Parallel model runs #131
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Parallel model runs #131
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The following functions were edited. modelPreparation.R refineSpeciesData.R
There seems to be error in fitting the models when the dataset name contains a norwegian letter. I try to sort this out.
- add nSegment to masterScript, initialiseRepository, and speciesModelRuns - findGBIFName: return NA for NA scientificName
…DivMapping into parallelModelRuns
- add downloaded ANO to data/external - add downloadANOData to initRepo
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Why have changes been made?
I have made changes to a number of files to accommodate parallelization of the script.
What changes have been made?
functions/deleteFilesToRestart.R
To re-run the masterscript with new set of parameters for the same dateAccessed, some of the files have to be deleted. This script deleted those files, so that the master script can initialise them again.
functions/meshTest.R
I change the boundary argument.
functions/importANOData.R
There can be issues with the ANOData online. There were times they made changes to the dataset online and the code was not running. I have added an additional component to either download the data or use what is saved in memory.
The following scripts are still under current development and there updates should be expected.
functions/modelPreparation.R
There have been significant changes in PointedSDMs and intSDMs to accommodate for more flexibility in the models run. This script is used to prepare the model and run the model in a sequential way.
pipeline/parallelModelRun/modelPreparationForParallelRun.R
There have been significant changes in PointedSDMs and intSDMs to accommodate for more flexibility in the models run. Moreover, the script has been made adaptable for running the scripts in parallel. This script is used to prepare the model and run the model in parallel.
pipeline/parallelModelRun/scheduleParallelRun.R
This script is what runs the various models in parallel.
pipeline/parallelModelRun/formatResults.R
This script does post-processing for all the results from the parallelised model runs.