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I have a code in R, which is done in rMarkdown, it needs to run several times but with different parameter values.

How can I solve it? I have put an example of simplified problems.

Suppose I need to print different values in a loops, in order to make it simple I used simple loops.

For each combination of these two loops I want to make one html file, for example means 200 *400 different html report files.

---
title: "file1"
author: "user"
date: "25 1 2021"
output: html_document
---

# The first loop should be done, from 1:100, 101:200 ... to ...   20001:20100
  ```{r}
  i=getfirst()
  j=getsecond()
  ```

```{r}

for (i in i:j) print(i)
```

# The second loop should be done, from 1:50, 51:100  ... to ...  20001:20050
```{r}
for (i in i-50:j-50) print(i)
```

suppose each time we may have different i and j which should pass into markdown file.

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2 Answers 2

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1

There is a dedicated chapter in the official documentation, "Knitting with parameters", that outlines how to proceed in your use-case.

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1

I'd simply create a wrapper script (i.e. a separate e.g. .R) file, where you specify:

R file

for (i in 1:10){
  j = i+50
  if(!dir.exists(paste0("directory_",i))){dir.create(paste0("directory_",i))}
  knitr::knit(input = "markdown.Rmd",output = paste0("directory_",i,"/output",i,"_",j,".html"))
}

And then your Rmd file, which you have saved as markdown.Rmd in this example looks like this:

RMarkdown file

---
title: "file1"
author: "user"
date: "25 1 2021"
output: html_document
---

# The first loop should be done, from 1:100, 101:200 ... to ... 20001:20100

```{r}
for (i in i:j) print(i)
```

# The second loop should be done, from 1:50, 51:100 ... to ... 20001:20050

```{r}
for (i in i-50:j-50) print(i)
```
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8 Comments

thanks, how can I pass parameter to markdown file?
When you execute the knit command, it uses your working directory as well - so the run_chunk variable is automatically passed to the markdown file. So this should work and result in two different html files with different output.
please take a look at my new code, suppose each time I may have different parameter, I need to store e.g. 100s different html files.
Ok, now I've modified the R file to just create a simple loop over some i values. The j here is just a standard i + 50 but you can wrap another j loop around it if you like. Does that work now?
The I recommend saving the path to both the csv and the html as a variable and then using that variable when saving. If the csv file is already in that folder, then you can find out the path dynamically using list.files - if you want to save it, then you can copy the paste0 command for a write_csv command or something. I'm afraid it's a bit difficult for me to understand your exact workflow apart from the above...
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