Comments (8)
Mirkes
commented on May 28, 2024
Dear John,
I'll analyse this problem ASAP. Unfortunately this week is completely busy.
Best regards,
Evgeny
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Mirkes
commented on May 28, 2024
Dear John,
Many thanks for your message. Now problem with reading of files is fixed. New version of g.cwaread is uploaded to github.
Best regards,
Evgeny
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vincentvanhees
commented on May 28, 2024
thanks Evgeny and John, I aim to get a new release of GGIR uploaded to CRAN in the upcoming days
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muschellij2
commented on May 28, 2024
This worked for a bit, but now tz issues. The configtz = c() default is likely going to fail, because this is getting passed to strptime:
zipfile = tempfile(fileext=".zip")
download.file("http://biobank.ndph.ox.ac.uk/showcase/showcase/examples/accsamp.zip",
destfile=zipfile)
fname = unzip(zipfile, files = "accsamp.cwa", exdir = tempdir())
library(GGIR)
# x = g.cwaread("accsamp.cwa", progressBar=TRUE, end = Inf)
x = g.cwaread(fname, progressBar=TRUE, end = 1000, configtz = "")
#> |======================================================================| 100%
x = g.cwaread(fname, progressBar=TRUE, end = 1000)
#> Error in strptime(xx, f, tz = tz): invalid 'tz' valueCreated on 2020-02-18 by the reprex package (v0.3.0.9001)
Session info
sessioninfo::session_info()
#> ─ Session info ───────────────────────────────────────────────────────────────
#> setting value
#> version R version 3.6.2 (2019-12-12)
#> os macOS Mojave 10.14.6
#> system x86_64, darwin15.6.0
#> ui X11
#> language (EN)
#> collate en_US.UTF-8
#> ctype en_US.UTF-8
#> tz America/New_York
#> date 2020-02-18
#>
#> ─ Packages ───────────────────────────────────────────────────────────────────
#> package * version date lib source
#> assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.6.0)
#> backports 1.1.5 2019-10-02 [1] CRAN (R 3.6.0)
#> cli 2.0.1 2020-01-08 [1] CRAN (R 3.6.0)
#> crayon 1.3.4 2017-09-16 [1] CRAN (R 3.6.0)
#> data.table 1.12.8 2019-12-09 [1] CRAN (R 3.6.0)
#> digest 0.6.23 2019-11-23 [1] CRAN (R 3.6.0)
#> evaluate 0.14 2019-05-28 [1] CRAN (R 3.6.0)
#> fansi 0.4.1 2020-01-08 [1] CRAN (R 3.6.0)
#> fs 1.3.1 2019-05-06 [1] CRAN (R 3.6.0)
#> GGIR * 1.10-4 2019-09-09 [1] CRAN (R 3.6.0)
#> glue 1.3.1 2019-03-12 [1] CRAN (R 3.6.0)
#> highr 0.8 2019-03-20 [1] CRAN (R 3.6.0)
#> htmltools 0.4.0 2019-10-04 [1] CRAN (R 3.6.0)
#> knitr 1.26.1 2020-01-05 [1] Github (muschellij2/knitr@f5af631)
#> magrittr 1.5 2014-11-22 [1] CRAN (R 3.6.0)
#> pillar 1.4.3 2019-12-20 [1] CRAN (R 3.6.0)
#> pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 3.6.0)
#> purrr 0.3.3 2019-10-18 [1] CRAN (R 3.6.0)
#> Rcpp 1.0.3 2019-11-08 [1] CRAN (R 3.6.2)
#> reprex 0.3.0.9001 2020-01-05 [1] Github (tidyverse/reprex@5ae0b29)
#> rlang 0.4.2 2019-11-23 [1] CRAN (R 3.6.0)
#> rmarkdown 2.0.7 2020-01-17 [1] Github (rstudio/rmarkdown@2faf16a)
#> rstudioapi 0.10.0-9003 2020-01-05 [1] Github (rstudio/rstudioapi@abe596d)
#> sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0)
#> stringi 1.4.5 2020-01-11 [1] CRAN (R 3.6.0)
#> stringr 1.4.0 2019-02-10 [1] CRAN (R 3.6.0)
#> styler 1.1.1 2019-05-06 [1] CRAN (R 3.6.0)
#> tibble 2.1.3 2019-06-06 [1] CRAN (R 3.6.0)
#> withr 2.1.2 2018-03-15 [1] CRAN (R 3.6.0)
#> xfun 0.11 2019-11-12 [1] CRAN (R 3.6.0)
#> yaml 2.2.0 2018-07-25 [1] CRAN (R 3.6.0)
#>
#> [1] /Library/Frameworks/R.framework/Versions/3.6/Resources/libraryfrom ggir.
vincentvanhees
commented on May 28, 2024
Hi John,
You should use "desiredtz" argument to specify timezone if the accelerometers were set up in the same timezone as in which the recording took place.
The configtz is new since last year and it currently only works for AX3 cwa data.
It allows users to configure their accelerometers in one timezone, send them to a study participant in another timezone. I have tested this with a client who had to deal with such situation, so it should work.
desiredtz = timezone of data collection
configtz = timezone were accelerometer was configured
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vincentvanhees
commented on May 28, 2024
Note that if (length(configtz) == 0) configtz = desiredtz at the top of g.cwaread handles configtz = c()
Edit: Also note that g.cwaread does not have a default value for argument desiredtz, so you will have to provide that explicitly.
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muschellij2
commented on May 28, 2024
I see the code, but default should likely be desiredtz = "", so that it
doesn't fail with as.POSIXlt and is the same default in as.POSIXlt, which
is tz = ""
Best,
John
…On Tue, Feb 18, 2020 at 4:31 PM Vincent van Hees ***@***.***> wrote:
Note that if (length(configtz) == 0) configtz = desiredtz at the top of
g.cwaread handles configtz = c()
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vincentvanhees
commented on May 28, 2024
thanks John, I agree. Would be good to get that checked and fixed. I have opened a new issue for it.
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Related Issues (20)
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