scan_permutation and scan_eb_poisson

[lhdatalab]

Hi Benjamin,

I was trying to us both of these functions in the scanstatistics package in a jupyter R notebook. It crashed the kernel for scan_eb_poisson (small sample based on simulated data and NMgeo), and was a long running operation for scan_permutations. Any ideas. 16GB RAM, 4core CPU, Windows 10.
``
Warning message in seq_len(nrow(x)):
"first element used of 'length.out' argument"

Error in seq_len(nrow(x)): argument must be coercible to non-negative integer
Traceback:

1. scan_permutation(counts = counts2, zones = zones, population = NULL,
   . n_mcsim = 1, max_only = TRUE)
2. flipud(population)
3. rev(seq_len(nrow(x)))
   #' @Keywords internal
   flipud <- function(x) {
   x[rev(seq_len(nrow(x))), , drop = FALSE]

counts2.zip

Would you mind sharing the full code; particularly how you define the variable zones?

[lhdatalab]

Hi Benjamin, The csv file I sent is a sample of the data? knn_mat <- coords_to_knn(ferg_latlon_n[c("min_lon", "min_lat")], 3) zones <- knn_zones(knn_mat) counts <- ferg_latlon_n[c("time", "location", "count1")] for (i in 1:ncol(counts2)) { counts2[ , i] <- ifelse(is.na(counts2[ , i]), 0, counts2[ , i]) # print (i) } population = matrix(rnorm(504, 50, 2), nrow = 6) scan_permutation(counts = counts2, zones = zones, population = NULL, n_mcsim = 1, max_only = TRUE)

…

On Wed, Nov 7, 2018 at 8:14 AM Benjamin Allévius ***@***.***> wrote: Would you mind sharing the full code; particularly how you define the variable zones? — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#4 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AQuK9iBxeXCR7nS5-hlR_XJcVdMwEHpPks5ustyYgaJpZM4YRTMR> .

[lhdatalab]

Hi Benjamin, The data came from a shape file and I just sampled enough rows to test the scan_permutation and scan_eb_poisson functions. ferg_latlon_n <- ferguson8m_latlon2 %>% dplyr::select(one_of(c("City_code", "lon", "lat", "yday", "ID"))) %>% mutate(tday = case_when( yday == 221 ~ 1, yday == 222 ~ 2, yday == 223 ~ 3, yday == 224 ~ 4, yday == 225 ~ 5, yday == 226 ~ 6)) %>% group_by(City_code, tday) %>% dplyr::summarise(n = n(), min_lon = min(lon), min_lat = min(lat)) %>% dplyr::rename(count1 = n, time = tday, location = City_code) %>% as.data.frame() knn_mat <- coords_to_knn(ferg_latlon_n[c("min_lon", "min_lat")], 3) zones <- knn_zones(knn_mat) counts <- ferg_latlon_n[c("time", "location", "count1")] for (i in 1:ncol(counts2)) { counts2[ , i] <- ifelse(is.na(counts2[ , i]), 0, counts2[ , i]) # print (i) } population = matrix(rnorm(504, 50, 2), nrow = 6) scan_permutation(counts = counts2, zones = zones, population = NULL, n_mcsim = 1, max_only = TRUE)

…

On Wed, Nov 7, 2018 at 8:14 AM Benjamin Allévius ***@***.***> wrote: Would you mind sharing the full code; particularly how you define the variable zones? — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#4 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AQuK9iBxeXCR7nS5-hlR_XJcVdMwEHpPks5ustyYgaJpZM4YRTMR> .