Question

Samtools Failing to Install through Conda

0

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2.6 years ago

jjp55 ▴ 20

Hi all,

I just got a new laptop and am trying to work on some sequencing data and need to install samtools.

On my old laptop, I was able to do this through conda using:

conda install -c bioconda samtools

However, when I go to use samtools I get this error message:

opt/anaconda3/envs/r_env/bin/../lib/libcrypto.1.0.0.dylib' (no such file)

I am running on macOS Monterey with an M1 chip. I have also installed homebrew for other packages already. I have tried to create new, clean environments, but nothing seems to be working. Any help or advice would be greatly appreciated.

samtools conda • 3.7k views

ADD COMMENT • link updated 13 months ago by Awosise • 0 • written 2.6 years ago by jjp55 ▴ 20

score 3 · Answer 1 · 2022-06-24

3

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2.4 years ago

jambler24 ▴ 30

conda install samtools=1.15.1 didn't work for me

But brew did:

brew install samtools

ADD COMMENT • link 2.4 years ago by jambler24 ▴ 30

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Thanks for sharing the solution, brew worked for me too!

ADD REPLY • link 16 months ago by ayaosama2111 ▴ 10

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Same issue on brand new M2 chip MacBook: conda seems NOT able to find samtools; brew worked.

ADD REPLY • link 14 months ago by hukai916 ▴ 10

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Why'd you add this as an answer? This should have been a comment on one of GenoMax's or jambler24's answers. I'm moving it now. Please be more careful in the future.

ADD REPLY • link 14 months ago by Ram 44k

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Saved me a lot of stress

ADD REPLY • link 13 months ago by Awosise • 0

score 1 · Answer 2 · 2022-04-26

1

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2.6 years ago

GenoMax 147k

Try

conda install samtools=1.15.1

That should get you the latest samtools. Just tested on a M1 mac.

ADD COMMENT • link 2.6 years ago by GenoMax 147k