Projektstruktur

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# Projektstruktur
## Rproj + ProjectTemplate + Git(Hub) + Rmd
### Erik Bülow
### 2020-12-17

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# https://rpubs.com/eribul/proj
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<img src="data:image/png;base64,#figs/rproj.PNG" width="743" />
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<img src="data:image/png;base64,#figs/pt.PNG" width="1188" />
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<img src="data:image/png;base64,#figs/github.PNG" width="1367" />
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background-image: url(https://github.com/yihui/xaringan/releases/download/v0.0.2/karl-moustache.jpg)
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<img src="data:image/png;base64,#figs/bitbucket.PNG" width="1392" />
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# Kom igång

```r
library(ProjectTemplate)

create.project(
  project.name = "new-project",
  template = "full",
  dump = FALSE,
  merge.strategy = c("require.empty", "allow.non.conflict"),
  rstudio.project = TRUE
)

usethis::use_git()

# Tungt att versionhantera datafiler lokalt
# Illegalt om ej lokalt (individdata)!
usethis::use_git_ignore(c(".RData", ".rds")) 
usethis::use_github
```

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# Struktur

- `README.md` (*)
- `config/`(*)
  - `global.dcf`
- `.gitignore`
- `TODO`

## I bakgrunden

- `.git`
- `.Rproj.user`

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# Resources

- `lib/`
  - `globals.R`
  - `helpers.R`
- `data/` (*)
- `docs/`

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# Work flow

- `munge/` (*)
  - `01-A.R`
- `src/` (*)
  - `eda.R`
- `reports/`

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# Output

- `cache/` (*)
- `graphs/`
- `logs/`

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# QA

- `diagnostics/`
  - `1.R`
- `profiling/`
  - `1.R`
- `tests/`
  - `1.R`

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# RMarkdown

- Inte under `munge/`
- Kan behöva `opts_knit$set(root.dir = "..")` (se issue #293)
- Kan generera Github-Markdown-dokument för direkt visning online (https://github.com/eribul/NH_luxation_infektion/tree/master/diagnostics).

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# Viktiga kommandon

```r
library(ProjectTemplate) # Alt via `.RProfile`
create.project()

load.project()
run.project()

cache()
```

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# Exempel

- Projekt 29 
  - Zenodo
  - binder privat än så länge
  - separata brancher för resp submittering
  - issues
- https://github.com/eribul/2019-xxx-Johan_Simonsson/issues/22
  
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# Ökad reproducerbarhet

- `{renv}`/MRAN (packrat)
- Binder/`{holepunch}`
- docker/`{rocker}` m fl

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