support native M1 yet, so if want to use it, you'd need to install an `osx-64` Miniforge build and run it in x86_64 emulation mode (via Rosetta2). – merv Feb 11 '22 at 05:29
  • See also: https://stackoverflow.com/q/72678631/967621 – Timur Shtatland Dec 01 '22 at 17:47

1 Answers1

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I had the same problem and fixed the issue like this:

  1. Install Rosetta2 by running softwareupdate --install-rosetta

  2. Download the x86-64 bit version of miniconda instead of the M1 version

Aaron Meese
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Jóhann Örn Thorarensen
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