revbayes_tutorial/test_tutorials.sh at master · revbayes/revbayes_tutorial · GitHub

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# basics commands in RevBayes
cd RB_Rev_Tutorial/RevBayes_Scripts
#rb basics.Rev
#rb airline_fatalities_part1.Rev
#rb airline_fatalities_part2.Rev
#rb coalmine_accidents.Rev

#rm airline_fatalities.log
#rm -r output

cd ../..


# substitution models (JC, HKY, GTR, GTR+Gamma, GTR+Gamma+I) on a non-clock tree
cd RB_CTMC_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output

cd ..


# MCMC move and proposal distribution tutorial
#cd RB_MCMC_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output

#cd ..


# marginal likelihood estimation on substitution models
cd RB_BayesFactor_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output

cd ..


# dating tutorial (time tree estimation using different clock models)
cd RB_RelaxedClock_Tutorial
rb RevBayes_Scripts/full_analysis.Rev

rm -r output
rm history.txt

cd ..

# dating tutorial (time tree estimation using the DPP branch-rate model)
cd RB_DPPRelaxedClock_Tutorial
rb RevBayes_Scripts/mcmc_DPP.Rev

rm -r output
rm history.txt
rm m_DPP_modelgraph.dot

cd ..

# diversification rate estimation tutorial (pure birth (Yule), birth-death process, etc.)
cd RB_SimpleDiversification_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output

cd ..


# continuous trait evolution tutorials
cd RB_PhyloComparative_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output
#rm *.dot

cd ..


# biogeography tutorials
cd RB_Biogeography_Tutorial
#rb RevBayes_Scripts/full_analysis.Rev

#rm -r output
#rm *.dot

cd ..