Hi, I used Jalview to perform principle component analysis, but it said "Out of memory when calculating PCA!! See help files for increasing Java Virtual Machine memory". Then I see help files (http://www.jalview.org/jvmmemoryparams.html). It told me to add two lines into Jalview.lax:
lax.nl.java.option.java.heap.size.max=1000m lax.nl.java.option.java.heap.size.initial=500m When I opened the file Jalview.lax. I found that there were already two lines which showed: lax.nl.java.option.java.heap.size.initial=33554432 lax.nl.java.option.java.heap.size.max=268400000 So my question is whether we should add two lines to the end of this file? The default memory is larger than your suggested memory, if we change or add these two lines, can we fix this probelm? Even we added these two lines, the problem was not fixed, it still said "Out of memory when calculating PCA!! See help files for increasing Java Virtual Machine memory".So what is the problem and how to fix it? Thanks in advance! Best wishes! Yizhuang Zhou 2017-01-06 Yizhuang Zhou
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