# bounds for theta per site (guessed from observed pi within subpops)
upperTheta = 0.1
lowerTheta = 4e-08
# upper limit of tau (divergence time)
upperTau = 0.75
# number of tau classes (Psi): 0 means Psi are drawn from [0,#taxonPairs]
numTauClasses = 0
# upper bound of migration rate (0 disables migration)
upperMig = 0.0
upperRec = 0.0
# Ancestral theta multiplier: product of this and upperTheta is the upper bound of ancestral theta
upperAncPopSize = 0.5
# Most users don't want to constrain the subparameters
constrain = 0
subParamConstrain = 111111111



BEGIN SAMPLE_TBL
2EbruSP1	mtDNA	1	1	37	25	1	433	0.33	0.13	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Ebrunniventris.fasta
2EbruSP2	mtDNA	1	1	65	17	1	433	0.36	0.14	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Eadleriae.fasta
2Mdor	mtDNA	1	1	33	22	1	433	0.33	0.16	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Mdor.fasta
2Mdor_sp2	mtDNA	1	1	2	2	1	433	0.35	0.15	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Mdor_sp2.fasta
2Msticb	mtDNA	0.5	1	20	40	1	590	0.35	0.12	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Msti.fasta
2Agal	mtDNA	1	1	12	11	1	698	0.31	0.13	0.14	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Agal.fasta
2Bpal	mtDNA	1	1	21	5	1	696	0.33	0.13	0.13	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Bpal.fasta
2Enub	mtDNA	1	1	6	4	1	656	0.28	0.14	0.15	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Enub.fasta
2Euro	mtDNA	1	1	11	9	1	655	0.28	0.14	0.16	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Euro.fasta
2Hste	mtDNA	1	1	9	3	1	697	0.32	0.13	0.14	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Hste.fasta
2Mfas	mtDNA	1.5	1	2	2	1	698	0.31	0.15	0.14	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Mfas.fasta
2Mxan	mtDNA	0.5	1	15	9	1	697	0.31	0.15	0.14	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Mxan.fasta
2OpomSP1	mtDNA	1	1	8	9	1	698	0.27	0.13	0.17	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2OpomSP1.fasta
2Taur	mtDNA	1	1	9	9	1	698	0.26	0.13	0.15	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Taur.fasta
2TcyaMain	mtDNA	0.5	1	11	5	1	698	0.25	0.13	0.16	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2TcyaMain.fasta
2Tfla	mtDNA	1	1	16	8	1	695	0.28	0.12	0.16	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Tfla.fasta
2Cfun	mtDNA	1	1	16	8	1	652	0.33	0.12	0.13	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Cfun.fasta
2Onit	mtDNA	1	1	31	22	1	742	0.36	0.11	0.1	/Users/mhickerson/GallsParisitoidsPersiaBalkans/2Onit.fasta
END SAMPLE_TBL

# Most users can ignore the following table
BEGIN CONSTRAIN
1.0     0.9     0.1     0.5     0.0     10.1    1.5     0.1     0.0
1.1     0.8     0.2     0.6     0.0     20.1    1.4     0.2     0.0
1.2     0.7     0.3     0.7     0.0     30.1    1.3     0.3     0.0
1.0     0.3     0.7     0.8     0.0     40.1    1.2     0.4     0.0
1.0     0.3     0.8     0.9     0.0     5.1     1.1     0.5     0.0
1.0     0.3     0.9     0.3     0.0     25.1    1.0     0.5     0.0
END CONSTRAIN