Ben Fulton
Ben Fulton
Installed R 3.4 to /usr/local/lib/R/bin, then library("phyext") library("WGDgc") tre.string = "(D:{0,18.03},(C:{0,12.06},(B:{0,7.06},A:{0,7.06}):{0,2.49:wgd,0:0,2.50}):{0, 5.97});" tre.phylo4d = read.simmap(text=tre.string) dat = data.frame(A=c(2,2,3,1), B=c(3,0,2,1), C=c(1,0,2,2), D=c(2,1,1,1)); a = processInput(tre.phylo4d, startingQ=0.9) getLikGeneCount(log(c(.01,.02)),a,dat,mMax=8,geomProb=1/1.5,conditioning="oneOrMore")
Hi, We would love to have you work on this. We are planning on a new codebase for CAFE that would be more appropriate for this work. I suggest we...
Yes, the Python scripts are part of the tutorial, not part of the application. Maybe in a future release we could add them in.
It works fine for me. Are you unable to download the files?
I think this is simply because your tree has spaces in it. Try removing the spaces from the tree and see if the analysis completes. If so, I'll make a...
Please ask questions about usage here: https://groups.google.com/forum/#!forum/hahnlabcafe
That script has not been updated for CAFE5 yet.
Hi Paul, Please post your question in the Discussion area, or post to the Hahnlab-cafe Google group at https://groups.google.com/g/hahnlabcafe . Thanks!
I’m not sure how you got your std flag to be c11, but it should be c++11. The error indicates that a very old language compatibility is being used –...
What is the output of $ gcc --version $ gcc -c -Wall -std=c11 -I cafe -I libtree -I libcommon -fopenmp -O3 -DNDEBUG -o release/cafe_family.o cafe/cafe_family.c ?