CRAN Package Check Results for Maintainer ‘Marcus Beck <mbeck at tbep.org>’

Last updated on 2025-06-04 15:50:03 CEST.

Package	ERROR	NOTE	OK
EBASE	2	8	3
MassWateR			13
micromap			13
SWMPr			13
wqtrends			13
WRTDStidal		3	10

Package EBASE

Current CRAN status: ERROR: 2, NOTE: 8, OK: 3

Version: 1.1.0
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘ebase_plot.R’ ‘ebase_prep.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘EBASE.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-5-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 59280 bytes Input file size = 59442 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 46509 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 46509 Output IDAT size = 46509 bytes (12771 bytes decrease) Output file size = 46587 bytes (12855 bytes = 21.63% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-6-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 21603 bytes Input file size = 21705 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17735 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17735 Output IDAT size = 17735 bytes (3868 bytes decrease) Output file size = 17813 bytes (3892 bytes = 17.93% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-7-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 56003 bytes Input file size = 56153 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 43799 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 43799 Output IDAT size = 43799 bytes (12204 bytes decrease) Output file size = 43877 bytes (12276 bytes = 21.86% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-9-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 49935 bytes Input file size = 50085 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 38990 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 38990 Output IDAT size = 38990 bytes (10945 bytes decrease) Output file size = 39068 bytes (11017 bytes = 22.00% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-10-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 82093 bytes Input file size = 82291 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 61815 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 61815 Output IDAT size = 61815 bytes (20278 bytes decrease) Output file size = 61893 bytes (20398 bytes = 24.79% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-11-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 83216 bytes Input file size = 83414 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 61646 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 61646 Output IDAT size = 61646 bytes (21570 bytes decrease) Output file size = 61724 bytes (21690 bytes = 26.00% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-13-1.png 864x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 16584 bytes Input file size = 17466 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14723 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14723 Output IDAT size = 14723 bytes (1861 bytes decrease) Output file size = 14801 bytes (2665 bytes = 15.26% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-14-1.png 672x672 pixels, 8 bits/pixel, 250 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 12760 bytes Input file size = 13612 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10552 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10552 Output IDAT size = 10552 bytes (2208 bytes decrease) Output file size = 10630 bytes (2982 bytes = 21.91% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-17-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 65208 bytes Input file size = 65370 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 51686 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 51686 Output IDAT size = 51686 bytes (13522 bytes decrease) Output file size = 51764 bytes (13606 bytes = 20.81% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-18-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 50038 bytes Input file size = 50188 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39017 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39017 Output IDAT size = 39017 bytes (11021 bytes decrease) Output file size = 39095 bytes (11093 bytes = 22.10% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-20-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 49358 bytes Input file size = 49508 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 38706 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 38706 Output IDAT size = 38706 bytes (10652 bytes decrease) Output file size = 38784 bytes (10724 bytes = 21.66% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-23-1.png 864x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 38945 bytes Input file size = 39071 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 31182 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 31182 Output IDAT size = 31182 bytes (7763 bytes decrease) Output file size = 31260 bytes (7811 bytes = 19.99% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/EBASE.Rcheck/vign_test/EBASE/vignettes/EBASE_files/figure-html/unnamed-chunk-24-1.png 864x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 16666 bytes Input file size = 17548 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14821 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14821 Output IDAT size = 14821 bytes (1845 bytes decrease) Output file size = 14899 bytes (2649 bytes = 15.10% decrease) Quitting from EBASE.Rmd:256-265 [unnamed-chunk-25] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `{ dat.sub <- dat[dat$grp == i, ] num.measurements <- nrow(dat.sub) DO_obs <- dat.sub$DO_obs PAR <- dat.sub$PAR DO_sat <- dat.sub$DO_sat sc <- dat.sub$sc Z <- dat.sub$Z U10 <- dat.sub$WSpd DO_start <- DO_obs[1] if (doave) DO_start <- mean(DO_obs) dat.list <- list("num.measurements", "nstepd", "interval", "aprior", "rprior", "bprior", "bmax", "DO_obs", "PAR", "DO_sat", "Z", "sc", "U10", "DO_start") params <- c("ats", "bts", "gppts", "erts", "gets", "nemts", "DO_mod") metabfit <- do.call(jags.parallel, list(data = dat.list, parameters.to.save = params, model.file = mod_in, n.chains = n.chains, n.iter = n.iter, n.burnin = n.burnin, n.thin = n.thin, n.cluster = n.chains, DIC = TRUE, jags.seed = 123, digits = 5)) metabfit <- metab_update(metabfit, update.chains, n.iter) srf <- metabfit$BUGSoutput$summary[, 8] Rhat.test <- ifelse(any(srf > 1.1, na.rm = TRUE) == TRUE, "Check convergence", "Fine") cred <- data.frame(metabfit$BUGSoutput$summary) cred$var <- row.names(cred) cred$var <- gsub("\\[|\\]|\\d+", "", cred$var) result <- data.frame(Date = dat.sub$Date, grp = dat.sub$grp, Z = Z, DO_obs = dat.sub$ DO_obs, DO_mod = metabfit$BUGSoutput$mean$DO_mod, DO_modlo = cred[cred$ var == "DO_mod", "X2.5."], DO_modhi = cred[cred$var == "DO_mod", "X97.5."], DateTimeStamp = dat.sub$DateTimeStamp, ats = c(NA, metabfit$BUGSoutput$mean$ ats), atslo = c(NA, cred[cred$var == "ats", "X2.5."]), atshi = c(NA, cred[ cred$var == "ats", "X97.5."]), bts = c(NA, metabfit$BUGSoutput$mean$bts), btslo = c(NA, cred[cred$var == "bts", "X2.5."]), btshi = c(NA, cred[cred$ var == "bts", "X97.5."]), gppts = c(NA, metabfit$BUGSoutput$mean$gppts), gpptslo = c(NA, cred[cred$var == "gppts", "X2.5."]), gpptshi = c(NA, cred[ cred$var == "gppts", "X97.5."]), erts = c(NA, metabfit$BUGSoutput$mean$erts), ertslo = c(NA, cred[cred$var == "erts", "X2.5."]), ertshi = c(NA, cred[cred$ var == "erts", "X97.5."]), nemts = c(NA, metabfit$BUGSoutput$mean$nemts), nemtslo = c(NA, cred[cred$var == "nemts", "X2.5."]), nemtshi = c(NA, cred[ cred$var == "nemts", "X97.5."]), gets = c(NA, metabfit$BUGSoutput$mean$gets), getslo = c(NA, cred[cred$var == "gets", "X2.5."]), getshi = c(NA, cred[cred$ var == "gets", "X97.5."]), dDO = c(NA, diff(metabfit$BUGSoutput$mean$DO_mod)), converge = Rhat.test) rsq <- lm(DO_mod ~ DO_obs, data = result) %>% summary() %>% .$r.squared result$rsq <- rsq return(result) }`: ! task 2 failed - "creation of server socket failed: port 11972 cannot be opened" --- Backtrace: ▆ 1. └─EBASE::ebase(...) 2. └─... %dopar% ... 3. └─e$fun(obj, substitute(ex), parent.frame(), e$data) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'EBASE.Rmd' failed with diagnostics: task 2 failed - "creation of server socket failed: port 11972 cannot be opened" --- failed re-building ‘EBASE.Rmd’ SUMMARY: processing the following file failed: ‘EBASE.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building 'EBASE.Rmd' using rmarkdown Quitting from EBASE.Rmd:107-116 [unnamed-chunk-8] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `{ dat.sub <- dat[dat$grp == i, ] num.measurements <- nrow(dat.sub) DO_obs <- dat.sub$DO_obs PAR <- dat.sub$PAR DO_sat <- dat.sub$DO_sat sc <- dat.sub$sc Z <- dat.sub$Z U10 <- dat.sub$WSpd DO_start <- DO_obs[1] if (doave) DO_start <- mean(DO_obs) dat.list <- list("num.measurements", "nstepd", "interval", "aprior", "rprior", "bprior", "bmax", "DO_obs", "PAR", "DO_sat", "Z", "sc", "U10", "DO_start") params <- c("ats", "bts", "gppts", "erts", "gets", "nemts", "DO_mod") metabfit <- do.call(jags.parallel, list(data = dat.list, parameters.to.save = params, model.file = mod_in, n.chains = n.chains, n.iter = n.iter, n.burnin = n.burnin, n.thin = n.thin, n.cluster = n.chains, DIC = TRUE, jags.seed = 123, digits = 5)) metabfit <- metab_update(metabfit, update.chains, n.iter) srf <- metabfit$BUGSoutput$summary[, 8] Rhat.test <- ifelse(any(srf > 1.1, na.rm = TRUE) == TRUE, "Check convergence", "Fine") cred <- data.frame(metabfit$BUGSoutput$summary) cred$var <- row.names(cred) cred$var <- gsub("\\[|\\]|\\d+", "", cred$var) result <- data.frame(Date = dat.sub$Date, grp = dat.sub$grp, Z = Z, DO_obs = dat.sub$ DO_obs, DO_mod = metabfit$BUGSoutput$mean$DO_mod, DO_modlo = cred[cred$ var == "DO_mod", "X2.5."], DO_modhi = cred[cred$var == "DO_mod", "X97.5."], DateTimeStamp = dat.sub$DateTimeStamp, ats = c(NA, metabfit$BUGSoutput$mean$ ats), atslo = c(NA, cred[cred$var == "ats", "X2.5."]), atshi = c(NA, cred[ cred$var == "ats", "X97.5."]), bts = c(NA, metabfit$BUGSoutput$mean$bts), btslo = c(NA, cred[cred$var == "bts", "X2.5."]), btshi = c(NA, cred[cred$ var == "bts", "X97.5."]), gppts = c(NA, metabfit$BUGSoutput$mean$gppts), gpptslo = c(NA, cred[cred$var == "gppts", "X2.5."]), gpptshi = c(NA, cred[ cred$var == "gppts", "X97.5."]), erts = c(NA, metabfit$BUGSoutput$mean$erts), ertslo = c(NA, cred[cred$var == "erts", "X2.5."]), ertshi = c(NA, cred[cred$ var == "erts", "X97.5."]), nemts = c(NA, metabfit$BUGSoutput$mean$nemts), nemtslo = c(NA, cred[cred$var == "nemts", "X2.5."]), nemtshi = c(NA, cred[ cred$var == "nemts", "X97.5."]), gets = c(NA, metabfit$BUGSoutput$mean$gets), getslo = c(NA, cred[cred$var == "gets", "X2.5."]), getshi = c(NA, cred[cred$ var == "gets", "X97.5."]), dDO = c(NA, diff(metabfit$BUGSoutput$mean$DO_mod)), converge = Rhat.test) rsq <- lm(DO_mod ~ DO_obs, data = result) %>% summary() %>% .$r.squared result$rsq <- rsq return(result) }`: ! task 1 failed - "creation of server socket failed: port 11632 cannot be opened" --- Backtrace: ▆ 1. └─EBASE::ebase(dat, interval = 900, Z = 1.85, n.chains = 2) 2. └─... %dopar% ... 3. └─e$fun(obj, substitute(ex), parent.frame(), e$data) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'EBASE.Rmd' failed with diagnostics: task 1 failed - "creation of server socket failed: port 11632 cannot be opened" --- failed re-building 'EBASE.Rmd' SUMMARY: processing the following file failed: 'EBASE.Rmd' Error: Vignette re-building failed. Execution halted Flavor: r-devel-windows-x86_64

Package MassWateR

Current CRAN status: OK: 13

Package micromap

Current CRAN status: OK: 13

Package SWMPr

Current CRAN status: OK: 13

Package wqtrends

Current CRAN status: OK: 13

Package WRTDStidal

Current CRAN status: NOTE: 3, OK: 10

Version: 1.1.4
Check: installed package size
Result: NOTE installed size is 5.4Mb sub-directories of 1Mb or more: doc 4.3Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64