Collection of my commits used to build a new version of the AquaSat pipeline using targets. The content of the README (pasted below) describes the structure:
AquaSat2 project built using the targets package. As of 2023-01-05 this workflow is a combination of code adapted from this USGS pipeline along with other code developed by members of ROSS.
Because of its origins, this targets pipeline currently uses a target list inside of _targets.R as well as ones inside 1_inventory.R, 2_download.R, and 3_harmonize.R. These are all combined into a single pipeline inside of _targets.R. In the future the entire pipeline will be structured around numeric steps/scripts (i.e., 1_inventory.R, 2_..., etc.).
Similarly, there is a src/ folder in the project root directory that contains functions.R and Rmds related to the items defined in _targets.R. The numbered R scripts have functions defined in their respective folders (e.g., 1_inventory/src/, etc.).
The docs/ folder in the project root contains report outputs from Rmd files as well as other project related files that are not scripts or input/output data. Report outputs are currently proof of concept placeholders composed mostly or entirely of figures that may end up in final versions of the report.
If the run.R script has been used to generate the current pipeline version, you can find an html file with the current network diagram for the pipeline in docs/current_visnetwork.html.
I hope to follow this up next with further restructuring to move towards the numeric step structure mentioned above.
@kathryn-willi if you could give this a review to 1) make sure that the structure makes sense to you (knowing it will be further refined soon) and 2) make sure there's no major missing pieces, that would be great.
Collection of my commits used to build a new version of the AquaSat pipeline using
targets. The content of the README (pasted below) describes the structure:I hope to follow this up next with further restructuring to move towards the numeric step structure mentioned above.
@kathryn-willi if you could give this a review to 1) make sure that the structure makes sense to you (knowing it will be further refined soon) and 2) make sure there's no major missing pieces, that would be great.