MRBAYES_XSEDE

This document is meant to simulate a data set that contains a mrbayes block

this test runs.

BY default, the following parameters are submitted when no mb block is present
that is:

mrbayesblockquery_=0

these are setting from cipres:
set_beagle_params_=1 
run_version_=3  selects MB 3.2.3
runtime_=0.5  0.5 = default sets max run time
 
these are  default settings of MB, and all can be configured. the vlaues will override the settings in a Mr Bayes block.
Covarionopts_=0 
Nbetacatopts_=5 
Parsmodelopts_=0 
aamodelpropts_=fixed(poisson) 
allchainsval_=allchains=No 
atocrate_=1.0 
atograte_=1.0 
atotrate_=1.0 
betameanx_=1.0 
betavary_=1.0 
brlensprexp1_=10.0 
brlenspropts_=unconstrained:exponential 
burninfracval_=0.25 
codingopts_=all 
covswitchpropts_=uniform 
covswitchuni1_=0.0 
covswitchuni2_=100.0 
ctograte_=1.0 
ctotrate_=1.0 
flagdatatype_=dna 
gtotrate_=1.0 
mcmcdiagnval_=mcmcdiagn=Yes 
minpartfreqval_=0.1 
nchainsval_=4  (set nchains from the interface)
ngenval_=5000  (set number of generations)
nocharsets_=0 
nrunsval_=2 
nstopts_=1 
nswapsval_=1 
nucmodelopts_=4by4 
ordertaxaval_=Ordertaxa=Yes 
pinvarpropts_=uniform 
pinvarpruni1_=0.0 
pinvarpruni2_=1.0 
precision_=15 
ratecorrpropts_=uniform 
ratecorrpruni1_=-1.0 
ratecorrpruni2_=1.0 
rateopts_=equal 
ratepropts_=fixed 
relburninval_=relburnin=Yes 
reportsiterateopts_=0 
revmatopts_=dirichlet 
revmatpropts_=dirichlet 
samplefreqval_=1000 
sbrlensval_=Savebrlens=Yes 
scientific_=0 
seed_=1116355510 
set_outgroup_=testoutgroup (actually null by default) 
shapeprdir2_=50.0 
shapepropts_=uniform 
shapepruni1_=0.0 
statewfreqprdir1_=1.0 
statewfreqpropts_=dirichlet 
stopruleval_=stoprule=Yes 
sump_burninfrac_=0.25 
sump_relburnin_=Yes 
sumpburnin_=10 
sumpnruns_=2 
sumt_burninfrac_=0.25 
sumt_conformat_=Figtree 
sumt_relburnin_=Yes 
sumtburnin_=10 
sumtcontype_=contype=Halfcompat 
sumtdisplaygeq_=0.05 
sumtnruns_=2 
sumtntrees_=1 
sumtshowtreeprobs_=showtreeprobs=No 
swapfreqval_=1 
swapseed_=1116355510 
symdirihyperpropts_=fixed(infinity) 
tempval_=0.200 
tratioopts_=beta