Adding in remaining maxent related functions and test scripts

[EmmalineSheahan]

env_stack_transform is a function to convert a list of spatrasters where each list element is a variable and each layer is a depth into a list of spatrasters where each list element is a depth and each layer is a variable. partition_3D creates kfold and block partitions in 3D for training and validation, maxent_3D generates 3D ENMs using maxent, and threshold_3D creates thresholded 3D spatraster stacks.

[hannahlowens]

The code itself looks good, but please add predicts to Imports in the Description file (I prefer alphabetically, so the packages are easier to review when making changes). Also, check your unit tests for cleanDepth. I'm seeing:

── Warning ('test-cleanDepth.R:25:1'): (code run outside of test_that()) ─────
[readValues] raster has no values
Backtrace:
▆

1. ├─base::sample(c(-4000:0), size = length(values(bath_data))) at test-cleanDepth.R:25:1
2. │ └─base::sample.int(length(x), size, replace, prob)
3. ├─terra::values(bath_data)
4. └─terra::values(bath_data) at terra/R/Agenerics.R:388:50
5. └─terra (local) .local(x, ...)

6. ├─terra::readValues(...) at terra/R/values.R:94:9
   

7. └─terra::readValues(...) at terra/R/Agenerics.R:382:58
   

8.   └─terra (local) .local(x, ...)
   

9.     └─terra:::messages(x, "readValues") at terra/R/values.R:59:9
   

10.       └─terra:::warn(f, paste(unique(x@pntr$getWarnings()), collapse = "\n")) at terra/R/messages.R:19:25
    

[EmmalineSheahan]

Gotcha, I just pushed a new commit with those things fixed!