Last updated: 2019-05-25

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Knit directory: 2018-model-comparison/

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    Ignored:    .Rproj.user/
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    Ignored:    code/07-paper/._files
    Ignored:    data/
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    Untracked:  docs/figure/vis-tuning-effects.Rmd/
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    Modified:   analysis/about.Rmd
    Modified:   analysis/benchmark-pathogens.Rmd
    Modified:   analysis/index.Rmd
    Modified:   analysis/pathogen-maps-debugging.Rmd
    Modified:   analysis/prediction-pathogens.Rmd
    Modified:   analysis/vis-opt-paths.Rmd
    Modified:   analysis/vis-tuning-effects.Rmd
    Modified:   code/06-reports.R
    Modified:   code/07-paper/submission/3/latex-source-files/cv_boxplots_final_brier-1.pdf
    Modified:   code/99-packages.R
    Modified:   inst/rsync-jupiter.sh
    Modified:   packrat/packrat.lock

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Rmd 769718b pat-s 2019-05-23 Start workflowr project.

Visualization of the first five folds of each resampling setting.

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R version 3.5.1 (2018-07-02)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

Matrix products: default
BLAS/LAPACK: /opt/spack/opt/spack/linux-centos7-x86_64/gcc-7.3.0/openblas-0.3.5-zncvk4jccaqyfl4z3vszaboeps6hyzta/lib/libopenblas_zen-r0.3.5.so

locale:
 [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8    
 [5] LC_MONETARY=en_GB.UTF-8    LC_MESSAGES=en_GB.UTF-8   
 [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] tidyselect_0.2.5    workflowr_1.3.0     here_0.1           
 [4] kableExtra_1.1.0    ggExtra_0.8         ggrepel_0.8.0      
 [7] reporttools_1.1.2   xtable_1.8-3        cowplot_0.9.3      
[10] hrbrthemes_0.6.0    ggpubr_0.2          future.callr_0.4.0 
[13] furrr_0.1.0.9002    future_1.11.1.1     ggsci_2.9          
[16] clustermq_0.8.6     ggspatial_1.0.3     ggplot2_3.0.0      
[19] rgenoud_5.8-3.0     fs_1.2.6            curl_3.2           
[22] R.utils_2.7.0       R.oo_1.22.0         R.methodsS3_1.7.1  
[25] GSIF_0.5-5          stringr_1.3.1       RSAGA_1.3.0        
[28] plyr_1.8.4          shapefiles_0.7      foreign_0.8-71     
[31] gstat_1.1-6         glue_1.3.0          rasterVis_0.45     
[34] latticeExtra_0.6-28 RColorBrewer_1.1-2  lattice_0.20-35    
[37] raster_2.8-19       viridis_0.5.1       viridisLite_0.3.0  
[40] rgdal_1.4-3         sp_1.3-1            tibble_2.0.1       
[43] forcats_0.3.0       lwgeom_0.1-6        dplyr_0.8.0.1      
[46] sf_0.7-4            parallelMap_1.3     purrr_0.2.5        
[49] mlrMBO_1.1.2        smoof_1.5.1         checkmate_1.8.5    
[52] BBmisc_1.11         magrittr_1.5        mlr_2.13.9000      
[55] ParamHelpers_1.11   drake_7.2.0        

loaded via a namespace (and not attached):
  [1] backports_1.1.2   Hmisc_4.2-0       fastmatch_1.1-0  
  [4] igraph_1.2.2      lazyeval_0.2.1    splines_3.5.1    
  [7] storr_1.2.1       listenv_0.7.0     digest_0.6.15    
 [10] htmltools_0.3.6   base64url_1.4     cluster_2.0.7-1  
 [13] readr_1.3.1       globals_0.12.4    extrafont_0.17   
 [16] xts_0.11-0        extrafontdb_1.0   colorspace_1.3-2 
 [19] rvest_0.3.2       pixmap_0.4-11     xfun_0.7         
 [22] callr_3.1.0       crayon_1.3.4      jsonlite_1.5     
 [25] hexbin_1.27.2     survival_2.42-3   zoo_1.8-3        
 [28] gtable_0.2.0      webshot_0.5.1     Rttf2pt1_1.3.7   
 [31] scales_1.0.0      DBI_1.0.0         miniUI_0.1.1.1   
 [34] Rcpp_1.0.0        plotrix_3.7-4     spData_0.2.9.0   
 [37] htmlTable_1.12    units_0.6-2       Formula_1.2-3    
 [40] intervals_0.15.1  dismo_1.1-4       htmlwidgets_1.3  
 [43] httr_1.3.1        FNN_1.1           aqp_1.17         
 [46] acepack_1.4.1     pkgconfig_2.0.2   reshape_0.8.8    
 [49] XML_3.98-1.16     nnet_7.3-12       RJSONIO_1.3-1.1  
 [52] labeling_0.3      later_0.7.5       rlang_0.3.1      
 [55] munsell_0.5.0     tools_3.5.1       evaluate_0.13    
 [58] yaml_2.2.0        processx_3.2.1    knitr_1.23       
 [61] mime_0.5          whisker_0.3-2     xml2_1.2.0       
 [64] compiler_3.5.1    rstudioapi_0.10   plotly_4.8.0     
 [67] e1071_1.7-0       spacetime_1.2-2   lhs_0.16         
 [70] stringi_1.2.4     ps_1.2.1          gdtools_0.1.7    
 [73] plot3D_1.1.1      Matrix_1.2-14     classInt_0.2-3   
 [76] pillar_1.3.1      plotKML_0.5-9     data.table_1.11.8
 [79] httpuv_1.4.5      colorRamps_2.3    R6_2.2.2         
 [82] promises_1.0.1    gridExtra_2.3     codetools_0.2-15 
 [85] MASS_7.3-50       assertthat_0.2.0  rprojroot_1.3-2  
 [88] withr_2.1.2       hms_0.4.2         parallel_3.5.1   
 [91] grid_3.5.1        rpart_4.1-13      tidyr_0.8.2      
 [94] class_7.3-14      rmarkdown_1.12    misc3d_0.8-4     
 [97] mco_1.0-15.1      git2r_0.23.0      shiny_1.2.0      
[100] base64enc_0.1-3