Install STAR on MacBook Pro M1

Question

[yklee2083]

I am trying to install STAR aligner using MacBook Pro M1, but the following error appears and installation does not work.

g++-13: error: unrecognized command-line option '-mavx2'

How can I solve this?

If I cannot use STAR, please recommend another tool that is compatible with M1 pro.

[Ram]

Are you generally conversant compiling software on MacBook machines?

[yklee2083]

Let's download the source code directly and try compiling it for the m1 chip. thank you

[Ram]

I think there's an error in translation. What do you mean by "let's"?

[jv]

Please provide more details of how you are trying to install

Answer 1

[GenoMax]

Use conda (LINK). Once this is installed installing STAR is a matter of doing

$ conda create -n star star
$ conda activate star

Answer 2

[JC]

Also, you can use the Docker container biocontainers/star with Colima on Mac

Answer 3

[yklee2083]

First, various problems occurred because STAR alinger and another tool with the same name, STAR, were installed on my MacBook computer, and I wasted a lot of time because I was not aware of this fact. Fortunately, I was able to solve the problem later by confirming that a different program with the same name was installed. Regarding the problem caused by the MacBook Pro M1 chipset, I was able to take a hint from the answer above and download the STAR source code directly, compile it, and successfully install the STAR aligner.

https://github.com/alexdobin/STAR/blob/master/doc/STARmanual.pdf

Answer 4

[jv]

There's a whole section describing install on a Mac in the STAR github README https://github.com/alexdobin/STAR#compile-under-mac-os-x. I would try Homebrew or Docker for running STAR on your Mac. But my main concern/question is why are you going to run STAR on a mac? Do you have sufficient memory to support read alignment?