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MilesMcBain / tflow

An opinionated lightweight template for smooth targets flows.
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changes to use_rmd() template so works when knitting or tar_make()ing #5

Open Aariq opened 3 years ago

Aariq commented 3 years ago

The current template includes source("../packages.R"), which works for me when I run the code chunk or use the knit button, but causes an error with tar_make():

● run target y
Quitting from lines 9-12 (test.Rmd) 
x error target y
Error : cannot open the connection
Error: callr subprocess failed: cannot open the connection

Changing it to source(here::here("packages.R")) makes it work in all three places.

Similarly, it took me a long time to figure out how to use tar_load() and tar_read() in a way that would work when running code chunks, knitting, and using tar_make(). This is the solution I came up with, which might be a nice addition to the template:

withr::with_dir(here(),{
  #add calls to tar_load() here
  tar_load(x)
  tar_load(y)
  })

There are other workarounds for getting tar_load() to work in R Markdown here, but none of the other suggestions worked for me.

Session info ``` r devtools::session_info() ─ Session info ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── setting value version R version 4.0.2 (2020-06-22) os macOS Catalina 10.15.7 system x86_64, darwin17.0 ui RStudio language (EN) collate en_US.UTF-8 ctype en_US.UTF-8 tz America/New_York date 2021-03-10 ─ Packages ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── ! package * version date lib source P anytime 0.3.9 2020-08-27 [?] CRAN (R 4.0.2) P askpass 1.1 2019-01-13 [?] CRAN (R 4.0.0) P assertthat 0.2.1 2019-03-21 [?] CRAN (R 4.0.0) P backports 1.2.1 2020-12-09 [?] CRAN (R 4.0.2) P bbmle * 1.0.23.1 2020-02-03 [?] CRAN (R 4.0.0) P bdsmatrix 1.3-4 2020-01-13 [?] CRAN (R 4.0.0) P broom * 0.7.3 2020-12-16 [?] CRAN (R 4.0.2) callr 3.5.1 2020-10-13 [1] CRAN (R 4.0.2) P cellranger 1.1.0 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matthewhillary commented 3 years ago

Both of those solutions work for me thanks!

MilesMcBain commented 3 years ago

Linking a comment from this PR: https://github.com/MilesMcBain/tflow/pull/7#issuecomment-840143973 to flag that knitting or rendering Rmd reports with cached targets outside of the {targets} pipeline has some risks that need to be weighed.

My personal view is it's best avoided.