Developers: hje044

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hje044 2022-06-30 09:19 Rev.: 12648

Added functionality to saved the random seed in the ncdf file.

189 lines of code changed in 3 files:

• branches/henrik/ecoevo_ibm: main.f90 (+13 -6)
• branches/henrik/ecoevo_ibm/R: for_risk_paper.R (new 175), time_series_plots.R (+1 -1)

hje044 2022-06-27 12:50 Rev.: 12639

Model version 1.0 finally ready. Now includes better functionality for starting from a previous population, plots have been added to showcase starting values, and year 1 is now always saved in results regardless of WriteInterval.

380 lines of code changed in 4 files:

• branches/henrik/ecoevo_ibm: main.f90 (+167 -79), svnignore.txt (+3 -1)
• branches/henrik/ecoevo_ibm/R: initial_pop_plots.R (new 144), time_series_plots.R (+66 -84)

hje044 2022-04-06 08:36 Rev.: 12345

Now also saves cumulative fecundity for plotting purposes.

91 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+45 -20)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+46 -13)

hje044 2022-03-15 12:29 Rev.: 12223

R script can now handle NA values, allowing me to load in runs that crashed prior to finishing

13 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+11 -7)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+2)

hje044 2022-03-11 08:09 Rev.: 12220

Added option for increasing temperature over the years, and generalised parameters for stochastic deviance in inheritance and phenotypic plasticity.

273 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+80 -59)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+193 -143)

hje044 2022-02-02 09:41 Rev.: 12148

Includes better plotting functionality in R using interactive Plotly plots ans Esquisser() function built facet plots.

204 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+6 -6)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+198 -55)

hje044 2022-01-26 09:48 Rev.: 12015

Added diminishing returns to Appetite-energy, and moved Appetite onto energy intake rather than energy availability. Full rundown in OneNote 2022-2 and 2022-3.

85 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+44 -37)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+41 -26)

hje044 2021-12-08 11:12 Rev.: 11861

Moved density dependance to energy rather than appetite, testing out deminishing returns on appetite

43 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+14 -10)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+29 -4)

hje044 2021-11-29 11:54 Rev.: 11836

Makefile updated to be OS-agnostic. NetCDF libraries now pulled based on operating system

42 lines of code changed in 3 files:

• branches/henrik/ecoevo_ibm: main.f90 (+5 -5), makefile (+8)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+29 -8)

hje044 2021-11-11 14:29 Rev.: 11797

Saved large runs after 10K years to reach equilibrium both fished and unfished

29 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+5 -3)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+24 -18)

hje044 2021-11-09 09:16 Rev.: 11771

New plots for wholly unfished population as well, use in meeting tomorrow

16 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+5 -4)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+11 -11)

hje044 2021-11-09 08:28 Rev.: 11768

Saves additional evolution plot, now including growth

51 lines of code changed in 1 file:

• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+51 -3)

hje044 2021-11-03 11:25 Rev.: 11734

Now plots evolution of maturation-related measures for all runs.

57 lines of code changed in 3 files:

• branches/henrik/ecoevo_ibm: main.f90 (+11 -3), makefile (+1 -1)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+45 -10)

hje044 2021-11-02 13:43 Rev.: 11725

Model now also capable of saving heritabilities. R-script updated to also pull in several runs heritabilities, and plotting these.

112 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+69 -13)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+43 -6)

hje044 2021-10-25 13:09 Rev.: 11694

Fixed a bug which added negative growth to smaller individuals, eventually leading to crashing the population

35 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+30 -29)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+5)

hje044 2021-10-20 10:19 Rev.: 11644

Added biomass plot to R-script

17 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+1 -1)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+16)

hje044 2021-10-18 11:44 Rev.: 11625

R loads parameters too, and now plots several runs alongside each other. Saved results include evolving traits, which R now plots over the years.

123 lines of code changed in 3 files:

• branches/henrik/ecoevo_ibm: main.f90 (+39 -29), makefile (+1 -1)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+83 -18)

hje044 2021-10-14 09:59 Rev.: 11581

Fixed bug in calculating skipspawnthreshold, number of spawn skippers now much more realistic, and no more negative gonad growth. Also added R functionality to read data when only a single run was made.

67 lines of code changed in 3 files:

• branches/henrik/ecoevo_ibm: main.f90 (+33 -18), makefile (+3 -2)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+31 -26)

hje044 2021-10-12 10:02 Rev.: 11568

R now capable of importing and combining multiple .nc files

64 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+1 -1)
• branches/henrik/ecoevo_ibm/R: time_series_plots.R (+63 -25)

hje044 2021-10-11 17:15 Rev.: 11567

Now saves standard deviation, and avoids overwriting previous runs

95 lines of code changed in 2 files:

• branches/henrik/ecoevo_ibm: main.f90 (+94 -55), makefile (+1 -1)

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