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Created October 17, 2020 14:19
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failure.txt
processing file: index.Rmd
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inline R code fragments
output file: index.knit.md
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ordinary text without R code
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label: unnamed-chunk-1 (with options)
List of 1
$ include: logi FALSE
processing file: introduction.Rmd
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ordinary text without R code
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label: unnamed-chunk-2 (with options)
List of 3
$ echo : logi FALSE
$ cache : logi FALSE
$ indent: chr " "
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ordinary text without R code
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label: unnamed-chunk-3 (with options)
List of 3
$ code : symbol install
$ eval : logi FALSE
$ indent: chr " "
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ordinary text without R code
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label: unnamed-chunk-4 (with options)
List of 2
$ eval: logi FALSE
$ echo: logi FALSE
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ordinary text without R code
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label: unnamed-chunk-5 (with options)
List of 3
$ results: chr "asis"
$ echo : logi FALSE
$ message: logi FALSE
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inline R code fragments
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label: unnamed-chunk-6 (with options)
List of 2
$ echo : logi FALSE
$ results: chr "asis"
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
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ordinary text without R code
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label: unnamed-chunk-7 (with options)
List of 1
$ echo: logi FALSE
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label: unnamed-chunk-8 (with options)
List of 1
$ include: logi FALSE
output file: introduction.knit.md
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ordinary text without R code
processing file: basic.Rmd
output file: basic.knit.md
processing file: basic-app.Rmd
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label: unnamed-chunk-1 (with options)
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$ include: logi FALSE
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label: unnamed-chunk-2 (with options)
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$ eval: logi FALSE
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ordinary text without R code
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label: setup
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label: unnamed-chunk-3 (with options)
List of 1
$ eval: logi FALSE
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ordinary text without R code
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label: unnamed-chunk-4 (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ fig.align: chr "left"
$ indent : chr " "
|.................. | 26%
ordinary text without R code
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label: hello-world (with options)
List of 3
$ out.width: NULL
$ echo : logi FALSE
$ fig.cap : chr "The very basic shiny app you'll see when you run the code above"
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label: unnamed-chunk-5
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label: unnamed-chunk-6
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ordinary text without R code
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label: basic-ui (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ fig.cap : chr "The datasets app with UI"
$ message : logi FALSE
basic-app/ui has changed:
`environment(old$_ui[[1]])` is <env:0x7f890f0d5988>
`environment(new$_ui[[1]])` is <env:0x7f890d24ad40>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890f0da0f8>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890d3fc6d8>
Starting ShinyDriver
Taking screenshot
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label: unnamed-chunk-7
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$ eval: logi FALSE
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ordinary text without R code
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label: basic-server (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ fig.cap : chr "Now that we've provided a server function that connects outputs and inputs, we have a fully functional app"
$ message : logi FALSE
basic-app/server has changed:
`environment(old$_ui[[1]])` is <env:0x7f890d8a4668>
`environment(new$_ui[[1]])` is <env:0x7f890d24ad40>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890d8a68d0>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890d3fc6d8>
Starting ShinyDriver
Taking screenshot
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label: unnamed-chunk-9 (with options)
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$ eval: logi FALSE
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$ eval: logi FALSE
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label: unnamed-chunk-11 (with options)
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$ echo : logi FALSE
$ out.width: NULL
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label: unnamed-chunk-12 (with options)
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$ eval : logi FALSE
$ indent: chr " "
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label: unnamed-chunk-13 (with options)
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$ echo : logi TRUE
$ out.width: NULL
$ indent : chr " "
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label: unnamed-chunk-14 (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
$ indent : chr " "
basic-app/ex-x-times-5 has changed:
`environment(old$_ui[[1]])` is <env:0x7f890e1525b0>
`environment(new$_ui[[1]])` is <env:0x7f890d4f2248>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890e154498>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890acad3e8>
Starting ShinyDriver
Taking screenshot
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label: unnamed-chunk-15 (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
$ indent : chr " "
basic-app/ex-x-times-y has changed:
`environment(old$_ui[[1]])` is <env:0x7f890ae38e98>
`environment(new$_ui[[1]])` is <env:0x7f892aedb4c0>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f890ae3b608>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7f892af97ef0>
`environment(attr(old$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7f890ae3e590>
`environment(attr(new$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7f892afee128>
Starting ShinyDriver
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label: unnamed-chunk-16 (with options)
Taking screenshot
List of 1
$ indent: chr " "
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label: unnamed-chunk-17 (with options)
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$ indent: chr " "
output file: basic-app.knit.md
processing file: basic-ui.Rmd
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$ include: logi FALSE
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$ results: logi FALSE
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label: unnamed-chunk-4 (with options)
List of 3
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/free-text has changed:
`environment(old$_ui[[1]])` is <env:0x7faeff91e158>
`environment(new$_ui[[1]])` is <env:0x7faebfb12870>
Starting ShinyDriver
Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/numeric has changed:
`environment(old$_ui[[1]])` is <env:0x7faebfbb0300>
`environment(new$_ui[[1]])` is <env:0x7fae983af2d0>
`environment(attr(old$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7faebfbb4aa8>
`environment(attr(new$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7faec85e9f70>
`environment(attr(old$_ui[[4]][[1]]$children[[3]], 'html_dependencies')[[1]])` is <env:0x7faebfbb3ae8>
`environment(attr(new$_ui[[4]][[1]]$children[[3]], 'html_dependencies')[[1]])` is <env:0x7faeb873ca70>
Starting ShinyDriver
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Taking screenshot
label: unnamed-chunk-7
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/date has changed:
`environment(old$_ui[[1]])` is <env:0x7faec879f490>
`environment(new$_ui[[1]])` is <env:0x7fae99078dd8>
`environment(old$_ui[[4]][[1]]$children[[1]]$children[[3]])` is <env:0x7faec879e878>
`environment(new$_ui[[4]][[1]]$children[[1]]$children[[3]])` is <env:0x7fae990e5318>
`environment(attr(old$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7faec879be30>
`environment(attr(new$_ui[[4]][[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae99104038>
Starting ShinyDriver
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Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/limited-choices has changed:
`environment(old$_ui[[1]])` is <env:0x7faebfcabfb8>
`environment(new$_ui[[1]])` is <env:0x7faeb8273ba0>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7faebfcae568>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7faeafee13d0>
Starting ShinyDriver
Taking screenshot
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label: unnamed-chunk-12 (with options)
List of 3
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/radio-icon has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9b4e4908>
`environment(new$_ui[[1]])` is <env:0x7faeefc1cb20>
Starting ShinyDriver
|.................. | 26%
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label: unnamed-chunk-13
Taking screenshot
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label: unnamed-chunk-14 (with options)
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$ echo : logi FALSE
$ out.width: NULL
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label: unnamed-chunk-15
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label: unnamed-chunk-16 (with options)
List of 3
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/multi-radio has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9f8c0608>
`environment(new$_ui[[1]])` is <env:0x7faeeff30ee0>
Starting ShinyDriver
Taking screenshot
|........................ | 34%
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label: unnamed-chunk-18 (with options)
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/yes-no has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9acd5ac0>
`environment(new$_ui[[1]])` is <env:0x7fae9a9cb708>
Starting ShinyDriver
Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/upload has changed:
`environment(old$_ui[[1]])` is <env:0x7faeffd7fc30>
`environment(new$_ui[[1]])` is <env:0x7fae9b6f3f58>
Starting ShinyDriver
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
Taking screenshot
basic-ui/action has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9c727c48>
`environment(new$_ui[[1]])` is <env:0x7fae99e6b790>
Starting ShinyDriver
|............................... | 45%
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
Taking screenshot
basic-ui/action-css has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9fe25b88>
`environment(new$_ui[[1]])` is <env:0x7fae9a27b678>
Starting ShinyDriver
Taking screenshot
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label: unnamed-chunk-25 (with options)
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
$ indent : chr " "
basic-ui/placeholder has changed:
`environment(old$_ui[[1]])` is <env:0x7faecfa932d8>
`environment(new$_ui[[1]])` is <env:0x7fae9bd82e80>
Starting ShinyDriver
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label: unnamed-chunk-26 (with options)
List of 4
$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
$ indent : chr " "
Taking screenshot
basic-ui/date-slider has changed:
`environment(old$_ui[[1]])` is <env:0x7faeffba2e30>
`environment(new$_ui[[1]])` is <env:0x7faeffd0b5d8>
`environment(attr(old$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7faeffba4368>
`environment(attr(new$_ui[[4]][[1]]$children[[1]], 'html_dependencies')[[1]])` is <env:0x7faeffccfa00>
Starting ShinyDriver
Taking screenshot
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$ eval : logi FALSE
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/output-text has changed:
`environment(old$_ui[[1]])` is <env:0x7fae8f9f43c0>
`environment(new$_ui[[1]])` is <env:0x7fae983ae8c0>
Starting ShinyDriver
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$ echo : logi FALSE
$ out.width: chr "100%"
$ message : logi FALSE
basic-ui/output-table has changed:
`environment(old$_ui[[1]])` is <env:0x7fae998e0ae0>
`environment(new$_ui[[1]])` is <env:0x7faeaf8589f0>
Starting ShinyDriver
Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ message : logi FALSE
basic-ui/output-plot has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9af8e6a0>
`environment(new$_ui[[1]])` is <env:0x7fae9a2cc6d0>
Starting ShinyDriver
Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ fig.cap : chr "Structure of a basic app with sidebar"
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$ echo : logi FALSE
$ out.width: chr "100%"
$ message : logi FALSE
basic-ui/sidebar has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9a52ecf8>
`environment(new$_ui[[1]])` is <env:0x7faeb8e50680>
Starting ShinyDriver
Taking screenshot
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$ echo : logi FALSE
$ out.width: NULL
$ fig.cap : chr "The structure underlying a simple multi-row app"
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$ results: logi FALSE
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$ echo : logi FALSE
$ out.width: chr "50%"
$ fig.show : chr "hold"
$ fig.align: chr "default"
$ message : logi FALSE
basic-ui/theme-darkly has changed:
`environment(old$_ui[[1]])` is <env:0x7fae99bd3b90>
`environment(new$_ui[[1]])` is <env:0x7fae99a7a258>
`environment(attr(old$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae99bd6098>
`environment(attr(new$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae99acf528>
Starting ShinyDriver
Taking screenshot
basic-ui/theme-flatly has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9a4065e8>
`environment(new$_ui[[1]])` is <env:0x7fae9fe413a8>
`environment(attr(old$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9a408af0>
`environment(attr(new$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9fd80d18>
Starting ShinyDriver
Taking screenshot
basic-ui/theme-sandstone has changed:
`environment(old$_ui[[1]])` is <env:0x7fae99928ae0>
`environment(new$_ui[[1]])` is <env:0x7fae9b5e4c88>
`environment(attr(old$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9992afe8>
`environment(attr(new$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9c439f58>
Starting ShinyDriver
Taking screenshot
basic-ui/theme-united has changed:
`environment(old$_ui[[1]])` is <env:0x7fae9b132630>
`environment(new$_ui[[1]])` is <env:0x7fae9a87e620>
`environment(attr(old$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9b1349b0>
`environment(attr(new$_ui[[4]][[1]]$children[[1]]$children[[1]]$children[[1]]$children[[2]], 'html_dependencies')[[1]])` is <env:0x7fae9b44eba8>
Starting ShinyDriver
Taking screenshot
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output file: basic-ui.knit.md
processing file: basic-reactivity.Rmd
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── Attaching packages ────────
✓ ggplot2 3.3.2 ✓ purrr 0.3.4
✓ tibble 3.0.3 ✓ dplyr 1.0.2
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Rows: 255,064
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chr [6]: sex, race, body_part, diag, location, narrative
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Error in file(con, "r") : cannot open the connection
Calls: <Anonymous> ... mapply -> <Anonymous> -> read_utf8 -> readLines -> file
In addition: Warning message:
In file(con, "r") :
cannot open file 'action-dynamic.md': No such file or directory
Backtrace:
█
1. └─rmarkdown::render_site(output_format = "bookdown::gitbook", encoding = "UTF-8")
2. └─generator$render(...)
3. ├─xfun::in_dir(...)
4. └─bookdown:::render_book_script(output_format, envir, quiet)
5. └─bookdown::render_book(...)
6. └─bookdown:::render_new_session(...)
7. └─bookdown:::merge_chapters(unlist(meta), main, orig = files)
8. ├─base::unlist(...)
9. └─base::mapply(...)
10. └─(function (f, o) ...
11. └─xfun::read_utf8(f)
12. └─base::readLines(con, encoding = "UTF-8", warn = FALSE)
13. └─base::file(con, "r")
Warning message:
In file.rename(unlist(meta)[move], files_md[move]) :
cannot rename file 'action-dynamic.md' to '_book/action-dynamic.md', reason 'No such file or directory'
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