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Cannot include child RMarkdown documents
If I try to include a child document, it works the first time a tutorial is run, but then errors the second time because it cannot find the child document
Example
Learnr tutorial:
---
title: "Test Inserting a Child RMarkdown Document"
output: learnr::tutorial
runtime: shiny_prerendered
---
```{r setup, include=FALSE}
library(learnr)
knitr::opts_chunk$set(echo = FALSE)
```
```{r, child=c("www/child.Rmd")}
```
Child document:
### I'm a child!
Here's some R code
```{r cars}
summary(cars)
```
First run:
Second run:
Quitting from lines 14-15 (/var/folders/y3/png21yc50g5g041t82_6c0100000gp/T//RtmpAFpkzA/www/child.Rmd)
Error in file(con, "r") : cannot open the connection
Calls: <Anonymous> ... process_tangle.block -> lapply -> FUN -> knit -> readLines -> file
In addition: Warning message:
In file(con, "r") :
cannot open file '/var/folders/y3/png21yc50g5g041t82_6c0100000gp/T//RtmpAFpkzA/www/child.Rmd': No such file or directory
Execution halted
Describe the problem in detail
It seems like when the progress is stored, the child document isn't copied over in a way that makes it accessible to the tutorial.
I can also get it to work again by reseting the tutorial
- delete the code chunk that pulls in the child document
- run the tutorial
- click "Start Over"
- add back the code chunk that pulls in the child document
- run the tutorial
This will again work once, and then not work the second time.
Context
I have some boilerplate content that I want to stick at the front of several tutorials (instructions for students, logo, some metadata) and it would be convenient to maintain that in a single location rather than in each of the tutorials. I'm not trying to run learnr questions or exercises in the child document (although composable tutorials would be lovely someday).
System details
Output of sessioninfo::session_info()():
─ Session info ────────────────────────────────────────────────────────────
setting value
version R version 3.6.1 (2019-07-05)
os macOS Catalina 10.15.5
system x86_64, darwin15.6.0
ui RStudio
language (EN)
collate en_US.UTF-8
ctype en_US.UTF-8
tz America/New_York
date 2020-07-29
─ Packages ────────────────────────────────────────────────────────────────
package * version date lib source
assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.6.0)
backports 1.1.4 2019-04-10 [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)
digest 0.6.21 2019-09-20 [1] CRAN (R 3.6.0)
evaluate 0.14 2019-05-28 [1] CRAN (R 3.6.0)
fansi 0.4.0 2018-10-05 [1] CRAN (R 3.6.0)
fastmap 1.0.1 2019-10-08 [1] CRAN (R 3.6.0)
glue 1.4.1 2020-05-13 [1] CRAN (R 3.6.2)
htmltools 0.5.0 2020-06-16 [1] CRAN (R 3.6.2)
htmlwidgets 1.5.1 2019-10-08 [1] CRAN (R 3.6.0)
httpuv 1.5.2 2019-09-11 [1] CRAN (R 3.6.0)
jsonlite 1.6 2018-12-07 [1] CRAN (R 3.6.0)
knitr 1.25 2019-09-18 [1] CRAN (R 3.6.0)
later 1.1.0.1 2020-06-05 [1] CRAN (R 3.6.2)
learnr 0.10.1 2020-02-13 [1] CRAN (R 3.6.0)
magrittr 1.5 2014-11-22 [1] CRAN (R 3.6.0)
markdown 1.1 2019-08-07 [1] CRAN (R 3.6.0)
mime 0.7 2019-06-11 [1] CRAN (R 3.6.0)
packrat 0.5.0 2018-11-14 [1] CRAN (R 3.6.0)
promises 1.1.1 2020-06-09 [1] CRAN (R 3.6.2)
R6 2.4.0 2019-02-14 [1] CRAN (R 3.6.0)
Rcpp 1.0.2 2019-07-25 [1] CRAN (R 3.6.0)
rlang 0.4.2 2019-11-23 [1] CRAN (R 3.6.0)
rmarkdown 2.3 2020-06-18 [1] CRAN (R 3.6.2)
rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.6.0)
rsconnect 0.8.15 2019-07-22 [1] CRAN (R 3.6.0)
rstudioapi 0.10 2019-03-19 [1] CRAN (R 3.6.0)
sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0)
shiny 1.5.0 2020-06-23 [1] CRAN (R 3.6.2)
withr 2.1.2 2018-03-15 [1] CRAN (R 3.6.0)
xfun 0.14 2020-05-20 [1] CRAN (R 3.6.2)
xtable 1.8-4 2019-04-21 [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/library
I'm not able to reproduce this problem.
─ Session info ──────────────────────────────────────────────────────────────────────────── setting value version R version 3.6.3 (2020-02-29) os macOS Catalina 10.15.6 system x86_64, darwin15.6.0 ui RStudio language (EN) collate en_US.UTF-8 ctype en_US.UTF-8 tz America/Denver date 2020-07-29
─ Packages ──────────────────────────────────────────────────────────────────────────────── package * version date lib source
assertthat 0.2.1 2019-03-21 [2] CRAN (R 3.6.0)
backports 1.1.8 2020-06-17 [1] CRAN (R 3.6.3)
broom 0.7.0 2020-07-09 [1] CRAN (R 3.6.2)
checkmate 2.0.0 2020-02-06 [1] CRAN (R 3.6.0)
cli 2.0.2 2020-02-28 [1] CRAN (R 3.6.0)
colorspace 1.4-1 2019-03-18 [2] CRAN (R 3.6.0)
crayon 1.3.4.9000 2020-05-06 [1] Github (r-lib/crayon@dcf6d44)
crosstalk 1.1.0.1 2020-03-13 [1] CRAN (R 3.6.0)
curl 4.3 2019-12-02 [1] CRAN (R 3.6.0)
data.table 1.12.8 2019-12-09 [1] CRAN (R 3.6.0)
digest 0.6.25 2020-02-23 [1] CRAN (R 3.6.0)
distill 0.7 2019-05-03 [2] CRAN (R 3.6.0)
dplyr * 1.0.0 2020-05-29 [1] CRAN (R 3.6.2)
ellipsis 0.3.1 2020-05-15 [1] CRAN (R 3.6.2)
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)
farver 2.0.3 2020-01-16 [1] CRAN (R 3.6.0)
fastmap 1.0.1 2019-10-08 [2] CRAN (R 3.6.0)
generics 0.0.2 2018-11-29 [2] CRAN (R 3.6.0)
ggdendro 0.1-20 2016-04-27 [2] CRAN (R 3.6.0)
ggforce 0.3.2 2020-06-23 [1] CRAN (R 3.6.2)
ggformula * 0.9.4 2020-03-04 [1] CRAN (R 3.6.0)
ggplot2 * 3.3.2 2020-06-19 [1] CRAN (R 3.6.2)
ggrepel 0.8.2 2020-03-08 [1] CRAN (R 3.6.0)
ggstance * 0.3.4 2020-04-02 [1] CRAN (R 3.6.0)
glue 1.4.1 2020-05-13 [1] CRAN (R 3.6.2)
gridExtra 2.3 2017-09-09 [2] CRAN (R 3.6.0)
gtable 0.3.0 2019-03-25 [2] CRAN (R 3.6.0)
hms 0.5.3 2020-01-08 [1] CRAN (R 3.6.0)
htmltools 0.5.0 2020-06-16 [1] CRAN (R 3.6.3)
htmlwidgets 1.5.1 2019-10-08 [2] CRAN (R 3.6.0)
httpuv 1.5.4 2020-06-06 [1] CRAN (R 3.6.2)
httr 1.4.2 2020-07-20 [1] CRAN (R 3.6.2)
jsonlite 1.7.0 2020-06-25 [1] CRAN (R 3.6.2)
knitr 1.29 2020-06-23 [1] CRAN (R 3.6.2)
labeling 0.3 2014-08-23 [2] CRAN (R 3.6.0)
later 1.1.0.1 2020-06-05 [1] CRAN (R 3.6.2)
lattice * 0.20-38 2018-11-04 [2] CRAN (R 3.6.3)
lazyeval 0.2.2 2019-03-15 [2] CRAN (R 3.6.0)
leaflet 2.0.3 2019-11-16 [1] CRAN (R 3.6.0)
learnr 0.10.1.9004 2020-06-16 [1] Github (dtkaplan/learnr@c76684b)
lifecycle 0.2.0 2020-03-06 [1] CRAN (R 3.6.0)
lubridate 1.7.9 2020-06-08 [1] CRAN (R 3.6.2)
magrittr 1.5 2014-11-22 [2] CRAN (R 3.6.0)
markdown 1.1 2019-08-07 [1] CRAN (R 3.6.0)
MASS 7.3-51.5 2019-12-20 [2] CRAN (R 3.6.3)
Matrix * 1.2-18 2019-11-27 [2] CRAN (R 3.6.3)
metR 0.7.0 2020-04-10 [1] CRAN (R 3.6.2)
mime 0.9 2020-02-04 [2] CRAN (R 3.6.0)
MMAC 0.1.2 2018-07-05 [1] CRAN (R 3.6.0)
mosaic * 1.7.0 2020-05-18 [1] CRAN (R 3.6.2)
mosaicCalc * 0.5.1.9000 2020-06-16 [1] Github (ProjectMOSAIC/mosaicCalc@eb3d4cf) mosaicCore * 0.6.0 2018-06-24 [2] CRAN (R 3.6.0)
mosaicData * 0.18.0 2020-05-15 [1] CRAN (R 3.6.2)
munsell 0.5.0 2018-06-12 [2] CRAN (R 3.6.0)
packrat 0.5.0-25 2019-11-14 [1] Github (rstudio/packrat@448aafd)
pillar 1.4.6 2020-07-10 [1] CRAN (R 3.6.2)
pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 3.6.0)
plotly 4.9.2.1 2020-04-04 [1] CRAN (R 3.6.2)
polyclip 1.10-0 2019-03-14 [1] CRAN (R 3.6.0)
promises 1.1.1 2020-06-09 [1] CRAN (R 3.6.2)
purrr 0.3.4 2020-04-17 [1] CRAN (R 3.6.2)
R6 2.4.1 2019-11-12 [1] CRAN (R 3.6.0)
Rcpp 1.0.5 2020-07-06 [1] CRAN (R 3.6.2)
readr 1.3.1 2018-12-21 [2] CRAN (R 3.6.0)
rlang 0.4.7 2020-07-09 [1] CRAN (R 3.6.2)
rmarkdown 2.3 2020-06-18 [1] CRAN (R 3.6.2)
rprojroot 1.3-2 2018-01-03 [2] CRAN (R 3.6.0)
rsconnect 0.8.16 2019-12-13 [1] CRAN (R 3.6.0)
rstudioapi 0.11 2020-02-07 [2] CRAN (R 3.6.0)
scales 1.1.1 2020-05-11 [1] CRAN (R 3.6.2)
sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0)
shiny 1.5.0 2020-06-23 [1] CRAN (R 3.6.2)
stringi 1.4.6 2020-02-17 [1] CRAN (R 3.6.0)
stringr 1.4.0 2019-02-10 [2] CRAN (R 3.6.0)
tibble 3.0.3 2020-07-10 [1] CRAN (R 3.6.2)
tidyr 1.1.0 2020-05-20 [1] CRAN (R 3.6.2)
tidyselect 1.1.0 2020-05-11 [1] CRAN (R 3.6.2)
tweenr 1.0.1 2018-12-14 [1] CRAN (R 3.6.0)
vctrs 0.3.2 2020-07-15 [1] CRAN (R 3.6.3)
viridisLite 0.3.0 2018-02-01 [2] CRAN (R 3.6.0)
withr 2.2.0 2020-04-20 [1] CRAN (R 3.6.2)
xfun 0.16 2020-07-24 [1] CRAN (R 3.6.2)
xtable 1.8-4 2019-04-21 [2] CRAN (R 3.6.0)
yaml 2.2.1 2020-02-01 [1] CRAN (R 3.6.0)
@dtkaplan thanks for looking into this. I'm happy to follow any suggestions to try to track it down. It's happening consistently for me.
@KatherineCox I can reproduce your error when the child chunk option is formatted like child = c("www/child.R"). If you remove the c(), the document will work again: child = "www/child.R".
