rcedgar
segmentation fault muscle -align testing.fa -output alignment.afa
When I run the align command for two sequences, I get this error:
muscle 5.1.osxarm64 [ef62d8-dirty] 17.2Gb RAM, 8 cores Built Jan 15 2022 11:59:50 (C) Copyright 2004-2021 Robert C. Edgar. https://drive5.com
Input: 2 seqs, length avg 32604 max 33281
WARNING: Sequence length >5k may require excessive memory
00:00 12Mb 100.0% Derep 1 uniques, 0 dupes
00:00 14Mb 100.0% UCLUST 2 seqs EE<0.01, 1 centroids, 0 members
00:00 14Mb CPU has 8 cores, running 8 threads
zsh: segmentation fault muscle -super5 testing.fa -output alignment.afa
Does my device not have enough RAM to do this?
I am using muscle 3 and always get this error message. Tried it with only 17 protein sequences in fasta format
filtered_sequences_WP_only 17 seqs, max length 13477, avg length 2937 00:00:00 2 MB(0%) Iter 1 100.00% K-mer dist pass 1 00:00:00 2 MB(0%) Iter 1 100.00% K-mer dist pass 2 00:00:10 168 MB(1%) Iter 1 100.00% Align node 00:00:10 168 MB(1%) Iter 1 100.00% Root alignment 00:00:18 181 MB(1%) Iter 2 100.00% Refine tree 00:00:18 182 MB(1%) Iter 2 100.00% Root alignment 00:00:18 182 MB(1%) Iter 2 100.00% Root alignment zsh: segmentation fault muscle3 -in -out Refine biparts
Is it because the variation in the length of the protein sequences too large?
