Re: [R] Weird change in behavior of summary() function
Follow-up:
I find that the problem does not occur on a Linux system, so it is
either Mac-specific or some function of the libraries loaded on the
problem machine.
J.
On 12/14/20 12:24, John Helly wrote:
Aloha.
I have been using the summary function (i.e., summary()) for years
and, in the last few weeks, suddenly find it behaving in an obviously
erroneous way. I expect the DAUCO summary to be summary of the
character variable but it has these weird NULL:00125 values listed for
whatever the number of rows is.
It's not limited to this input data so I don't believe that it is
data-dependent at this point.
This just started happening a number of weeks ago. I've done some
updates of the OS and apps since then and re-installed R from the Mac
*.dmg distro.
I have provided details below and my main questions are 1) has anyone
else seen this (I can't find any reports of it) and 2) how might I
debug this?
Thank you.
Input data sample (first few records from a flat
ASCII csv file)
DAUCO,Longitude,Latitude,Precipitation,Year,Month
00125,-121.41667,41.958334,63.1469993591,1895,1
00125,-121.375,41.958334,63.6969985962,1895,1
00125,-121.3,41.958334,65.7460021973,1895,1
00125,-121.29167,41.958334,69.4150009155,1895,1
00125,-121.25,41.958334,74.0780029297,1895,1
R commands and output
=
PRISM = read.table(PRISM_INPUT,header=TRUE, sep=',',
colClasses=c('character','numeric','numeric','numeric','numeric','numeric'))
> summary(PRISM)
DAUCO Longitude Latitude Precipitation Year
Month
NULL:00125 Min. :-121.4 Min. :41.54 Min. : 0.00 Min.
:1895 Min. : 1.000
NULL:00125 1st Qu.:-121.2 1st Qu.:41.71 1st Qu.: 10.65 1st
Qu.:1926 1st Qu.: 3.000
NULL:00125 Median :-121.0 Median :41.79 Median : 24.41 Median
:1957 Median : 6.000
NULL:00125 Mean :-121.0 Mean :41.79 Mean : 31.09 Mean
:1957 Mean : 6.488
NULL:00125 3rd Qu.:-120.9 3rd Qu.:41.88 3rd Qu.: 43.73 3rd
Qu.:1989 3rd Qu.: 9.000
NULL:00125 Max. :-120.6 Max. :41.96 Max. :265.08 Max.
:2020 Max. :12.000
NULL:00125
NULL:00125
> dput(head(PRISM))
structure(list(DAUCO = c("00125", "00125", "00125", "00125",
"00125", "00125"), Longitude = c(-121.41667, -121.375,
-121.3,
-121.29167, -121.25, -121.20833), Latitude = c(41.958334,
41.958334, 41.958334, 41.958334, 41.958334, 41.958334
), Precipitation = c(63.1469993591, 63.6969985962, 65.7460021973,
69.4150009155, 74.0780029297, 80.4290008545), Year = c(1895,
1895, 1895, 1895, 1895, 1895), Month = c(1, 1, 1, 1, 1, 1)), row.names
= c(NA,
6L), class = "data.frame")
>
> sessionInfo()
R version 4.0.3 (2020-10-10)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
BLAS:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib
LAPACK:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] reshape_0.8.8 plyr_1.8.6 ggplot2_3.3.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.4.6 pillar_1.4.4 DEoptimR_1.0-8
compiler_4.0.3 RColorBrewer_1.1-2
[6] iterators_1.0.12 digest_0.6.25 lifecycle_0.2.0
tibble_3.0.1 gtable_0.3.0
[11] nlme_3.1-149 lattice_0.20-41 pkgconfig_2.0.3
rlang_0.4.6 foreach_1.5.0
[16] Matrix_1.2-18 parallel_4.0.3 ergm_3.10.4
coda_0.19-3 withr_2.2.0
[21] dplyr_1.0.0 generics_0.0.2 vctrs_0.3.1
networkDynamic_0.10.1 trust_0.1-8
[26] grid_4.0.3 tidyselect_1.1.0 deSolve_1.28
robustbase_0.93-6 glue_1.4.1
[31] R6_2.4.1 farver_2.0.3 purrr_0.3.4
magrittr_1.5 codetools_0.2-16
[36] scales_1.1.1 ellipsis_0.3.1 MASS_7.3-53
lpSolve_5.6.15 colorspace_1.4-1
[41] ape_5.4 labeling_0.3 network_1.16.0
lazyeval_0.2.2 doParallel_1.0.15
[46] EpiModel_1.8.0 munsell_0.5.0 tergm_3.6.1
statnet.common_4.3.0 crayon_1.3.4
--
John Helly, University of California, San Diego / San Diego Supercomputer
Center / Scripps Institution of Oceanography / 760 840 8660 mobile /
http://www.sdsc.edu/~hellyj
ORCID ID: orcid.org/-0002-3779-0603
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] Weird change in behavior of summary() function
Follow-up:
I have confirmed that it is something in my local R library such that
when I remove /Users/hellyj/Library/R/4.0 the behavior of summary()
returns to what I expect.
J.
> summary(PRISM)
DAUCO Longitude Latitude Precipitation
Year Month
Length:538790 Min. :-121.4 Min. :41.54 Min. : 0.00
Min. :1895 Min. : 1.000
Class :character 1st Qu.:-121.2 1st Qu.:41.71 1st Qu.: 10.65
1st Qu.:1926 1st Qu.: 3.000
Mode :character Median :-121.0 Median :41.79 Median : 24.41
Median :1957 Median : 6.000
Mean :-121.0 Mean :41.79 Mean : 31.09
Mean :1957 Mean : 6.488
3rd Qu.:-120.9 3rd Qu.:41.88 3rd Qu.: 43.73
3rd Qu.:1989 3rd Qu.: 9.000
Max. :-120.6 Max. :41.96 Max. :265.08
Max. :2020 Max. :12.000
On 12/14/20 12:41, John Helly wrote:
Follow-up:
I find that the problem does not occur on a Linux system, so it is
either Mac-specific or some function of the libraries loaded on the
problem machine.
J.
On 12/14/20 12:24, John Helly wrote:
Aloha.
I have been using the summary function (i.e., summary()) for years
and, in the last few weeks, suddenly find it behaving in an obviously
erroneous way. I expect the DAUCO summary to be summary of the
character variable but it has these weird NULL:00125 values listed
for whatever the number of rows is.
It's not limited to this input data so I don't believe that it is
data-dependent at this point.
This just started happening a number of weeks ago. I've done some
updates of the OS and apps since then and re-installed R from the Mac
*.dmg distro.
I have provided details below and my main questions are 1) has anyone
else seen this (I can't find any reports of it) and 2) how might I
debug this?
Thank you.
Input data sample (first few records from a flat
ASCII csv file)
DAUCO,Longitude,Latitude,Precipitation,Year,Month
00125,-121.41667,41.958334,63.1469993591,1895,1
00125,-121.375,41.958334,63.6969985962,1895,1
00125,-121.3,41.958334,65.7460021973,1895,1
00125,-121.29167,41.958334,69.4150009155,1895,1
00125,-121.25,41.958334,74.0780029297,1895,1
R commands and output
=
PRISM = read.table(PRISM_INPUT,header=TRUE, sep=',',
colClasses=c('character','numeric','numeric','numeric','numeric','numeric'))
> summary(PRISM)
DAUCO Longitude Latitude Precipitation
Year Month
NULL:00125 Min. :-121.4 Min. :41.54 Min. : 0.00 Min.
:1895 Min. : 1.000
NULL:00125 1st Qu.:-121.2 1st Qu.:41.71 1st Qu.: 10.65 1st
Qu.:1926 1st Qu.: 3.000
NULL:00125 Median :-121.0 Median :41.79 Median : 24.41 Median
:1957 Median : 6.000
NULL:00125 Mean :-121.0 Mean :41.79 Mean : 31.09 Mean
:1957 Mean : 6.488
NULL:00125 3rd Qu.:-120.9 3rd Qu.:41.88 3rd Qu.: 43.73 3rd
Qu.:1989 3rd Qu.: 9.000
NULL:00125 Max. :-120.6 Max. :41.96 Max. :265.08 Max.
:2020 Max. :12.000
NULL:00125
NULL:00125
> dput(head(PRISM))
structure(list(DAUCO = c("00125", "00125", "00125", "00125",
"00125", "00125"), Longitude = c(-121.41667, -121.375,
-121.3,
-121.29167, -121.25, -121.20833), Latitude = c(41.958334,
41.958334, 41.958334, 41.958334, 41.958334,
41.958334
), Precipitation = c(63.1469993591, 63.6969985962, 65.7460021973,
69.4150009155, 74.0780029297, 80.4290008545), Year = c(1895,
1895, 1895, 1895, 1895, 1895), Month = c(1, 1, 1, 1, 1, 1)),
row.names = c(NA,
6L), class = "data.frame")
>
> sessionInfo()
R version 4.0.3 (2020-10-10)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
BLAS:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib
LAPACK:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] reshape_0.8.8 plyr_1.8.6 ggplot2_3.3.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.4.6 pillar_1.4.4 DEoptimR_1.0-8
compiler_4.0.3 RColorBrewer_1.1-2
[6] iterators_1.0.12 digest_0.6.25 lifecycle_0.2.0
tibble_3.0.1 gtable_0.3.0
[11] nlme_3.1-149 lattice_0.20-41 pkgconfig_2.0.3
rlang_0.4.6 foreach_1.5.0
[16] Matrix_1.2-18 parallel_4.0.3 ergm_3.10.4
coda_0.19-3 withr_2.2.0
[21] dplyr_1.0.0 generics_0.0.2 vctrs_0.3.1
networkDynamic_0.10.1 trust_0.1-8
[26] grid_4.0.3 tidyselect_1.1.0 deSolve_1.28
robustbase_0.93-6 glue_1.4.1
[31] R6_2.4.1 farver_2.0.3 purrr_0.3.4
magrittr_1.5
[R] Weird change in behavior of summary() function
Aloha.
I have been using the summary function (i.e., summary()) for years and,
in the last few weeks, suddenly find it behaving in an obviously
erroneous way. I expect the DAUCO summary to be summary of the
character variable but it has these weird NULL:00125 values listed for
whatever the number of rows is.
It's not limited to this input data so I don't believe that it is
data-dependent at this point.
This just started happening a number of weeks ago. I've done some
updates of the OS and apps since then and re-installed R from the Mac
*.dmg distro.
I have provided details below and my main questions are 1) has anyone
else seen this (I can't find any reports of it) and 2) how might I debug
this?
Thank you.
Input data sample (first few records from a flat ASCII
csv file)
DAUCO,Longitude,Latitude,Precipitation,Year,Month
00125,-121.41667,41.958334,63.1469993591,1895,1
00125,-121.375,41.958334,63.6969985962,1895,1
00125,-121.3,41.958334,65.7460021973,1895,1
00125,-121.29167,41.958334,69.4150009155,1895,1
00125,-121.25,41.958334,74.0780029297,1895,1
R commands and output
=
PRISM = read.table(PRISM_INPUT,header=TRUE, sep=',',
colClasses=c('character','numeric','numeric','numeric','numeric','numeric'))
> summary(PRISM)
DAUCO Longitude Latitude Precipitation
Year Month
NULL:00125 Min. :-121.4 Min. :41.54 Min. : 0.00 Min.
:1895 Min. : 1.000
NULL:00125 1st Qu.:-121.2 1st Qu.:41.71 1st Qu.: 10.65 1st
Qu.:1926 1st Qu.: 3.000
NULL:00125 Median :-121.0 Median :41.79 Median : 24.41 Median
:1957 Median : 6.000
NULL:00125 Mean :-121.0 Mean :41.79 Mean : 31.09 Mean
:1957 Mean : 6.488
NULL:00125 3rd Qu.:-120.9 3rd Qu.:41.88 3rd Qu.: 43.73 3rd
Qu.:1989 3rd Qu.: 9.000
NULL:00125 Max. :-120.6 Max. :41.96 Max. :265.08 Max.
:2020 Max. :12.000
NULL:00125
NULL:00125
> dput(head(PRISM))
structure(list(DAUCO = c("00125", "00125", "00125", "00125",
"00125", "00125"), Longitude = c(-121.41667, -121.375, -121.3,
-121.29167, -121.25, -121.20833), Latitude = c(41.958334,
41.958334, 41.958334, 41.958334, 41.958334, 41.958334
), Precipitation = c(63.1469993591, 63.6969985962, 65.7460021973,
69.4150009155, 74.0780029297, 80.4290008545), Year = c(1895,
1895, 1895, 1895, 1895, 1895), Month = c(1, 1, 1, 1, 1, 1)), row.names =
c(NA,
6L), class = "data.frame")
>
> sessionInfo()
R version 4.0.3 (2020-10-10)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
BLAS:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib
LAPACK:
/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] reshape_0.8.8 plyr_1.8.6 ggplot2_3.3.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.4.6 pillar_1.4.4 DEoptimR_1.0-8
compiler_4.0.3 RColorBrewer_1.1-2
[6] iterators_1.0.12 digest_0.6.25 lifecycle_0.2.0
tibble_3.0.1 gtable_0.3.0
[11] nlme_3.1-149 lattice_0.20-41 pkgconfig_2.0.3
rlang_0.4.6 foreach_1.5.0
[16] Matrix_1.2-18 parallel_4.0.3 ergm_3.10.4
coda_0.19-3 withr_2.2.0
[21] dplyr_1.0.0 generics_0.0.2 vctrs_0.3.1
networkDynamic_0.10.1 trust_0.1-8
[26] grid_4.0.3 tidyselect_1.1.0 deSolve_1.28
robustbase_0.93-6 glue_1.4.1
[31] R6_2.4.1 farver_2.0.3 purrr_0.3.4
magrittr_1.5 codetools_0.2-16
[36] scales_1.1.1 ellipsis_0.3.1 MASS_7.3-53
lpSolve_5.6.15 colorspace_1.4-1
[41] ape_5.4 labeling_0.3 network_1.16.0
lazyeval_0.2.2 doParallel_1.0.15
[46] EpiModel_1.8.0 munsell_0.5.0 tergm_3.6.1
statnet.common_4.3.0 crayon_1.3.4
--
John Helly, University of California, San Diego / San Diego Supercomputer
Center / Scripps Institution of Oceanography / 760 840 8660 mobile /
http://www.sdsc.edu/~hellyj
ORCID ID: orcid.org/-0002-3779-0603
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
