Details
Description
I am attempting to view sequences via PCA analysis. I loaded the fasta alignment into Jalview after launching and calculated a distance tree. I then selected nodes which auto-colored groups and clicked calculate principal components analysis...the analysis ran for approx 2 min and the whole program crashed. The java console didn't stay open either, it closed and I was unable to retrieve it to see what error had happened. I adjusted memory up to 1GB in the .jnlp and tried again. During the analysis it stated I had 77% memory free, it again ran for about 1.5-2 min before crashing.
My alignment is 282 taxa (closely related). I've attached it. I can do PCA analysis on smaller alignments but the larger alignment (282 sequences) crashes the program every time.
I will try the 64 bit java (I am running 32 bit at the moment).
My alignment is 282 taxa (closely related). I've attached it. I can do PCA analysis on smaller alignments but the larger alignment (282 sequences) crashes the program every time.
I will try the 64 bit java (I am running 32 bit at the moment).
Attachments
Issue Links
- related with
-
JAL-2390 Jalview throws Exception when running PCA on many sequences
- Open