Another overhaul of analytical solutions

Still in preparation for analytical solutions of coupled models

1 files changed, 32 insertions, 28 deletions

diff --git a/tests/testthat/summary_DFOP_FOCUS_D_eigen.txt b/tests/testthat/summary_DFOP_FOCUS_D_eigen.txt
index 1626c5da..6ddbc1ab 100644
--- a/tests/testthat/summary_DFOP_FOCUS_D_eigen.txt
+++ b/tests/testthat/summary_DFOP_FOCUS_D_eigen.txt
@@ -4,8 +4,8 @@ Date of fit:     Dummy date for testing
 Date of summary: Dummy date for testing 
 
 Equations:
-d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent
-d_m1/dt = + k_parent_m1 * parent - k_m1_sink * m1
+d_parent/dt = - k_parent * parent
+d_m1/dt = + f_parent_to_m1 * k_parent * parent - k_m1 * m1
 
 Model predictions using solution type eigen 
 
@@ -16,30 +16,35 @@ Error model: Constant variance
 Error model algorithm: OLS 
 
 Starting values for parameters to be optimised:
-                 value   type
-parent_0      100.7500  state
-k_parent_sink   0.1000 deparm
-k_parent_m1     0.1001 deparm
-k_m1_sink       0.1002 deparm
+                  value   type
+parent_0       100.7500  state
+k_parent         0.1000 deparm
+k_m1             0.1001 deparm
+f_parent_to_m1   0.5000 deparm
 
 Starting values for the transformed parameters actually optimised:
-                       value lower upper
-parent_0          100.750000  -Inf   Inf
-log_k_parent_sink  -2.302585  -Inf   Inf
-log_k_parent_m1    -2.301586  -Inf   Inf
-log_k_m1_sink      -2.300587  -Inf   Inf
+                    value lower upper
+parent_0       100.750000  -Inf   Inf
+log_k_parent    -2.302585  -Inf   Inf
+log_k_m1        -2.301586  -Inf   Inf
+f_parent_ilr_1   0.000000  -Inf   Inf
 
 Fixed parameter values:
      value  type
 m1_0     0 state
 
+Results:
+
+       AIC      BIC    logLik
+  204.4486 212.6365 -97.22429
+
 Optimised, transformed parameters with symmetric confidence intervals:
-                  Estimate Std. Error  Lower   Upper
-parent_0            99.600    1.57000 96.400 102.800
-log_k_parent_sink   -3.038    0.07626 -3.193  -2.883
-log_k_parent_m1     -2.980    0.04033 -3.062  -2.898
-log_k_m1_sink       -5.248    0.13320 -5.518  -4.977
-sigma                3.126    0.35850  2.396   3.855
+               Estimate Std. Error    Lower    Upper
+parent_0       99.60000    1.57000 96.40000 102.8000
+log_k_parent   -2.31600    0.04087 -2.39900  -2.2330
+log_k_m1       -5.24800    0.13320 -5.51800  -4.9770
+f_parent_ilr_1  0.04096    0.06312 -0.08746   0.1694
+sigma           3.12600    0.35850  2.39600   3.8550
 
 Parameter correlation:
 NULL
@@ -48,24 +53,23 @@ Backtransformed parameters:
 Confidence intervals for internally transformed parameters are asymmetric.
 t-test (unrealistically) based on the assumption of normal distribution
 for estimators of untransformed parameters.
-               Estimate t value    Pr(>t)     Lower     Upper
-parent_0      99.600000  63.430 2.298e-36 96.400000 1.028e+02
-k_parent_sink  0.047920  13.110 6.126e-15  0.041030 5.596e-02
-k_parent_m1    0.050780  24.800 3.269e-23  0.046780 5.512e-02
-k_m1_sink      0.005261   7.510 6.165e-09  0.004012 6.898e-03
-sigma          3.126000   8.718 2.235e-10  2.396000 3.855e+00
+                Estimate t value    Pr(>t)     Lower     Upper
+parent_0       99.600000  63.430 2.298e-36 96.400000 1.028e+02
+k_parent        0.098700  24.470 4.955e-23  0.090820 1.073e-01
+k_m1            0.005261   7.510 6.165e-09  0.004012 6.898e-03
+f_parent_to_m1  0.514500  23.070 3.104e-22  0.469100 5.596e-01
+sigma           3.126000   8.718 2.235e-10  2.396000 3.855e+00
 
 FOCUS Chi2 error levels in percent:
          err.min n.optim df
 All data   6.398       4 15
-parent     6.827       3  6
-m1         4.490       1  9
+parent     6.459       2  7
+m1         4.690       2  8
 
 Resulting formation fractions:
                 ff
-parent_sink 0.4855
 parent_m1   0.5145
-m1_sink     1.0000
+parent_sink 0.4855
 
 Estimated disappearance times:
           DT50   DT90