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parameter_report
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Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 41.677
Evaluations/Second [1/s]: 2399.45
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 41.381
Evaluations/Second [1/s]: 2416.62
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 44.113
Evaluations/Second [1/s]: 2266.95
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 42.335
Evaluations/Second [1/s]: 2362.16
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 41.397
Evaluations/Second [1/s]: 2415.68
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 45.354
Evaluations/Second [1/s]: 2204.92
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 41.484
Evaluations/Second [1/s]: 2410.62
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 41.104
Evaluations/Second [1/s]: 2432.9
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000434779 5.28078e-05 -0.00017696 0.00817978 0.0082236 1.85931e-05 0 1.63298e-05 1.63298e-05 3.19271e-08 0.000103162
2. 3.5 0.000447258 0.00015932 -0.000133396 0.00812495 0.0081634 1.6318e-05 0 5.83312e-05 5.83312e-05 2.14633e-08 8.45839e-05
3. 5 0.0013877 0.000432464 -0.000442541 0.00768991 0.00800875 0.000135293 0 0.000166145 0.000166145 2.41751e-07 0.000283873
4. 6.5 0.00245493 0.000978645 -0.000683932 0.00726655 0.00769837 0.000183236 0 0.000382075 0.000382075 6.4732e-07 0.000464514
5. 8 0.00298181 0.00180096 -0.000547061 0.0063019 0.00722824 0.000393072 0.000361937 0.000707752 0.000345815 5.7337e-07 0.000437176
6. 9.5 0.0036309 0.00279705 -0.000386304 0.00589437 0.00665397 0.000322324 0.000532544 0.00110283 0.000570286 5.7835e-07 0.000439071
7. 11 0.00396996 0.00385608 -5.27565e-05 0.00558341 0.00603694 0.000192445 nan 0.00152331 nan 3.98184e-08 0.0001411
8. 12.5 0.00456971 0.00490297 0.000154394 0.00496987 0.00541919 0.000190663 0.00136485 0.00193926 0.000574415 3.90142e-07 0.000360621
9. 14 0.00520982 0.00589523 0.000317536 0.0042424 0.0048249 0.000247174 nan 0.00233371 nan 1.61924e-07 0.000284538
10. 16 0.00596342 0.00709798 0.00052562 0.00334446 0.00408972 0.000316237 0.00276329 0.00281202 4.87266e-05 3.78656e-07 0.000355273
11. 18 0.00717897 0.00814758 0.000448737 0.00230528 0.00343006 0.000477278 nan 0.00322955 nan 4.2916e-07 0.000463228
12. 20 0.0076666 0.00904423 0.00063823 0.0010255 0.00284728 0.000773037 0.00398672 0.00358632 -0.000400396 1.16524e-06 0.000623228
13. 23 0.0102211 0.0101237 -4.51568e-05 2.28911e-05 0.00210837 0.000884931 0.00556422 0.0040159 -0.00154832 3.18244e-06 0.00102996
Objective Value 2.17569e-06 2.15386e-06 3.51201e-06
Root Mean Square 0.000409097 0.00040704 0.000592622
Weight 0.214628 0.180056 1
File Name: /Users/s144510/Documents/fermentationtool/R2_data_in_moles.csv
Experiment: Experiment_1
Mean: 0.000108599
Objective Value: 4.7147e-06
Root Mean Square: 0.000361889
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square
1. 2 0.000553831 5.28078e-05 -0.000148902 0.0082473 0.0082236 -7.98019e-06 0 1.63298e-05 1.63298e-05 2.2502e-08 8.66064e-05
2. 3.5 0.000717018 0.00015932 -0.000165745 0.00787799 0.0081634 9.61245e-05 0 5.83312e-05 5.83312e-05 4.01139e-08 0.000115634
3. 5 0.00171748 0.000432464 -0.000381902 0.00719248 0.00800875 0.000274915 0 0.000166145 0.000166145 2.49031e-07 0.000288115
4. 6.5 0.00265065 0.000978645 -0.00049691 0.00695747 0.00769837 0.000249532 0.000183464 0.000382075 0.000198611 3.48632e-07 0.000340897
5. 8 0.00321429 0.00180096 -0.000420034 0.00627956 0.00722824 0.00031951 0.000360008 0.000707752 0.000347744 3.99441e-07 0.000364893
6. 9.5 0.00388331 0.00279705 -0.00032283 0.00572759 0.00665397 0.000312001 0.000706176 0.00110283 0.000396654 3.58899e-07 0.00034588
7. 11 0.00446749 0.00385608 -0.000181707 0.00506791 0.00603694 0.000326362 nan 0.00152331 nan 1.3953e-07 0.00026413
8. 12.5 0.00531439 0.00490297 -0.000122272 0.00467803 0.00541919 0.000249619 0.00118737 0.00193926 0.000751898 6.4261e-07 0.000462821
9. 14 0.00588033 0.00589523 4.42675e-06 0.00413146 0.0048249 0.000233547 nan 0.00233371 nan 5.45636e-08 0.000165172
10. 16 0.00710699 0.00709798 -2.67725e-06 0.00317767 0.00408972 0.000307172 0.0019386 0.00281202 0.000873417 8.57218e-07 0.000534546
11. 18 0.00871284 0.00814758 -0.000167991 0.00220047 0.00343006 0.000414118 nan 0.00322955 nan 1.99715e-07 0.000316002
12. 20 0.0113251 0.00904423 -0.000677849 0.000901145 0.00284728 0.000655446 0.00350342 0.00358632 8.28958e-05 8.95961e-07 0.000546492
13. 23.5 0.0108653 0.0102752 -0.000175362 2.40088e-05 0.00199978 0.000665427 0.00389472 0.00407622 0.000181498 5.06487e-07 0.000410888
Objective Value 1.28951e-06 1.7082e-06 1.717e-06
Root Mean Square 0.000314949 0.000362491 0.000414367
Weight 0.0883249 0.11343 1
Parameter Estimation Task
Problem Description:
Subtask:
Time-Course Task
Problem Description:
AutomaticStepSize: 0
StepNumber: 100
StepSize: 0.01
Duration: 1
TimeSeriesRequested: 1
OutputStartTime: 0
Output Event: 0
Start in Steady State: 0
Method: Deterministic (LSODA)
Integrate Reduced Model: 0
Relative Tolerance: 1e-06
Absolute Tolerance: 1e-12
Max Internal Steps: 10000
Max Internal Step Size: 0
List of Fitting Items:
0 <= Values[alpha].InitialValue <= 100; Start Value = 29.9781
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[beta].InitialValue <= 100; Start Value = 75.2896
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[kc].InitialValue <= 100; Start Value = 5.08514
Affected Experiments:
all Affected Validation Experiments:
all
0 <= Values[mu_max].InitialValue <= 100; Start Value = 0.780241
Affected Experiments:
all Affected Validation Experiments:
all
List of Constraint Items:
Method: Random Search
Number of Iterations: 100000
Random Number Generator: 1
Seed: 0
Log Verbosity: 0
[Function Evaluations] [Best Value] [Best Parameters]
1 1.25563e-05 ( 29.9781 75.2896 5.08514 0.780241 )
Parameter Estimation Result:
Objective Function Value: 1.25563e-05
Standard Deviation: 0.00042971
Function Evaluations: 100002
CPU Time [s]: 43.245
Evaluations/Second [1/s]: 2312.45
Parameter Value Gradient Standard Deviation
Values[alpha].InitialValue: 29.9781 nan nan
Values[beta].InitialValue: 75.2896 nan nan
Values[kc].InitialValue: 5.08514 nan nan
Values[mu_max].InitialValue: 0.780241 nan nan
File Name: /Users/s144510/Documents/fermentationtool/R1_data_in_moles.csv
Experiment: Experiment
Mean: 0.000110567
Objective Value: 7.84156e-06
Root Mean Square: 0.000466713
Row Time [biomass](Data) [biomass](Fit) [biomass](Weighted Error) [glucose](Data) [glucose](Fit) [glucose](Weighted Error) [serine](Data) [serine](Fit) [serine](Weighted Error) Objective Value Root Mean Square