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Hello I am getting this error while aligning sequences. I use Clusterize(), AlignSeq() and DistanceMatrix(). Clusterize works fine, but not the other two. There are about 50,000 sequences with range 50-200 base pairs each
Aligning Sequences:
================================================================================
Time difference of 17679.85 secs
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*** caught segfault ***
address 0x14ba5fc5c040, cause 'memory not mapped'
Traceback:
1: DistanceMatrix(aligned_seqs, verbose = TRUE, processors = 1)
An irrecoverable exception occurred. R is aborting now ...
/var/spool/uge/e241/job_scripts/20856211: line 16: 4046314 Segmentation fault
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k50k/2 8 bytes = 10GB, assuming the output
type = 'dist'inDistanceMatrix().AlignSeqs()(depending on the parameterization) will need more memory than the distance matrix. Please provide example code if you would like more assistance.