This report is automatically generated with the R
package knitr
(version 1.40
)
.
source("R Functions/functions_QA data.R") # LOAD DATA MASTER # FishMaster <- readxl::read_excel('Reeval_Impl_Goals_Linkage_Analysis/Data/Fish/3a_FishMaster_GISdemarcated.xlsx', sheet=1, guess_max = 30000) nrow(FishMaster)
## [1] 22382
FishMaster_DELTA <- FishMaster %>% filter(TMDL == "Delta", # Filter for Delta TMDL sites SampleDate >= as.Date('1998-01-01')) %>% # Remove fish data prior to 1998 filter(TLAvgLength > 0) %>% # Remove fish with 0 length filter(CommonName != "Crangon Shrimp" & CommonName != "Crayfish") # Remove mollusks and invertebrates nrow(FishMaster_DELTA)
## [1] 7719
fish_noLength <- FishMaster_DELTA %>% filter(is.na(TLAvgLength) | TLAvgLength == 0) nrow(fish_noLength) # check it is 0
## [1] 0
# SAVE FishMaster DELTA data # writexl::write_xlsx(FishMaster_DELTA, path='Reeval_Impl_Goals_Linkage_Analysis/Data/Fish/4a_FishMaster_DELTAdata.xlsx')
The R session information (including the OS info, R version and all packages used):
sessionInfo()
## R version 4.2.2 (2022-10-31 ucrt) ## Platform: x86_64-w64-mingw32/x64 (64-bit) ## Running under: Windows 10 x64 (build 22621) ## ## Matrix products: default ## ## locale: ## [1] LC_COLLATE=English_United States.utf8 LC_CTYPE=English_United States.utf8 ## [3] LC_MONETARY=English_United States.utf8 LC_NUMERIC=C ## [5] LC_TIME=English_United States.utf8 ## ## attached base packages: ## [1] stats graphics grDevices utils datasets methods base ## ## other attached packages: ## [1] lubridate_1.8.0 plotly_4.10.0 readxl_1.4.1 actuar_3.3-0 ## [5] NADA_1.6-1.1 forcats_0.5.2 stringr_1.4.1 dplyr_1.0.9 ## [9] purrr_0.3.4 readr_2.1.2 tidyr_1.2.0 tibble_3.1.8 ## [13] ggplot2_3.3.6 tidyverse_1.3.2 fitdistrplus_1.1-8 survival_3.4-0 ## [17] MASS_7.3-58.1 ## ## loaded via a namespace (and not attached): ## [1] lattice_0.20-45 assertthat_0.2.1 digest_0.6.29 utf8_1.2.2 ## [5] R6_2.5.1 cellranger_1.1.0 backports_1.4.1 reprex_2.0.2 ## [9] evaluate_0.16 highr_0.9 httr_1.4.4 pillar_1.8.1 ## [13] rlang_1.0.5 lazyeval_0.2.2 googlesheets4_1.0.1 rstudioapi_0.14 ## [17] data.table_1.14.2 Matrix_1.5-1 splines_4.2.2 googledrive_2.0.0 ## [21] htmlwidgets_1.5.4 munsell_0.5.0 broom_1.0.1 compiler_4.2.2 ## [25] modelr_0.1.9 xfun_0.32 pkgconfig_2.0.3 htmltools_0.5.3 ## [29] tidyselect_1.1.2 fansi_1.0.3 viridisLite_0.4.1 crayon_1.5.1 ## [33] tzdb_0.3.0 dbplyr_2.2.1 withr_2.5.0 grid_4.2.2 ## [37] jsonlite_1.8.0 gtable_0.3.1 lifecycle_1.0.1 DBI_1.1.3 ## [41] magrittr_2.0.3 scales_1.2.1 writexl_1.4.0 cli_3.3.0 ## [45] stringi_1.7.8 fs_1.5.2 xml2_1.3.3 ellipsis_0.3.2 ## [49] generics_0.1.3 vctrs_0.4.1 expint_0.1-7 tools_4.2.2 ## [53] glue_1.6.2 hms_1.1.2 fastmap_1.1.0 colorspace_2.0-3 ## [57] gargle_1.2.0 rvest_1.0.3 knitr_1.40 haven_2.5.1
Sys.time()
## [1] "2024-01-05 08:36:30 PST"