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Knit directory: 2018-model-comparison/
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Modified: packrat/src/reprex/reprex_0.2.1.tar.gz
Modified: packrat/src/reshape/reshape_0.8.8.tar.gz
Modified: packrat/src/reshape2/reshape2_1.4.3.tar.gz
Modified: packrat/src/rgdal/rgdal_1.3-3.tar.gz
Modified: packrat/src/rgdal/rgdal_1.4-2.tar.gz
Modified: packrat/src/rgdal/rgdal_1.4-3.tar.gz
Modified: packrat/src/rgenoud/rgenoud_5.8-3.0.tar.gz
Modified: packrat/src/rgeos/rgeos_0.3-28.tar.gz
Modified: packrat/src/rhandsontable/rhandsontable_0.3.7.tar.gz
Modified: packrat/src/rio/rio_0.5.16.tar.gz
Modified: packrat/src/rjson/rjson_0.2.20.tar.gz
Modified: packrat/src/rlang/rlang_0.3.0.1.tar.gz
Modified: packrat/src/rlang/rlang_0.3.1.tar.gz
Modified: packrat/src/rmarkdown/rmarkdown_1.10.tar.gz
Modified: packrat/src/rmarkdown/rmarkdown_1.12.tar.gz
Modified: packrat/src/rosm/rosm_0.2.2.tar.gz
Modified: packrat/src/roxygen2/roxygen2_6.1.1.tar.gz
Modified: packrat/src/rprojroot/rprojroot_1.3-2.tar.gz
Modified: packrat/src/rstudioapi/rstudioapi_0.10.tar.gz
Modified: packrat/src/rstudioapi/rstudioapi_0.8.tar.gz
Modified: packrat/src/rvest/rvest_0.3.2.tar.gz
Modified: packrat/src/rzmq/rzmq_0.9.4.tar.gz
Modified: packrat/src/satellite/satellite_1.0.1.tar.gz
Modified: packrat/src/scales/scales_0.5.0.tar.gz
Modified: packrat/src/scales/scales_1.0.0.tar.gz
Modified: packrat/src/selectr/selectr_0.4-1.tar.gz
Modified: packrat/src/semver/semver_0.2.0.tar.gz
Modified: packrat/src/sessioninfo/sessioninfo_1.1.1.tar.gz
Modified: packrat/src/sf/sf_0.7-1.tar.gz
Modified: packrat/src/sf/sf_0.7-3.tar.gz
Modified: packrat/src/sf/sf_0.7-4.tar.gz
Modified: packrat/src/shapefiles/shapefiles_0.7.tar.gz
Modified: packrat/src/shiny/shiny_1.2.0.tar.gz
Modified: packrat/src/shinyjs/shinyjs_1.0.tar.gz
Modified: packrat/src/smoof/smoof_1.5.1.tar.gz
Modified: packrat/src/sourcetools/sourcetools_0.1.7.tar.gz
Modified: packrat/src/sp/sp_1.3-1.tar.gz
Modified: packrat/src/spData/spData_0.2.9.0.tar.gz
Modified: packrat/src/spacetime/spacetime_1.2-2.tar.gz
Modified: packrat/src/spdep/spdep_0.7-7.tar.gz
Modified: packrat/src/splancs/splancs_2.01-40.tar.gz
Modified: packrat/src/startup/startup_0.11.0.tar.gz
Modified: packrat/src/stevedore/c9531428df052eaf8185d9235f2f8db5b2a6008a.tar.gz
Modified: packrat/src/storr/storr_1.2.1.tar.gz
Modified: packrat/src/stringi/stringi_1.2.4.tar.gz
Modified: packrat/src/stringr/stringr_1.3.1.tar.gz
Modified: packrat/src/styler/styler_1.1.0.tar.gz
Modified: packrat/src/svglite/svglite_1.2.1.tar.gz
Modified: packrat/src/sys/sys_3.1.tar.gz
Modified: packrat/src/sysreqs/7bdd9f3717e1f3eae32ca62e82d404ba600b94b3.tar.gz
Modified: packrat/src/testthat/testthat_2.0.1.tar.gz
Modified: packrat/src/tibble/tibble_1.4.2.tar.gz
Modified: packrat/src/tibble/tibble_2.0.1.tar.gz
Modified: packrat/src/tic/86a2102aabfd0c765b19a61f3b0e251c6962658f.tar.gz
Modified: packrat/src/tidyr/tidyr_0.8.2.tar.gz
Modified: packrat/src/tidyselect/tidyselect_0.2.4.tar.gz
Modified: packrat/src/tidyselect/tidyselect_0.2.5.tar.gz
Modified: packrat/src/tinytex/tinytex_0.13.tar.gz
Modified: packrat/src/tinytex/tinytex_0.6.tar.gz
Modified: packrat/src/travis/6719bd06e2153b3ef348c4f977e53dcdef774697.tar.gz
Modified: packrat/src/units/units_0.6-2.tar.gz
Modified: packrat/src/usethis/usethis_1.4.0.tar.gz
Modified: packrat/src/utf8/utf8_1.1.4.tar.gz
Modified: packrat/src/uuid/uuid_0.1-2.tar.gz
Modified: packrat/src/versions/versions_0.3.tar.gz
Modified: packrat/src/viridis/viridis_0.5.1.tar.gz
Modified: packrat/src/viridisLite/viridisLite_0.3.0.tar.gz
Modified: packrat/src/visNetwork/visNetwork_2.0.5.tar.gz
Modified: packrat/src/webshot/webshot_0.5.1.tar.gz
Modified: packrat/src/whisker/whisker_0.3-2.tar.gz
Modified: packrat/src/withr/withr_2.1.2.tar.gz
Modified: packrat/src/workflowr/workflowr_1.3.0.tar.gz
Modified: packrat/src/xfun/xfun_0.3.tar.gz
Modified: packrat/src/xfun/xfun_0.7.tar.gz
Modified: packrat/src/xgboost/xgboost_0.81.0.1.tar.gz
Modified: packrat/src/xgboost/xgboost_0.82.1.tar.gz
Modified: packrat/src/xml2/xml2_1.2.0.tar.gz
Modified: packrat/src/xopen/xopen_1.0.0.tar.gz
Modified: packrat/src/xtable/xtable_1.8-3.tar.gz
Modified: packrat/src/xts/xts_0.11-0.tar.gz
Modified: packrat/src/yaml/yaml_2.2.0.tar.gz
Modified: packrat/src/zip/zip_2.0.0.tar.gz
Modified: packrat/src/zoo/zoo_1.8-3.tar.gz
Modified: pathogen.Rproj
Modified: reviews/README.md
Modified: reviews/review1-reviewer1.md
Modified: reviews/review1-reviewer2.pdf
Modified: reviews/review2-mail-to-editor.pdf
Modified: reviews/review2-reviewer1.md
Modified: reviews/review2-reviewer2.pdf
Modified: slurm_clustermq.tmpl
Modified: tests/testthat.R
Modified: tic.R
Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.
These are the previous versions of the R Markdown and HTML files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view them.
| File | Version | Author | Date | Message |
|---|---|---|---|---|
| html | cab6e9c | pat-s | 2019-05-28 | Build site. |
| html | 2c3f42c | pat-s | 2019-05-28 | Build site. |
| html | efed047 | pat-s | 2019-05-28 | Build site. |
| Rmd | 95a19aa | pat-s | 2019-05-28 | wflow_publish(knitr_in(“analysis/pathogen-maps-debugging.Rmd”), view = |
| Rmd | 6af4181 | pat-s | 2019-05-23 | update reports |
| Rmd | 769718b | pat-s | 2019-05-23 | Start workflowr project. |
This reports is for debugging purposes only. Its purpose was to identify the predictors responsbile for the artifacts in the prediction maps.
“ph” was found to be the variable causing the artifacts.
Random Forest was used as the algorithm in this case.
| Version | Author | Date |
|---|---|---|
| efed047 | pat-s | 2019-05-28 |
##No hail
| Version | Author | Date |
|---|---|---|
| efed047 | pat-s | 2019-05-28 |
| Version | Author | Date |
|---|---|---|
| efed047 | pat-s | 2019-05-28 |
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-9.2.0/openblas-0.3.7-epeitvjwewaa3avb3brxkgbim4rh3qwb/lib/libopenblas_zen-r0.3.7.so
locale:
[1] 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_0.8.8 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_7.7.0
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] abind_1.4-5 scales_1.0.0 DBI_1.0.0
[34] miniUI_0.1.1.1 Rcpp_1.0.0 plotrix_3.7-4
[37] spData_0.2.9.0 htmlTable_1.12 units_0.6-2
[40] txtq_0.2.0 Formula_1.2-3 intervals_0.15.1
[43] dismo_1.1-4 htmlwidgets_1.3 httr_1.3.1
[46] FNN_1.1 aqp_1.17 acepack_1.4.1
[49] pkgconfig_2.0.2 reshape_0.8.8 XML_3.98-1.16
[52] nnet_7.3-12 RJSONIO_1.3-1.1 labeling_0.3
[55] later_0.7.5 rlang_0.3.1 munsell_0.5.0
[58] tools_3.5.1 evaluate_0.13 yaml_2.2.0
[61] processx_3.2.1 knitr_1.23 mime_0.5
[64] whisker_0.3-2 xml2_1.2.0 compiler_3.5.1
[67] rstudioapi_0.10 png_0.1-7 prettymapr_0.2.2
[70] plotly_4.8.0 filelock_1.0.2 e1071_1.7-0
[73] spacetime_1.2-2 lhs_0.16 stringi_1.2.4
[76] ps_1.2.1 gdtools_0.1.7 plot3D_1.1.1
[79] Matrix_1.2-14 classInt_0.2-3 rosm_0.2.2
[82] pillar_1.3.1 plotKML_0.5-9 data.table_1.11.8
[85] httpuv_1.4.5 colorRamps_2.3 R6_2.2.2
[88] promises_1.0.1 gridExtra_2.3 codetools_0.2-15
[91] MASS_7.3-50 assertthat_0.2.0 rprojroot_1.3-2
[94] withr_2.1.2 hms_0.4.2 parallel_3.5.1
[97] grid_3.5.1 rpart_4.1-13 tidyr_0.8.2
[100] class_7.3-14 rmarkdown_1.12 misc3d_0.8-4
[103] mco_1.0-15.1 git2r_0.23.0 shiny_1.2.0
[106] base64enc_0.1-3