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2017-05-17Simplify tests where possibleJohannes Ranke4-13/+36
2017-05-16Update static documentationJohannes Ranke2-27/+32
2017-05-16Remove external data also from git as their licence is unclearJohannes Ranke3-50/+2
2017-05-16Add build and test logs to the git repoJohannes Ranke3-1/+41
2017-05-16Add TWA concentrations for days > 1, fix linkJohannes Ranke6-28/+59
Now we have seven test calculations for the Step 1 calculator, all perfectly passing. This provides confidence that this is a correct reimplementation of the Step 1 part of the Step 1/2 calculator.
2017-05-16Finish the Step 1 calculator including testsJohannes Ranke63-878/+2110
Some cleaning up. PELMO facilities do not currently work at my end, as I have no working wine installation on this computer
2017-05-15Start of an Steps 1/2 calculator in RJohannes Ranke6-0/+256
2017-03-29Make it possible to use expressions in axis labelsJohannes Ranke1-2/+2
2017-03-28Update ChangelogJohannes Ranke1-0/+18
2017-03-06Move static docs to pkdown.jrwb.de, update themJohannes Ranke4-50/+8
2017-03-01The package is not in subdir `pkg` any moreJohannes Ranke1-1/+1
2017-01-31Small documentation fixJohannes Ranke4-4/+16
2017-01-30Regenerate static documentationJohannes Ranke1-1/+1
2017-01-30Correct psm file in the example with metabolitesJohannes Ranke10-7/+613
2017-01-30Ignore windows binary builds in git and in R packageJohannes Ranke2-0/+2
2017-01-30Test reproducing the FOCUS Summary informationJohannes Ranke5-28/+115
generated from the FOCUS PELMO GUI, as copied into the text files in the testdata directory.
2017-01-30Merge branch 'master' of jrwb.de:pfmJohannes Ranke3-0/+89
2017-01-30Merge branch 'master' of ssh://jrwb.de/pfmJohannes Ranke5-14/+26
2017-01-30PELMO summary files for testingJohannes Ranke3-0/+89
2017-01-30Use relative tolerance of 1e-6 for flux testJohannes Ranke2-1/+15
to pass test also for more extreme situations as in the current test data.
2017-01-30Better documentation of PELMO_runs().Johannes Ranke5-14/+26
2017-01-30pfm for windows in my dratJohannes Ranke1-0/+11
2017-01-30Merge branch 'master' of jrwb.de:pfmJohannes Ranke1-0/+0
2017-01-30More extreme parameters for metabolites for testingJohannes Ranke1-0/+0
2017-01-29Setting up PELMO runs, execution and evaluationJohannes Ranke28-80/+1717
It all works!
2017-01-27Merge branch 'master' of jrwb.de:pfmJohannes Ranke1-0/+0
2017-01-27Really use all scenarios in test dataJohannes Ranke1-0/+0
Maize, that was used in the last commit, is not parameterised for Jokioinen
2017-01-27Use all scenarios in the test dataJohannes Ranke1-0/+0
2017-01-27Also test run with metabolitesJohannes Ranke3-34/+45
2017-01-27Merge branch 'master' of jrwb.de:pfmJohannes Ranke1-0/+0
2017-01-27Include a run with metabolites in PELMO test dataJohannes Ranke1-0/+0
2017-01-27Set up FOCUS PELMO runs and run them in parallelJohannes Ranke17-6/+778
- This works on Linux using wine - PELMO runs (including pelmo.inp files) are correctly generated - The PLM files for FOCUS Pesticide_D in the test data archive are correctly reproduced - The data files (including FOCUS groundwater scenario data) are now created and documented in R files
2017-01-26Improved test data with 'irrigation'Johannes Ranke1-0/+0
2017-01-25More variable selection of test dataJohannes Ranke1-0/+0
2017-01-25Use tar.bz2 to correctly transfer file namesJohannes Ranke2-0/+0
2017-01-25Add FOCUS PELMO 5.5.3 output for dummy pesticide DJohannes Ranke1-0/+0
2017-01-19Another correction of the docsJohannes Ranke3-15/+15
2017-01-19Corrections in the documentationJohannes Ranke4-23/+60
2017-01-19Correct default y axis label for plot.one_boxJohannes Ranke11-3/+3
2017-01-19Fix one_box for ini = 1, use in sawtooth examplesJohannes Ranke10-14/+26
2017-01-19Move mkin::twa to pfm::max_twa.mkinfitJohannes Ranke14-19/+182
- Add max_twa.mkinfit() recently introduced to mkin as mkin::twa() but never released with it - Add a test to check max_twa.one_box() against analytical solutions in max_twa.mkinfit(). - Clean up R CMD check - Update docs
2017-01-19Make max_twa() a bit saferJohannes Ranke3-4/+30
2017-01-19Documentation updatesJohannes Ranke6-16/+14
2017-01-19Fix order of arguments to one_box, correct docsJohannes Ranke8-21/+81
2017-01-19Predict parent decline without fitting for non-SFO modelsJohannes Ranke9-10/+63
2017-01-19Switch sawtooth plotting example to FOMCJohannes Ranke6-13/+29
as this it is claimed in the README that an mkinfit prediction is used. - Add another seealso link - Delete trailing whitespace
2017-01-18Point to the github.io documentation siteJohannes Ranke2-4/+4
2017-01-18Make README.md simple, and point to the referenceJohannes Ranke7-175803/+12
2017-01-18Update static docs using pkgdownJohannes Ranke73-10450/+3840
- Add _pkgdown.yml for a structured function/data reference - Make seealso links active - Make mkinfit calls quiet - Use pkgdown branch from pull request hadley/pkgdown#229 to have topics ordered
2017-01-18One box time series and twa valuesJohannes Ranke9-3/+423
- one_box() creates decline time series from mkinfit objects or simply from a half-life - sawtooth() generates sawtooth curves for arbitrary application patterns and decline models - twa() calculates moving window averages - max_twa() gives their maxima and - plot.one_box() can plot series generated by one_box() or sawtooth(), optionally adding a greay rectangle to illustrate the maximum moving window time weighted average

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