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2023-04-16Add coverage target for local coverage reportJohannes Ranke3-0/+6
I get almost 90% when testing locally
2023-04-16Make travis wait longer also for codecov coverageJohannes Ranke1-1/+1
2023-04-16Make the template work on Windows (with RStudio)Johannes Ranke1-4/+8
It seems that we cannot use stored DLLs (for pathway fits) on clusters when using Windows, where we use PSOCK clusters. Although it works on winbuilder in the tests in tests/testthat/test_compiled.R. Maybe it is something RStudio specific.
2023-04-16Skip the Eigenvalue based saem testJohannes Ranke2-13/+18
It took too long, and this solution method is not recommended. We are saving 140 seconds here on my system, so more time is saved on travis.
2023-04-15Need even more time for tests nowJohannes Ranke1-1/+1
2023-04-15Fix the travis_wait commandJohannes Ranke1-1/+1
2023-04-15The tests run longer now, so make travis waitJohannes Ranke1-1/+1
2023-04-15Increase test coverageJohannes Ranke6-20/+92
Also, using mkin analytical solutions for more than one observed variable is not supported (but could be if out_values would be reordered).
2023-04-15Update description and newsJohannes Ranke2-3/+7
2023-04-15Fix logic in testJohannes Ranke1-1/+1
2023-04-15Merge branch 'codecov'Johannes Ranke1-0/+1
2023-04-15Fix platform dependence in testJohannes Ranke1-1/+5
2023-04-15Make predefined symbols saferJohannes Ranke9-28/+113
We still need to create a parallel processing cluster _after_ creating a compiled model that is moved to a user defined location, at least I did not find another way to make it work. This is not a problem with parallel processing without a cluster, which is not available on Windows.
2023-04-15Don't try(mkinpredict), it would still error laterJohannes Ranke1-3/+2
2023-04-15Move preprocessing of DMTA data to the test setupJohannes Ranke2-11/+12
2023-04-15Make using predefined symbols optionalJohannes Ranke1-2/+11
I got crashes under some circumstances when using symbols stored in the mkinmod object. One such circumstance was the use of a moved DLL in combination with parallel computing on a cluster. As I cannot exactly define at the moment when this happens, it is better to make this an opt in.
2023-04-14Dont fix mean_degparms if it does not existJohannes Ranke1-4/+6
2023-04-14Reintroduce codecov badge with correct linkJohannes Ranke1-0/+1
2023-04-06Remove codecov badge, as the link does not workJohannes Ranke2-2/+1
Also, every time I would like to log in to codecov.io with my github account, it tells me that it wants complete read and write access to all my repositories, which I do not want to grant for obvious reasons.
2023-04-06Fix a bug with moved DLLs and current deSolveJohannes Ranke3-24/+18
In mkinmod, dll_info was not included in the returned model object in the case that the DLL was moved to a user defined directory. This is now fixed.
2023-04-06Check notes on winbuilderJohannes Ranke3-6/+6
- The CRAN spell check does not like 'backend', using 'back end' now - URL updates in README
2023-04-02Bump dateJohannes Ranke1-1/+1
2023-04-02Deal with covariates in summary for saem.mmkin objectsJohannes Ranke5-20/+49
2023-04-01Update tests on 5950xJohannes Ranke7-166/+159
Update platform dependent test plots
2023-03-23Support covariates in endpoints()Johannes Ranke12-49/+100
2023-03-22Merge branch 'main' into covariate_parms_and_endpointsJohannes Ranke10-160/+169
2023-03-22Fix typo in mkinerrminJohannes Ranke10-160/+169
Thanks to Sebastian Meyer for spotting it.
2023-03-22Fix plotting saemix without covariates, polishJohannes Ranke1-4/+11
Better linetypes and labels
2023-03-20Support covariates in parms and plot.saem.mmkinJohannes Ranke3-53/+113
2023-03-15Start parms and endpoints for covariatesJohannes Ranke2-3/+13
2023-03-14deSolve 1.35 is on CRAN now, thanks Thomas!Johannes Ranke1-1/+0
2023-02-26Improve documentation of the formatJohannes Ranke2-3/+38
2023-02-23Basic check if covariate data are usableJohannes Ranke1-4/+11
2023-02-18Tell travis to take deSolve from drat repoJohannes Ranke1-0/+1
It seems that eddelbuettel/r-ci#10 is still bugging me
2023-02-18Mention recent case studies in READMEJohannes Ranke4-10/+21
2023-02-17Update online docs, fix bug that surfacedJohannes Ranke42-294/+750
2023-02-17Update benchmark results for 7950XJohannes Ranke12-124/+210
2023-02-17Rethink versioning and remove 7950X benchmarksJohannes Ranke4-2/+2
I will add benchmark data for 1.2.0, 1.2.2 and 1.2.3 for better comparison
2023-02-17Mention deSolve development in NEWSJohannes Ranke1-2/+6
2023-02-17Finish adapting to upcoming deSolveJohannes Ranke18-229/+267
2023-02-17Commit prebuilt vignettes from desktopJohannes Ranke3-0/+0
2023-02-17Merge remote-tracking branch 'origin/main' into faster_lsodaJohannes Ranke4-6/+7
2023-02-17Fix path, build target for prebuilt pdf vignettesJohannes Ranke2-1/+4
2023-02-13Update mmkin docs, parallel is not loaded any moreJohannes Ranke1-4/+3
2023-02-13Prepare to keep prebuilt vignettes as pdf in gitJohannes Ranke1-1/+0
2023-02-13WIP adapting to new deSolve with faster lsodaJohannes Ranke5-100/+104
2023-02-13Merge branch 'main' into custom_lsoda_callJohannes Ranke494-14040/+33507
2023-01-28Update saem benchmark with new CPUJohannes Ranke3-22/+123
2023-01-28Some improvements to the READMEJohannes Ranke4-53/+202
2023-01-28Build online HTML versions of prebuilt vignettesJohannes Ranke39-49/+10017
Also, give some structure to the menu for selecting articles

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