May 2022 Commit Log

Number of Commits:
131
Number of Active Developers:
2
sbu062 2022-05-31 10:57 Rev.: 12538

from batch job r12536

21 lines of code changed in 1 file:

sbu062 2022-05-31 10:55 Rev.: 12537

doc: cross-reference to parameters

2 lines of code changed in 1 file:

sbu062 2022-05-31 09:07 Rev.: 12536

batch job: reduced batch for check effect of `appetite_threshold_stomach`
This was for shorter run time than r12532

3 lines of code changed in 1 file:

sbu062 2022-05-30 22:33 Rev.: 12535

web: better description

2 lines of code changed in 1 file:

sbu062 2022-05-30 22:28 Rev.: 12534

web: revert to revision, add diagram

138 lines of code changed in 3 files:

sbu062 2022-05-30 21:56 Rev.: 12533

typo fix

1 lines of code changed in 1 file:

sbu062 2022-05-30 18:47 Rev.: 12532

batch job: check effect of `appetite_threshold_stomach`

5 lines of code changed in 1 file:

sbu062 2022-05-30 15:31 Rev.: 12531

added correction factor to midgut appetite component
It is based on ratio of stomach to midgut capacity to correct for big differences in stomach and midgut capacities and same appetite function

8 lines of code changed in 1 file:

sbu062 2022-05-30 14:26 Rev.: 12530

main parameters file now has cfg extension not dat

1 lines of code changed in 1 file:

sbu062 2022-05-30 14:23 Rev.: 12529

better use object value than global

1 lines of code changed in 1 file:

sbu062 2022-05-30 11:14 Rev.: 12528

parameters file name is now `cfg` extension: **parameters.cfg**
This makes it much easier to work with the file, as syntax highlighting is almost everywhere automatic

264 lines of code changed in 8 files:

sbu062 2022-05-23 14:54 Rev.: 12527

fix: batch varied temperature

5 lines of code changed in 1 file:

sbu062 2022-05-23 14:37 Rev.: 12526

copied and adapted analysis worksheet for simulation batch r12513

201 lines of code changed in 1 file:

sbu062 2022-05-23 14:33 Rev.: 12525

data from simulation batch r12513

1317 lines of code changed in 1 file:

sbu062 2022-05-23 13:55 Rev.: 12524

latest changes in v4

438 lines of code changed in 1 file:

sbu062 2022-05-22 11:10 Rev.: 12523

version 4 added

9 lines of code changed in 1 file:

sbu062 2022-05-22 08:06 Rev.: 12522

version 3 from JG

261 lines of code changed in 1 file:

sbu062 2022-05-20 22:57 Rev.: 12521

SB changes to V1 late evening

96 lines of code changed in 1 file:

sbu062 2022-05-20 22:08 Rev.: 12520

v1 and V2 archival version JG last edits about 14:30

3 lines of code changed in 1 file:

sbu062 2022-05-20 14:38 Rev.: 12519

complete fix

1 lines of code changed in 1 file:

sbu062 2022-05-20 14:37 Rev.: 12518

typo fixed

1 lines of code changed in 1 file:

sbu062 2022-05-20 14:35 Rev.: 12517

copied call to functions and sgr

5 lines of code changed in 1 file:

sbu062 2022-05-20 10:58 Rev.: 12516

add some analysis of SGR

16 lines of code changed in 1 file:

sbu062 2022-05-20 10:49 Rev.: 12515

calculate specific growth rate

5 lines of code changed in 1 file:

sbu062 2022-05-20 10:41 Rev.: 12514

add R functions, start with specific growth rate Houde & Schekter (1981)

10 lines of code changed in 1 file:

sbu062 2022-05-20 10:08 Rev.: 12513

run batch job with extended temperatures, including experiment IFN02

5 lines of code changed in 1 file:

sbu062 2022-05-20 10:00 Rev.: 12512

analysis of batch run r12499 with `ingestion_delay`

181 lines of code changed in 1 file:

sbu062 2022-05-20 09:44 Rev.: 12511

batch simulation with generator script r12499

1097 lines of code changed in 1 file:

sbu062 2022-05-20 09:27 Rev.: 12510

JG did two versions with paragraph notes; JG and CJ modifications

165 lines of code changed in 1 file:

sbu062 2022-05-20 09:26 Rev.: 12509

SB modification morning 20: need link between self-simulation and consciousness

3 lines of code changed in 1 file:

sbu062 2022-05-20 09:24 Rev.: 12508

archival version from history 19 May

349 lines of code changed in 1 file:

sbu062 2022-05-20 09:23 Rev.: 12507

archival version from history 18 May

1 lines of code changed in 1 file:

sbu062 2022-05-20 09:21 Rev.: 12506

archival history 17 May

1 lines of code changed in 1 file:

sbu062 2022-05-20 09:19 Rev.: 12505

initial version from history

1 lines of code changed in 1 file:

sbu062 2022-05-20 09:09 Rev.: 12504

letter pnas, JG two versions for today

513 lines of code changed in 1 file:

sbu062 2022-05-19 08:11 Rev.: 12502

use gzip to compress run data, to much space for data taken

2 lines of code changed in 1 file:

sbu062 2022-05-18 19:22 Rev.: 12501

fix bot

3 lines of code changed in 1 file:

sbu062 2022-05-18 19:15 Rev.: 12500

get ip with dig

12 lines of code changed in 1 file:

sbu062 2022-05-18 19:05 Rev.: 12499

batch run for `ingestion_delay`

5 lines of code changed in 1 file:

sbu062 2022-05-18 19:04 Rev.: 12498

add default `appetite_factor_a`as in additional model run `batch-def-5000000.fishmet`

2 lines of code changed in 1 file:

sbu062 2022-05-18 19:00 Rev.: 12497

revert temperature

5 lines of code changed in 1 file:

sbu062 2022-05-18 18:51 Rev.: 12496

simulation batch for `ingestion_delay`

5 lines of code changed in 1 file:

nzlcj 2022-05-18 09:38 Rev.: 12495

Coded with Kim, added energetics. Next step is to make adaptive length timesteps plus find mind bugs in code developed so far.

40 lines of code changed in 1 file:

sbu062 2022-05-16 10:52 Rev.: 12494

add fit plot

14 lines of code changed in 1 file:

sbu062 2022-05-13 12:13 Rev.: 12493

need to include data simulation file revision number

7 lines of code changed in 1 file:

sbu062 2022-05-13 12:06 Rev.: 12492

fix library loading

3 lines of code changed in 1 file:

sbu062 2022-05-13 11:54 Rev.: 12491

use partial effect size eta-squared

2 lines of code changed in 1 file:

sbu062 2022-05-13 11:42 Rev.: 12490

note on data append r12487

1 lines of code changed in 1 file:

sbu062 2022-05-13 11:34 Rev.: 12489

calculate effect sizes

5 lines of code changed in 1 file:

sbu062 2022-05-13 11:12 Rev.: 12488

plot test chunk line

11 lines of code changed in 1 file:

sbu062 2022-05-13 10:58 Rev.: 12487

appended simulation batch for `appetite_factor_a=5000000` (default)
Diff file for `scripts/sensitivity_generate.py`
{{{
Index: scripts/sensitivity_generate.py
===================================================================
--- scripts/sensitivity_generate.py (revision 12468)
+++ scripts/sensitivity_generate.py (working copy)
@@ -87,8 +87,8 @@
# appetite parameters | parameter array pairs
#----------------------+------------------------------------
appetite = {
- "appetite_factor_a": [ 100, 1000, 10000, 500000 ],
- "appetite_factor_r": [ 10, 10, 10, 20 ]
+ "appetite_factor_a": [ 5000000 ],
+ "appetite_factor_r": [ 20 ]
}

# ------------------------------------------------------------------------------
}}}

132 lines of code changed in 1 file:

sbu062 2022-05-13 10:45 Rev.: 12486

snall changes

5 lines of code changed in 1 file:

sbu062 2022-05-13 10:41 Rev.: 12485

subtitles for easier navigation

6 lines of code changed in 1 file:

sbu062 2022-05-13 10:37 Rev.: 12484

add data import to worksheet

2 lines of code changed in 1 file:

sbu062 2022-05-12 14:47 Rev.: 12483

comments with parameter arrays for dynamic plots of appetite effect

22 lines of code changed in 1 file:

sbu062 2022-05-12 14:30 Rev.: 12482

reordered slice curves for appetite factor

6 lines of code changed in 1 file:

sbu062 2022-05-12 14:25 Rev.: 12481

add slices by food input rate and appetite patytern

27 lines of code changed in 1 file:

sbu062 2022-05-12 14:09 Rev.: 12480

define recoded appetite_pattern by reordering

21 lines of code changed in 1 file:

sbu062 2022-05-12 13:12 Rev.: 12479

accessory plot added

6 lines of code changed in 1 file:

sbu062 2022-05-12 12:48 Rev.: 12478

simple aov add

22 lines of code changed in 1 file:

sbu062 2022-05-12 12:26 Rev.: 12477

add python invocation for body mass levels

18 lines of code changed in 1 file:

sbu062 2022-05-12 12:18 Rev.: 12476

add default appetite curve, batch second run with
{{{
#----------------------+------------------------------------
appetite = {
"appetite_factor_a": [ 5000000 ],
"appetite_factor_r": [ 20 ]
}
}}}
with commands{{{
scripts/sensitivity_generate.py > batch-def-5000000.fishmet
./fishmet.exe --batch < batch-def-5000000.fishmet ; xsend.py sbu062@tegsvn.uib.no "Batch job finished on FISHMET"
}}}

285 lines of code changed in 2 files:

sbu062 2022-05-12 11:56 Rev.: 12475

auto whitespace from rstudio

0 lines of code changed in 1 file:

sbu062 2022-05-12 11:54 Rev.: 12474

add parameter plots and basic scatters

1137 lines of code changed in 5 files:

sbu062 2022-05-12 10:50 Rev.: 12473

reformat md

5 lines of code changed in 1 file:

sbu062 2022-05-12 10:48 Rev.: 12472

more effects

8 lines of code changed in 1 file:

sbu062 2022-05-12 10:45 Rev.: 12471

add md notebook for sa r12461

11 lines of code changed in 1 file:

sbu062 2022-05-12 10:11 Rev.: 12470

rstudio project add

16 lines of code changed in 1 file:

sbu062 2022-05-12 10:07 Rev.: 12469

data: simulation data using batch script r12461

963 lines of code changed in 4 files:

nzlcj 2022-05-11 13:32 Rev.: 12468

Started coding with Kim and Alex but we did most thinking on paper.

28 lines of code changed in 1 file:

sbu062 2022-05-11 12:13 Rev.: 12467

delete obsolete comments on auth, xmpp is not mandatory

2 lines of code changed in 1 file:

sbu062 2022-05-11 11:58 Rev.: 12466

xmpp is configured manually

12 lines of code changed in 1 file:

nzlcj 2022-05-11 10:42 Rev.: 12465

Copy of previous version of model developed with Gabbi and Tom. New focus with Kim and Alex.

128 lines of code changed in 1 file:

sbu062 2022-05-11 09:37 Rev.: 12461

report script revision in xmpp notification

2 lines of code changed in 1 file:

sbu062 2022-05-11 09:33 Rev.: 12460

report end batch by notification via xmpp

2 lines of code changed in 1 file:

sbu062 2022-05-11 09:23 Rev.: 12459

better reporting

5 lines of code changed in 1 file:

sbu062 2022-05-11 09:00 Rev.: 12458

added counter for parameter sets and loop runs

4 lines of code changed in 1 file:

sbu062 2022-05-11 08:09 Rev.: 12457

isolate basic fishmet params

5 lines of code changed in 1 file:

sbu062 2022-05-11 08:03 Rev.: 12456

collapse white space

5 lines of code changed in 1 file:

sbu062 2022-05-11 07:53 Rev.: 12455

model log file set

1 lines of code changed in 1 file:

sbu062 2022-05-11 07:53 Rev.: 12454

better log name

1 lines of code changed in 1 file:

sbu062 2022-05-11 07:52 Rev.: 12453

add log file on execution for control

13 lines of code changed in 1 file:

sbu062 2022-05-11 07:23 Rev.: 12452

pdf is smaller

1 lines of code changed in 1 file:

sbu062 2022-05-11 07:21 Rev.: 12451

need configurable plot format and file extension

7 lines of code changed in 1 file:

sbu062 2022-05-10 17:14 Rev.: 12450

fix appetite parameter set added to file names to avoid confusing numbered names

2 lines of code changed in 1 file:

sbu062 2022-05-10 16:49 Rev.: 12449

model one meal data

1 lines of code changed in 1 file:

sbu062 2022-05-10 16:34 Rev.: 12448

comment only

3 lines of code changed in 1 file:

sbu062 2022-05-10 16:32 Rev.: 12447

add appetite function parameter sets to loop

48 lines of code changed in 1 file:

sbu062 2022-05-10 16:12 Rev.: 12446

more appetite sets commented

3 lines of code changed in 1 file:

sbu062 2022-05-10 16:08 Rev.: 12445

comment parameter sets for appetite

2 lines of code changed in 1 file:

sbu062 2022-05-10 13:39 Rev.: 12444

adapt some vars for fishmet model

5 lines of code changed in 1 file:

sbu062 2022-05-10 13:32 Rev.: 12443

fishmet bot username

1 lines of code changed in 1 file:

sbu062 2022-05-10 13:29 Rev.: 12442

fishmet path

1 lines of code changed in 1 file:

sbu062 2022-05-10 13:24 Rev.: 12441

server components for batch execution

289 lines of code changed in 2 files:

sbu062 2022-05-10 12:16 Rev.: 12440

add generator script revision to all batch outputs

4 lines of code changed in 1 file:

sbu062 2022-05-10 12:03 Rev.: 12439

added helper comment for copy-paste on fishmet server

4 lines of code changed in 1 file:

sbu062 2022-05-10 11:54 Rev.: 12438

typo fix dot

1 lines of code changed in 1 file:

sbu062 2022-05-10 11:53 Rev.: 12437

need script revision number in csv output file

1 lines of code changed in 1 file:

sbu062 2022-05-10 11:42 Rev.: 12436

need to add to roster in both ways, new user and calling user

6 lines of code changed in 1 file:

sbu062 2022-05-10 09:37 Rev.: 12435

reverted, was correct order

1 lines of code changed in 1 file:

sbu062 2022-05-10 09:07 Rev.: 12434

fix add_rosteritem order

2 lines of code changed in 1 file:

sbu062 2022-05-10 08:10 Rev.: 12433

rename bot group

1 lines of code changed in 1 file:

sbu062 2022-05-10 08:09 Rev.: 12432

new ejabberdctl binary is in opt

3 lines of code changed in 1 file:

sbu062 2022-05-09 18:44 Rev.: 12431

try config for audio service discovery XEP-0215

17 lines of code changed in 1 file:

sbu062 2022-05-09 18:02 Rev.: 12430

adapted config for new ejabberd 21.12 websocket port 5443/ws

2 lines of code changed in 2 files:

sbu062 2022-05-09 17:59 Rev.: 12429

new config adapted from native installed ejabberd file

132 lines of code changed in 1 file:

sbu062 2022-05-09 17:47 Rev.: 12428

moved to ejabberd 21.12, minimum changes to make working config

7 lines of code changed in 1 file:

sbu062 2022-05-09 13:10 Rev.: 12427

pem extension

1 lines of code changed in 1 file:

sbu062 2022-05-09 12:23 Rev.: 12426

moved to letsencrypt certificate by buypass

1 lines of code changed in 1 file:

sbu062 2022-05-09 12:17 Rev.: 12425

deleted obsolete but long comments on SSL

0 lines of code changed in 1 file:

sbu062 2022-05-09 12:12 Rev.: 12424

configuration for acme ssl certificate via buypass
{{{
certbot certonly -d tegsvn.uib.no --server 'https://api.buypass.com/acme/directory'
}}}

152 lines of code changed in 1 file:

sbu062 2022-05-08 14:21 Rev.: 12423

no borders

9 lines of code changed in 1 file:

sbu062 2022-05-08 14:18 Rev.: 12422

better wording

11 lines of code changed in 1 file:

sbu062 2022-05-08 14:11 Rev.: 12421

fix wrong numbering

14 lines of code changed in 1 file:

sbu062 2022-05-08 14:09 Rev.: 12420

typo

9 lines of code changed in 1 file:

sbu062 2022-05-08 12:38 Rev.: 12419

human-readable link

18 lines of code changed in 1 file:

sbu062 2022-05-08 12:36 Rev.: 12418

better name

452 lines of code changed in 2 files:

sbu062 2022-05-08 11:56 Rev.: 12417

add link

9 lines of code changed in 1 file:

sbu062 2022-05-08 11:16 Rev.: 12416

typo

12 lines of code changed in 1 file:

sbu062 2022-05-08 11:01 Rev.: 12415

typo

9 lines of code changed in 1 file:

sbu062 2022-05-08 10:39 Rev.: 12414

image bigger

58 lines of code changed in 1 file:

sbu062 2022-05-08 10:38 Rev.: 12413

format for pdf

118 lines of code changed in 1 file:

sbu062 2022-05-08 10:30 Rev.: 12412

small fix, published

8 lines of code changed in 1 file:

sbu062 2022-05-08 09:57 Rev.: 12411

added, small

17 lines of code changed in 1 file:

sbu062 2022-05-08 09:52 Rev.: 12410

image flag

38 lines of code changed in 1 file:

sbu062 2022-05-08 09:47 Rev.: 12409

small fixes

30 lines of code changed in 1 file:

sbu062 2022-05-08 09:35 Rev.: 12408

russian text

59 lines of code changed in 1 file:

sbu062 2022-05-08 07:51 Rev.: 12407

add ref to Masnick

64 lines of code changed in 1 file:

sbu062 2022-05-05 22:11 Rev.: 12406

draft, reformat lines

41 lines of code changed in 1 file:

sbu062 2022-05-05 15:19 Rev.: 12405

draft from letter

120 lines of code changed in 1 file:

sbu062 2022-05-01 07:25 Rev.: 12404

add link gmail scanned emails until 2017

15 lines of code changed in 1 file:

April 2022 »

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