gnuploit lowercase
4 lines of code changed in 1 file:
set environment variables
7 lines of code changed in 1 file:
run C2: normal time sters
0 lines of code changed in 2 files:
deleted duplicate, ahafarm had been in budaev's branch
0 lines of code changed in 2 files:
updated init scripts
163 lines of code changed in 2 files:
basic user scripts for AHA computinmg farm machines on IaaS, Debian-based
0 lines of code changed in 2 files:
(disassemble) can now accept a single (array rank 1) habitat object
6 lines of code changed in 3 files:
deleted habitat_dangerous, WARNING: no docs were changed
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model descriptors
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return normal
2 lines of code changed in 1 file:
run F9: reduced behavioural ranges
2 lines of code changed in 1 file:
delete .feq. that isn't called now
2 lines of code changed in 1 file:
save overhead of extra function call by using (is_near_zero) instead of (.feq.)
2 lines of code changed in 1 file:
renderig pdf readme
2 lines of code changed in 1 file:
small fix build cmd
1 lines of code changed in 1 file:
small fix build cmd
3 lines of code changed in 1 file:
small fix build cmd
1 lines of code changed in 1 file:
additional build notes
14 lines of code changed in 2 files:
small fixes, aliasing disabled
3 lines of code changed in 1 file:
disabled hrp aliasing so far as it conflicts with ifort
3 lines of code changed in 1 file:
additional notes on hrp
4 lines of code changed in 1 file:
contents in readme, now too many files
10 lines of code changed in 1 file:
added old visual range code too
0 lines of code changed in 1 file:
small note
3 lines of code changed in 1 file:
redefined local HRP in VISRANGE and aliased HRP as defined in other modules, for portability
6 lines of code changed in 1 file:
explanations for hrp
10 lines of code changed in 1 file:
small fix
2 lines of code changed in 1 file:
added hrp definition in comments
5 lines of code changed in 1 file:
small fixes
4 lines of code changed in 3 files:
small fix
2 lines of code changed in 1 file:
small fix
5 lines of code changed in 2 files:
added short doc and tweaked makefile
56 lines of code changed in 2 files:
micro fix
2 lines of code changed in 2 files:
default build is gnuplot-based
3 lines of code changed in 2 files:
not very important fixes
22 lines of code changed in 6 files:
added test program using gnuplot (ogpf module) for plotting, small fixes
1880 lines of code changed in 4 files:
small addition comment
1 lines of code changed in 1 file:
added test plotting program
2 lines of code changed in 2 files:
merged latest hedtools changes, new web address mainly
15 lines of code changed in 2 files:
added repackaged visual range calculation procedures by Dag Aksnes
0 lines of code changed in 1 file:
doc: small forgotten addition to comments
9 lines of code changed in 5 files:
minor fix label
3 lines of code changed in 3 files:
minor fix label
1 lines of code changed in 1 file:
rename: attention weight to attention switch: ATTENTION_WEIGHT_ to ATTENTION_SWITCH_
867 lines of code changed in 6 files:
run F8: fixed time steps
1 lines of code changed in 1 file:
(generations_loop_ga): relaxed deterioration condition
1 lines of code changed in 1 file:
return to normal
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run F6: eat only life cycle, fixed time steps
1 lines of code changed in 1 file:
run F5: eat only life cycle, normal time steps
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return normal
1 lines of code changed in 1 file:
run F4: normal time steps, GOS-linked (non-predicted) behaviour
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run F3: fixed time steps, GOS-linked (non-predicted) behaviour
2 lines of code changed in 2 files:
return normal time steps
1 lines of code changed in 1 file:
run F2: fixed steps forced
1 lines of code changed in 1 file:
reduced mutation rate
2 lines of code changed in 1 file:
(behaviour_select_fixed_from_gos): named if construct
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added (behaviour_select_fixed_from_gos) to the public interface doc as an alternative backend, but not included into procedure so far.
5 lines of code changed in 1 file:
(behaviour_select_fixed_from_gos): behaviour selection procedure rigidly linked with specific GOS
112 lines of code changed in 1 file:
deleted notes
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doc: attention switches
174 lines of code changed in 3 files:
doc: added added attention switches to global architecture scheme
18174 lines of code changed in 9 files:
doc: 850 px
8 lines of code changed in 1 file:
web: added attention switch symbols, 850 px
5539 lines of code changed in 1 file:
doc small fix, symbols
5 lines of code changed in 1 file:
doc: fix links for attention switch parameters
35 lines of code changed in 1 file:
added attention switches to global architecture scheme
0 lines of code changed in 6 files:
doc: cleanup attention switch parameters
48 lines of code changed in 1 file:
doc: fix descriptors
0 lines of code changed in 2 files:
Transform to unitary FEAR: renamed active_avoidance to defence_fear in object names
11 lines of code changed in 3 files:
Transform to unitary FEAR: renamed active_avoidance to fear_defence in docs
13 lines of code changed in 2 files:
Transform to unitary FEAR: renamed avoid_active to fear_defence
70 lines of code changed in 3 files:
doc: updated svn and eps for motivaion
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doc: updated svn and eps for appraisal
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what's done
3 lines of code changed in 1 file:
doc: updated motivation chart for unitary fear state
0 lines of code changed in 2 files:
doc: updated appraisal chart for unitary fear state
0 lines of code changed in 2 files:
recorded final replanned renames
2 lines of code changed in 1 file:
Transform to unitary FEAR: further renames for fear state main class to keep name string length same as avoid_active
11 lines of code changed in 2 files:
temporary text file with rename patterns for unitary fear
5 lines of code changed in 1 file:
Transform to unitary FEAR: small renames
3 lines of code changed in 1 file:
Transform to unitary FEAR: rename: 'active avoidance' is noe 'fear state' in doxy comments
42 lines of code changed in 3 files:
Transform to unitary FEAR: rename: STATE_AVOID_ACTIVE now STATE_FEAR
11 lines of code changed in 2 files:
return normal nonfixed time steps
1 lines of code changed in 1 file:
run F3: fixed steps forced
3 lines of code changed in 1 file:
renamed baseline attention weights to attention switch
181 lines of code changed in 2 files:
Transform to unitary FEAR: attention switches matrix updated
14 lines of code changed in 1 file:
Transform to unitary FEAR: deleted G x P genotype matrices for passive avoidance
0 lines of code changed in 1 file:
Transform to unitary FEAR: have modified all G x P matrices and crossover matrix, 6 chromosomes
719 lines of code changed in 1 file:
Transform to unitary FEAR: started modifying G x P matrices: _PASS_AVOID_GENOTYPE_NEURONAL reset to 6 chromosomes
168 lines of code changed in 1 file:
Transform to unitary FEAR: deleted baseline attention weights: ATTENTION_WEIGHT_AVOID_PASS_
0 lines of code changed in 1 file:
Transform to unitary FEAR: deleted passive avoidance from THE_BEHAVIOUR: STATE_AVOID_PASSIVE, avoid_passive, passive_avoidance
10 lines of code changed in 6 files:
Transform to unitary FEAR: deleted passive avoidance from THE_NEUROBIO: STATE_AVOID_PASSIVE, avoid_passive, passive_avoidance
0 lines of code changed in 2 files:
changed model descriptors appropriately
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return normal nonfixed time steps
1 lines of code changed in 1 file:
run F5: fixed steps forced
1 lines of code changed in 1 file:
backported from 02: (lifecycle_preevol): return to original Global_Ind_N_Eaten_by_Predators so far, difference score algorithm is wrong, would need additional array
8 lines of code changed in 2 files:
(lifecycle_preevol): return to original Global_Ind_N_Eaten_by_Predators so far, difference score algorithm is wrong, would need additional array
4 lines of code changed in 1 file:
Added survarray, that contains a summary of how many individuals that died, was to slow or survived during the model run. This is printed as a summary in the end when the model finishes running.
14 lines of code changed in 1 file:
return normal nonfixed time steps
1 lines of code changed in 1 file:
backported svn r6652-6656: (lifecycle_preevol): fix timesteps data output, raw scalar Global_Ind_N_Eaten_by_Predators instead of array
84 lines of code changed in 2 files:
backported 02: (gamma2gene): forced minimum perception is reset to ZERO parameter, can arighmetic crash with TOLERANCE_LOW_DEF_SRP
4 lines of code changed in 2 files:
run F5: fixed steps forced
1 lines of code changed in 1 file:
(lifecycle_preevol): Global_Ind_N_Eaten_by_Predators is saved as differences scores in the timesteps data, n_agents_eaten array reshaped
6 lines of code changed in 1 file:
(lifecycle_preevol): fix timesteps data output, raw scalar Global_Ind_N_Eaten_by_Predators instead of array
5 lines of code changed in 1 file:
(gamma2gene): forced minimum perception is reset to ZERO parameter, can arighmetic crash with TOLERANCE_LOW_DEF_SRP
2 lines of code changed in 1 file:
renumbered matrix save code vars for timesteps data for readability
36 lines of code changed in 1 file:
return normal nonfixed time steps
1 lines of code changed in 1 file:
run F5: fixed steps forced
1 lines of code changed in 1 file:
merged from 02: added global Global_Ind_N_Eaten_by_Predators
249 lines of code changed in 5 files:
(lifecycle_preevol): save Global_Ind_N_Eaten_by_Predators in time steps data files
4 lines of code changed in 1 file:
(generations_loop_ga): renumbered
102 lines of code changed in 1 file:
(generations_loop_ga): now save Global_Ind_N_Eaten_by_Predators in generation-wise stats file
4 lines of code changed in 1 file:
added global indicator Global_Ind_N_Eaten_by_Predators to keep generation-wise counter for agents eaten by predators
17 lines of code changed in 2 files:
(1) Changed the name of m1 into M_O2_coeff (2) Changed the name of m2 into M_interaction (3) Some small minor changes to comments and placement
3 lines of code changed in 1 file:
(1) Changed the name of m1 into M_O2_coeff and moved it from the calculation of survival to the calculation of M_O2. (2) Changed the name of m2 into M_interaction.
6 lines of code changed in 1 file:
(1) Now removing strategy.mx, fitness.mx, ind.mx and ind.df after use to clear memory. (2) Moved all plots with hormoned and environment against mortality to under the mortality header and their are now saved in the mortality folder. (3) Added plot with mortality ~ environments with colour=length and facet_wrap=mortality type. (4) Added new plots with mortality~hormone and mortality~environment for halfway to max length with colour=R_cat. (5) Changes surplus_before_growth (J timestep -1) into surplus_before_growth/(weight*1000) (J g -1 timestep -1) in plots under trade-off header. (6) Commented out individual plots (excluding mortality plots).
102 lines of code changed in 1 file:
Renamed foraging_OXF into target_intake and rewrote headers and axis titles for this variable in plots, also seperated conversion_cost into conversion_cost_via_reserves and conversion_cost_to_growth to reflect the changes in the main code.
25 lines of code changed in 1 file:
Renamed foraging_OXF into target_intake and rewrote comments for this variable, also seperated conversion_cost_via_reserves and conversion_cost_to_growth in the ind-array and hence the ind.bin file.
19 lines of code changed in 1 file:
crontab entries are last
4 lines of code changed in 1 file:
add pip and pelican to web server install script
3 lines of code changed in 1 file:
return normal nonfixed time steps
1 lines of code changed in 1 file:
reduced batch mutation rate
2 lines of code changed in 1 file:
run F4: fixed steps forced
1 lines of code changed in 1 file:
reduced mutation rate parameters, especially batch
4 lines of code changed in 1 file:
remark from 02
3 lines of code changed in 1 file:
backported svn r6630-6631 from 03: maximum mutation rate is set as optional dummy parameter in (population_ga_mutation_rate_adaptive)
86 lines of code changed in 6 files:
Added specific maximum mutation rate parameters for point and batch mutations
12 lines of code changed in 2 files:
(population_ga_mutation_rate_adaptive): maximum mutation rate is optional dummy parameter
34 lines of code changed in 2 files:
backported (lifecycle_preevol): fix timesteps output file array reshape params
2 lines of code changed in 2 files:
(lifecycle_preevol): fix timesteps output file array reshape params
1 lines of code changed in 1 file:
doc: small remark added
2 lines of code changed in 1 file:
run optimization: IS_DEBUG is reset as parameter, check out DEBUG_COMPILER_OPTIMISE tag
4 lines of code changed in 1 file:
(lifecycle_preevol): backported depth range, min-max to 'timespeps_' outputs
102 lines of code changed in 2 files:
(lifecycle_preevol): added food items depth range, min-max to 'timespeps_' outputs:: dangerous habitat
14 lines of code changed in 1 file:
(lifecycle_preevol): added food items depth range, min-max to 'timespeps_' outputs:: safe habitat
23 lines of code changed in 1 file:
(lifecycle_preevol): added agent depth range, min-max to 'timespeps_' outputs
16 lines of code changed in 1 file:
returned normal
1 lines of code changed in 1 file:
Added plots for surplus_before_growth~environment and reserve_diff~environment both with R_cat as colour and both for 4 different lengths. Also some minor fixes to how plots look.
43 lines of code changed in 1 file:
Changed the name of simple.halvveis.plot function into simple.plot, as the function is now reworked to take any length. In other words you now have to specify the length you want to plot. Added halvveis (halfway to max length) as length to the plots that already used this function.
28 lines of code changed in 1 file:
Minor change.
2 lines of code changed in 1 file:
backported from 02: (population_ga_mutation_rate_adaptive): slightly raised maximum mutation rate, mutation increment reduced for non_grow
4 lines of code changed in 2 files:
run F1: force fixed steps with wide (but narrower) scatter of migrating foods
1 lines of code changed in 1 file:
(population_ga_mutation_rate_adaptive): slightly raised maximum mutation rate, mutation increment reduced for non_grow
2 lines of code changed in 1 file:
(population_ga_mutation_rate_adaptive): reduced maximum mutation rate
1 lines of code changed in 1 file:
Added plots for surplus_before_growth~environment+OXF and reserve_diff~environment+OXF.
15 lines of code changed in 1 file:
Changed the importing and manipulation of ind.bin to reflect the changes in the hormone model.
4 lines of code changed in 1 file:
Corrected error in last update, and added the change in reserves from the beginning and the end of the timestep to the ind array and hence the ind.bin binary file.
2 lines of code changed in 1 file:
Now also saving surplus_before_growth to the ind array and hence the ind.bin file.
2 lines of code changed in 1 file:
Minor fix, one figure were not saved, but it is fixed now.
5 lines of code changed in 1 file:
CHECK_DETERIORATE: relaxed deretioration condition for halt, merged backported from 02
6 lines of code changed in 2 files:
CHECK_DETERIORATE: relaxed deretioration condition for halt
3 lines of code changed in 1 file:
Added plot with intake~THF, foraging_required~THF, growth~THF, surival~hormones and a complex plot with two y-axes with mean intake & mean SMR standard ~ environment with total mean intake and probabilty curve of the environments in the background.
86 lines of code changed in 1 file:
doc: merged doc on attention transfer
14 lines of code changed in 2 files:
doc: added on attention transfer
7 lines of code changed in 1 file:
updated system bashrc
5 lines of code changed in 1 file:
added readme with clone command
5 lines of code changed in 1 file:
Standardized bash environment for AHA Farm virtual Linux hosts
137 lines of code changed in 1 file:
updated
225 lines of code changed in 2 files:
2D image plots
0 lines of code changed in 1 file:
minor changes
196 lines of code changed in 2 files:
run F2: normal run, wide (but narrower) scatter of migrating foods
1 lines of code changed in 1 file:
run F1: force fixed steps with longer cycle predation enabled, wide (but narrower) scatter of migrating foods
1 lines of code changed in 1 file:
backport reduce range of food items from 02
6 lines of code changed in 2 files:
reduce migration range of food items
2 lines of code changed in 1 file:
run F2: normal run, wide scatter of migrating foods
1 lines of code changed in 1 file:
run F7: force fixed steps with longer cycle predation enabled, wide scatter of migrating foods
1 lines of code changed in 1 file:
(lifecycle_preevol): in timesteps file, leading zeros in generations, backported from 02
4 lines of code changed in 2 files:
(lifecycle_preevol): in timesteps file, leading zeros in generations
2 lines of code changed in 1 file:
web: links
2 lines of code changed in 1 file:
web: fortran comparisons
6 lines of code changed in 1 file:
web: added comparison link
1 lines of code changed in 1 file: