Segmentation fault (core dumped) error when running MUSCLE

Question

[Zhang]

I come across a question when running the multiple sequence alignment program MUSCLE.

My operation system is win10, with a WSL, ubuntu LTS 18.

I download the MUSCLE program , and run the command.

tar    -zxvf    muscle3.8.31_i86linux64.tar.gz

mv    muscle3.8.31_i86linux64       muscle

chmod  +x   muscle

Then I run the program,

muscle

but an error ocurrs, "segmentation fault (core dumped)".

This problem often ocurrs due to the limited memory. However, I just run "muscle" with zero input. The same problem still happened when I test a only 100 byte fasta file.

Any one has a suggestion? Thank you sincerely.

[Michael]

Possibly, installing muscle from the ubuntu repository or compiling the software from source might help.

[Zhang]

Could you tell me how to upvote and accept an answer? There was no response when I was clicking the thumbs-up button or tick button.

[GenoMax]

Click on the check mark. That will turn it green and accept @5heikki's answer.

Answer 1

[5heikki]

It also failed on Ubuntu LTS 20.04 on WSL2, however this worked:

mkdir muscle
cd muscle
wget https://www.drive5.com/muscle/muscle_src_3.8.1551.tar.gz
tar xzvf muscle_src_3.8.1551.tar.gz
make
./muscle

[Zhang]

Thank Michael Dondrup, joe and 5heikki very much.

As you all suggested I re-install MUSCLE. The way 5heikki told me really works, and I don't know if conda works.

Thanks again.

[GenoMax]

If an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one if they work.

Answer 2

[joe]

Try installing and using within a conda environment. This is often the quickest and easiest solution for software that has dependencies that may or may not get installed correctly ...