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AtChem2 v1.2.1
-------------
Directories
-------------
Model directory is: model
Output directory is: travis/tests/firstorder/output
Reaction Rates directory is: travis/tests/firstorder/output/reactionRates
Configuration directory is: travis/tests/firstorder/model/configuration
Constraints directory is: travis/tests/firstorder/model/constraints
Environment Constraints directory is: travis/tests/firstorder/model/constraints/environment
Photolysis Constraints directory is: travis/tests/firstorder/model/constraints/photolysis
Species Constraints directory is: travis/tests/firstorder/model/constraints/species
MCM directory is: mcm
Shared library is: travis/tests/firstorder/model/configuration/mechanism.so
-----------------------
Species and reactions
-----------------------
Number of Species = 2
Number of Reactions = 1
Size of lhs = 1
Size of rhs = 1
Reading reactants (lhs) from mechanism.reac...
Reading products (rhs) from mechanism.prod...
Finished reading lhs and rhs data.
Reading species names from mechanism.species...
Finished reading species names.
Reading initial concentrations...
1 A 1.000E+02
2 B 0.000E+00
Finished reading initial concentrations.
----------------------------------------
Species requiring detailed rate output
----------------------------------------
Reading which species require detailed rate output...
1 A
2 B
Finished reading which species require detailed rate output.
Species requiring detailed rate output (number of species found): 2
Reading ro2 numbers from mechanism.ro2...
Finished reading ro2 numbers.
Reading solver parameters from file...
------------------
Solver parameters:
------------------
atol: 1.000E-03
rtol: 1.000E-04
deltaMain: 1.000E-04
lookBack: 100
maxStep: 1.000E+02
preconBandUpper: 750
preconBandLower: 750
solverType: SPGMR + Banded Preconditioner
------------------
Finished reading solver parameters from file.
Reading model parameters from file...
-----------------
Model parameters:
-----------------
number of steps: 1500
step size: 0.100E+01
species interpolation method: piecewise linear
conditions interpolation method: piecewise linear
rates output step size, ROPA/RODA: 1
model start time: 0
jacobian output step size: 1
latitude: 0.529E+02
longitude: 0.000E+00
reaction rates output step size: 100
day/month/year: 19/11/2008
-----------------
Finished reading model parameters from file.
---------------------
Species of Interest
---------------------
Reading concentration output from file...
Finished reading concentration output from file.
Output required for concentration of 2 species:
1 A
2 B
------------
Photolysis
------------
Reading photolysis numbers from file...
1
...
61
Finished reading photolysis numbers.
Number of photolysis numbers: 35
Looking for photolysis constants file...
No photolysis constants file found.
No photolysis constants applied, so trying constrained photolysis rates file...
Looking for photolysis constraints file...
Checking that photolysis constraints exist in file...
Photolysis constraint file is empty, so all photolysis rates will be calculated.
Reading all photolysis rates from file...
1 6.073E-05 1.743E+00 4.740E-01 J1 1.000E+00
...
61 7.537E-04 4.990E-01 2.660E-01 J61 1.000E+00
Finished reading all photolysis rates.
Number of all photolysis rates: 35
-----------------------
Environment variables
-----------------------
Reading environment variables...
Number of environment variables: 11
1 TEMP 281.95
2 PRESS 1013.25
3 RH NOTUSED
4 H2O 3.06e+17
5 DEC -0.34
6 BLHEIGHT NOTUSED
7 DILUTE NOTUSED
8 JFAC NOTUSED
9 ROOF CLOSED
10 ASA NOTUSED
Finished reading environment variables.
Checking for constrained environment variables...
Finished checking for constrained environment variables.
-------------
Constraints
-------------
Counting the variable-concentration species to be constrained (in file speciesConstrained.config)...
Finished counting the names of variable-concentration constrained species.
Number of names of variable-concentration constrained species: 0
Counting the fixed-concentration species to be constrained (in file speciesConstant.config)...
Finished counting the names of fixed-concentration constrained species.
Number of names of fixed-concentration constrained species: 0
Setting size of constraint arrays, n = 0
Skipped reading the names of variable-concentration constrained species
Reading concentration data for variable-concentration constrained species...
Reading in the names and concentration of the fixed constrained species (in file speciesConstant.config)...
Finished reading in the names and concentration of fixed-concentration species.
Finished reading constrained species.
Initialising concentrations of constrained species...
Finished initialising concentrations of constrained species.
---------------
Problem stats
---------------
neq = 2
numberOfConstrainedSpecies = 0
t0 = 0.000E+00
setting maxnumsteps ier = 0
setting maxstep ier = 0
-----------
Model run
-----------
time = 1
time = 2
time = 3
time = 4
time = 5
time = 6
time = 7
time = 8
time = 9
time = 10
time = 11
time = 12
time = 13
time = 14
time = 15
time = 16
time = 17
time = 18
time = 19
time = 20
time = 21
time = 22
time = 23
time = 24
time = 25
time = 26
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time = 712
time = 713
time = 714
time = 715
time = 716
time = 717
time = 718
time = 719
time = 720
time = 721
time = 722
time = 723
time = 724
time = 725
time = 726
time = 727
time = 728
time = 729
time = 730
time = 731
time = 732
time = 733
time = 734
time = 735
time = 736
time = 737
time = 738
time = 739
time = 740
time = 741
time = 742
time = 743
time = 744
time = 745
time = 746
time = 747
time = 748
time = 749
time = 750
time = 751
time = 752
time = 753
time = 754
time = 755
time = 756
time = 757
time = 758
time = 759
time = 760
time = 761
time = 762
time = 763
time = 764
time = 765
time = 766
time = 767
time = 768
time = 769
time = 770
time = 771
time = 772
time = 773
time = 774
time = 775
time = 776
time = 777
time = 778
time = 779
time = 780
time = 781
time = 782
time = 783
time = 784
time = 785
time = 786
time = 787
time = 788
time = 789
time = 790
time = 791
time = 792
time = 793
time = 794
time = 795
time = 796
time = 797
time = 798
time = 799
time = 800
time = 801
time = 802
time = 803
time = 804
time = 805
time = 806
time = 807
time = 808
time = 809
time = 810
time = 811
time = 812
time = 813
time = 814
time = 815
time = 816
time = 817
time = 818
time = 819
time = 820
time = 821
time = 822
time = 823
time = 824
time = 825
time = 826
time = 827
time = 828
time = 829
time = 830
time = 831
time = 832
time = 833