mkin/GNUmakefile, branch devFitting kinetic models to chemical degradation data (also on github)https://cgit.jrwb.de/mkin/atom?h=dev2024-07-29T06:06:08ZMove coverage to pkgdown docs2024-07-29T06:06:08ZJohannes Rankejohannes.ranke@jrwb.de2024-07-29T06:06:08Zurn:sha1:bad2f70c18cd9f57c0d382914327613bcfc9298f
The coverage report is neither successful on Travis nor in the github
workflow set up with the usethis package. Therefore the code coverage
report is generated locally and linked into the pkgdown docs.
Prepare release of v1.2.42023-05-19T15:10:16ZJohannes Rankejranke@uni-bremen.de2023-05-19T15:08:43Zurn:sha1:cf54ccca37d27480dbf8d59eb027300518f7ad75
- Update DESCRIPTION
- Update Makefile to document how to use R-patched
- Remove markup from two URLs to avoid CRAN NOTE
- Switch two vignettes from html_document to html_vignette to save space
in the docs directory, also avoiding a CRAN NOTE
- Complete rebuild of pkgdown docs for release
Add coverage target for local coverage report2023-04-16T11:42:08ZJohannes Rankejranke@uni-bremen.de2023-04-16T11:41:25Zurn:sha1:99b4554a1ce657295b1358509110f3d02155a913
I get almost 90% when testing locally
Fix path, build target for prebuilt pdf vignettes2023-02-17T07:19:46ZJohannes Rankejranke@uni-bremen.de2023-02-17T07:19:46Zurn:sha1:c7cc91c47f9b074521fcaaa05a020525d719c2d9Prebuilt PDF vignettes, summary_listing2023-01-09T05:22:04ZJohannes Rankejranke@uni-bremen.de2023-01-09T05:22:04Zurn:sha1:24eb77216700cf8b2f2bde3abad84c1f83f9e32aRename template folder, create format2022-12-19T11:38:07ZJohannes Rankejranke@uni-bremen.de2022-12-19T11:31:56Zurn:sha1:886c9ef013124aa954d960c655b349b5340ff154
Instead of rmarkdown::pdf_document, mkin::hierarchical_kinetics is used
as a document format in the template. In this way, the template file can
be freed from some R code and yaml options that the average user does
not have to be aware of.
Template and spreadsheet for hierarchical kinetics2022-12-19T05:37:32ZJohannes Rankejranke@uni-bremen.de2022-12-19T05:37:32Zurn:sha1:0023df3c31fac29b5f9337ecd732a5dfd4d51a2d
The template only shows parent data evaluation without covariate models
for now. The spreadsheet will also be useful for unit testing of the
read_spreadsheet function.
Avoid error message at testthat termination2022-12-02T12:25:56ZJohannes Rankejranke@uni-bremen.de2022-12-02T12:25:56Zurn:sha1:240568bf65f2257f1185927ac811dde18aeabe1d
https://github.com/r-lib/processx/issues/236
Automatic starting parameters for saem.mmkin2022-11-14T19:03:42ZJohannes Rankejranke@uni-bremen.de2022-11-14T19:03:42Zurn:sha1:21ad91256dc29423bd905de5c298fd23862b1f3b
For the case of mkin transformations. This gives faster convergence,
and appears to avoid problems with numeric ODE solutions
Improve multistart documentation, bugfix2022-09-16T19:06:54ZJohannes Rankejranke@uni-bremen.de2022-09-16T19:06:54Zurn:sha1:fd205e13061de8abc595d266f3b0c7650773d442
- Split out llhist and parhist documentation
- Add example code for multistart
- Create a multistart vignette, because the example code fails when run
by pkgdown
- Fix multistart for the case of mkin transformations in the saem fit