Knitr produces a R session, without a default cran mirror unless you specifically asked for one. We tend to forget we need to set up CRAN for every R session when we use Rstudio because it takes care of it, but only for interactive use, not for knitr.

You could try specifying a mirror as a `install.packages` argument:

    install.packages(&quot;weatherData&quot;,repos = &quot;http://cran.us.r-project.org&quot;)

Alternatively, you could set up your default CRAN mirror in your `.Rprofile`. See [this answer](https://stackoverflow.com/questions/8475102/set-default-cran-mirror-permanent-in-r).

That said, **it is not a good idea to install packages through a knitr document that you will probably compile several times**. You should assume people know how to install a missing package if needed, or at least test whether the package is installed before installing it again

    if(!require(weatherData)) install.packages(&quot;weatherData&quot;,repos = &quot;http://cran.us.r-project.org&quot;)


You must set the CRAN repository in your R. To do so, launch R or RStudio. in the R terminal run following codes.

    r = getOption(&quot;repos&quot;)
    r[&quot;CRAN&quot;] = &quot;http://cran.us.r-project.org&quot;
    options(repos = r)
    install.packages(&quot;weatherData&quot;)

Above code defines CRAN repository in the R and in next package installation no need to define again.

Alternative way is to simply run `install.packages(&quot;weatherData&quot;, repos=&quot;http://cran.us.r-project.org&quot;)`. However, with the second solution the repository not set and you must pass it as a parameter in every package installation.

Honestly,

It would not work for me because I installed packages, and these lines of code were interrupting the knit function. When I removed all lines containing installing packages (and used the most updated R and R Markdown available) this error went away.

Pardon the naive question, but I&#39;ve looked all over for the answer and all I&#39;ve found is either vague or makes no sense to me. Take this example from the GraphQL spec:

    query getZuckProfile($devicePicSize: Int) {
      user(id: 4) {
        id
        name
        profilePic(size: $devicePicSize)
      }
    }

What is the point of naming this query `getZuckProfile`? I&#39;ve seen something about GraphQL documents containing multiple operations. Does naming queries affect the returned data somehow? I&#39;d test this out myself, but I don&#39;t have a server and dataset I can easily play with to experiment. But it would be good if something in some document somewhere could clarify this--thus far all of the examples are super simple single queries, or are queries that are named but that don&#39;t explain why they are (other than &quot;here&#39;s a cool thing you can do.&quot;) What benefits do I get from naming queries that I don&#39;t have when I send a single, anonymous query per request?

Also, regarding mutations, I see in the spec:

    mutation setName {
      setName(name: &quot;Zuck&quot;) {
        newName
      }
    }

In this case, you&#39;re specifying `setName` twice. Why? I get that one of these is the field name of the mutation and is needed to match it to the back-end schema, but why not:

    mutation {
      setName(name: &quot;Zuck&quot;) {
    ...

What benefit do I get specifying the same name twice? I get that the first is likely arbitrary, but why isn&#39;t it noise? I have to be missing something obvious, but nothing I&#39;ve found thus far has cleared it up for me.

What is the point of naming queries and mutations in GraphQL?

Imagine I have a number of entries(say, users) in my database. I also have two routes, one for list, other for detail(where you can edit the entry). Now I&#39;m struggling with how to approach the data structure. 

I&#39;m thinking of two approaches and a kinda combination of both.

## Shared data set
- I navigate to `/list`, all of my users are downloaded from api a stored in redux store, under the key `users`, I also add some sort of  `users_offset` and `users_limit` to render only part of the of the list
- I then navigate to `/detail/&lt;id&gt;`, and store `currently_selected_user` with `&lt;id&gt;` as the val... which means I will be able to get my user&#39;s data with something like this `users.find(res =&gt; res.id === currently_selected_user)`
- updating will be nice and easy as well, since I&#39;m working with just one data set and detail pointing to it
- adding a new user also easy, again just working with the same list of users

Now the problem I have with this approach is that, when the list of users gets huge(say millions), it might take a while to download. And also, when I navigate directly to `/detail/&lt;id&gt;`, I won&#39;t yet have all of my users downloaded, so to get data for just the one I need, I&#39;m gonna have to first download the whole thing. Millions of users just to edit one.

## Separated data set
- I navigate to `/list`, and instead of downloading all of my users from api, I only download a couple of them, depending on what my `users_per_page` and `users_current_page` would be set to, and I&#39;d probably store the data as `users_currently_visible`
- I then navigate to `/detail/&lt;id&gt;`, store `currently_selected_user` with `&lt;id&gt;` as the val...and instead of searching through `users_currently_visible` I simply download user&#39;s data from api.. 
- on update, I&#39;m not gonna update `users_currently_visible` in any way
- nor will I on add

What I see as possible problem here is that I&#39;m gonna have to, upon visiting `/list`, download data from api again, because it might not be in sync with what&#39;s in the database, I also might be unnecessarily downloading users data in detail, because they might be incidentally already inside my `users_currently_visible`


## some sort of frankenstein-y shenanigans
- I detail, I do the same as in *Separated data set* but instead of directly downloading user&#39;s data from api, I first check:
 - do I have any `users_currently_visible`
 - if so, is there a user with my id between them?
if both are true, I then use it as my user data, otherwise I make the api call
- same happens on update, I check if my user exists between `users_currently_visible` if so, I also update that list, if not I do nothing

This would probably work, but doesn&#39;t really feel like it&#39;s the proper way. I would also probably still need to download fresh list of `users_currently_visible` upon visiting `/list`, because I might have added a new one..



Is there any fan favorite way of doing this?... I&#39;m sure every single one redux user must have encountered the same things.

Thanks!

How to choose the Redux state shape for an app with list/detail views and pagination?

Using the following code I got the data I wanted, but for some reason I can&#39;t figure out `knitr` doesn&#39;t let me compile a PDF document, as shown further below:

My code:

    install.packages(&quot;weatherData&quot;)
    library(weatherData)
    istanbul &lt;- getWeatherForDate(&quot;Istanbul&quot;,
                                  start_date = Sys.Date() - 41, 
                                  end_date = Sys.Date())

Works out with no problem but I get the following message trying compile the PDF:

    Quitting from lines 3-31 (ist_weather.spin.Rmd) 
    Error in contrib.url(repos, type) : 
      trying to use CRAN without setting a mirror
    Calls: &lt;Anonymous&gt; ... eval -&gt; eval -&gt; install.packages -&gt; grep -&gt; contrib.url
    Execution halted

install.packages fails in knitr document: &quot;trying to use CRAN without setting a mirror&quot;

Using the following code I got the data I wanted, but for some reason I can't figure out <code>knitr</code> doesn't let me compile a PDF document, as shown further below:
My code:
<pre><code class="hljs language-scss">install.packages("weatherData")
library(weatherData)
istanbul &#x3C;- getWeatherForDate("Istanbul",
 start_date = Sys.Date() - 41, 
 end_date = Sys.Date())
</code></pre>
Works out with no problem but I get the following message trying compile the PDF:
<pre><code class="hljs language-rust">Quitting from lines 3-31 (ist_weather.spin.Rmd) 
Error in contrib.url(repos, type) : 
 trying to use CRAN without setting a mirror
Calls: &#x3C;Anonymous> ... eval -> eval -> install.packages -> grep -> contrib.url
Execution halted
</code></pre>

I&#39;ve seen similar questions on Stack Overflow but virtually no conclusive answers, and certainly no answer that worked for me.

What is the easiest way to access and use objects (regression fits, data frames, other objects) that are located in the global R environment in the Markdown (Rstudio) script.

I find it surprising that there is no easy solution to this, given the tendency of the RStudio team to make things comfortable and effective.

Thanks in advance.

How to use objects from global environment in Rstudio Markdown

I&#39;m in the process of trying out a dplyr-based workflow (rather than using mostly data.table, which I&#39;m used to), and I&#39;ve come across a problem that I can&#39;t find an equivalent dplyr solution to. I commonly run into the scenario where I need to conditionally update/replace several columns based on a single condition. Here&#39;s some example code, with my data.table solution: 

    library(data.table)

    # Create some sample data
    set.seed(1)
    dt &lt;- data.table(site = sample(1:6, 50, replace=T),
                     space = sample(1:4, 50, replace=T),
                     measure = sample(c(&#39;cfl&#39;, &#39;led&#39;, &#39;linear&#39;, &#39;exit&#39;), 50, 
                                   replace=T),
                     qty = round(runif(50) * 30),
                     qty.exit = 0,
                     delta.watts = sample(10.5:100.5, 50, replace=T),
                     cf = runif(50))
    
    # Replace the values of several columns for rows where measure is &quot;exit&quot;
    dt &lt;- dt[measure == &#39;exit&#39;, 
             `:=`(qty.exit = qty,
                  cf = 0,
                  delta.watts = 13)]

Is there a simple dplyr solution to this same problem? I&#39;d like to avoid using ifelse because I don&#39;t want to have to type the condition multiple times - this is a simplified example, but there are sometimes many assignments based on a single condition. 

Thanks in advance for the help!

dplyr mutate/replace several columns on a subset of rows

**update: Brandon Bertelsen&#39;s answer**:


Brandon&#39;s answer produces the following output. 
It doesn&#39;t produce nice tables or highlight code like Rstudio does, and it crashes on some html files with unicode, so I&#39;m not using it to automate my email reports. 

My current approach is to compile with Rstudio to html, open the html document in chrome, and then copy and paste the html document into gmail. This works pretty well, see this gist: https://gist.github.com/nelsonauner/a68b5a808c232ce7817e


 [![enter image description here][1]][1]


Original question:
========


Is there an easy way to send an R markdown document as the body of an email, so that the body of the email looks similar to the results of using Rstudio&#39;s &quot;Knit HTML&quot; ?  

Here&#39;s a basic reproducible example using `knitr`, `rmarkdown`, and `mailR`
## example.Rmd

    ---
    title: &quot;Report for email&quot;
    output: 
      html_document: 
        self_contained: no
    ---
    
    ```{r}
    summary(cars)  
    ```
    
    You can also embed plots, for example:
    
    ```{r, echo=FALSE}
    plot(cars)
    ```

I&#39;m using `self_contained: no` since the default base64 encoding does not work with `mailR` (recommended by Yihui in [this SO post](https://stackoverflow.com/questions/32520928/in-r-is-there-any-way-to-send-an-rmarkdown-v2-html-file-as-the-body-of-an-email))


## knit_and_send.R
    # compile using rmarkdown
    library(rmarkdown)
    rmarkdown::render(&quot;example.Rmd&quot;)
    
    library(mailR)
    
    send.mail(from = &quot;me@gmail.com&quot;,
              to = &quot;me@gmail.com&quot;,
              subject = &quot;R Markdown Report - rmarkdown&quot;,
              html = T,
              inline = T,
              body = &quot;example.html&quot;,
              smtp = list(host.name = &quot;smtp.gmail.com&quot;, port = 465, user.name = &quot;me&quot;, passwd = &quot;password&quot;, ssl = T),
              authenticate = T,
              send = T)

    #compile using knitr
    library(knitr)
    knit2html(&quot;example.Rmd&quot;,options=&quot;&quot;)
    
    send.mail(from = &quot;me@gmail.com&quot;,
              to = &quot;me@gmail.com&quot;,
              subject = &quot;R Markdown Report - knitr&quot;,
              html = T,
              inline = T,
              body = &quot;example.html&quot;,
              smtp = list(host.name = &quot;smtp.gmail.com&quot;, port = 465, user.name = &quot;me&quot;, passwd = &quot;password&quot;, ssl = T),
              authenticate = T,
              send = T)


Both emails send successfully. 

The knitted email looks like this: 


-----

[![knitted and emailed report][2]][2]

-----

and the rmarkdown email looks like this. (Notice that it also includes a bunch of javascript files--I think I&#39;d have to write some scripts to remove them)

-------

[![enter image description here][3]][3]

----------

But neither of them look as nice as the report that is produced from Rstudio&#39;s &quot;Knit as HTML&quot;, which looks like this: 

[![enter image description here][4]][4]



Any suggestions? 


I think a true fix might involve some postprocessing of the html file that incorporate the css styling in an email-friendly way while removing the javascript files. 

For now, I&#39;ll use the `knitr` package. 

Please let me know if something isn&#39;t clear and I&#39;ll improve the question. 


Relevant SO posts: 

https://stackoverflow.com/questions/32520928/in-r-is-there-any-way-to-send-an-rmarkdown-v2-html-file-as-the-body-of-an-email

https://stackoverflow.com/questions/24346856/mailr-how-to-send-rmarkdown-documents-as-body-in-email


  [1]: http://i.stack.imgur.com/YNuCw.png
  [2]: http://i.stack.imgur.com/83khP.png
  [3]: http://i.stack.imgur.com/avVaD.png
  [4]: http://i.stack.imgur.com/3eGNm.png

How to send R markdown report in body of email?

I am quite new to R.  

Using the table called `SE_CSVLinelist_clean`, I want to extract the rows where the Variable called `where_case_travelled_1` DOES NOT contain the strings `&quot;Outside Canada&quot;` OR `&quot;Outside province/territory of residence but within Canada&quot;`.  Then create a new table called `SE_CSVLinelist_filtered`.

    SE_CSVLinelist_filtered &lt;- filter(SE_CSVLinelist_clean, 
    where_case_travelled_1 %in% -c(&#39;Outside Canada&#39;,&#39;Outside province/territory of residence but within Canada&#39;))

The code above works when I just use &quot;c&quot; and not &quot;-c&quot;.  
So, how do I specify the above when I really want to exclude rows that contains that outside of the country or province?



How to specify &quot;does not contain&quot; in dplyr filter

Once upon a time, I changed my `ggplot2` font using `windowsFonts(Times=windowsFont(&quot;TT Times New Roman&quot;))`. Now, I can&#39;t get it off of this.

In trying to set `family=&quot;&quot;` in `ggplot2` `theme()`, I can&#39;t seem to generate a change in fonts as I compile the MWE below with different font families.

    library(ggplot2)
    library(extrafont)
    loadfonts(device = &quot;win&quot;)
    
    a &lt;- ggplot(mtcars, aes(x=wt, y=mpg)) + geom_point() +
    		ggtitle(&quot;Fuel Efficiency of 32 Cars&quot;) +
    		xlab(&quot;Weight (x1000 lb)&quot;) + ylab(&quot;Miles per Gallon&quot;) +
    		theme(text=element_text(size=16, 
    #		family=&quot;Comic Sans MS&quot;))
    #		family=&quot;CM Roman&quot;))
    #		family=&quot;TT Times New Roman&quot;))
    #		family=&quot;Sans&quot;))
    		family=&quot;Serif&quot;))
    
    
    print(a)
    print(&quot;Graph should have refreshed&quot;)

R is returning a warning `font family not found in Windows font database`, but there was a tutorial I was following (if I can find it again I will update the link here) that said this was normal and not a problem.  Also, somehow this worked at one point because my graph once used some arial or helvitica type font.  I think this has always been a present warning even during the initial times migration.

UPDATE

when I run `windowsFonts()` my output is

&gt; $serif [1] &quot;TT Times New Roman&quot;
&gt; 
&gt; $sans [1] &quot;TT Arial&quot;
&gt; 
&gt; $mono [1] &quot;TT Courier New&quot;

But, this is after I ran `font_import()` so I can only conclude that my fonts are not being saved in the right place.  The code that ran the `font_import()` request actually loads the libraries with:

    LocalLibraryLocation &lt;- paste0(&quot;C:\\Users\\&quot;,Sys.getenv(&quot;USERNAME&quot;),&quot;\\Documents&quot;,&quot;\\R\\win-library\\3.2&quot;);
    	.libPaths(c(LocalLibraryLocation, .libPaths()))

Changing fonts in ggplot2

### TL;DR ###
What are the (possibly unwanted) side-effects of using `knit()`/`knit2pdf()` instead of the &quot;Compile PDF&quot;&lt;sup&gt;1&lt;/sup&gt; button in RStudio?

## Motivation ##

Most users of `knitr` seem to write their documents in RStudio and compile the documents using the &quot;Compile PDF&quot; / &quot;Knit HTML&quot; button. This works smoothly most of the time, but every once a while there are special requirements that cannot be achieved using the compile button. In these cases, the solution is usually to call `knit()`/`knit2pdf()`/`rmarkdown::render()` (or similar functions) directly.

 Some examples:

 - [How to knit/Sweave to a different file name?](https://stackoverflow.com/questions/21883761/how-to-knit-sweave-to-a-different-file-name)
 - [Is there a way to knitr markdown straight out of your workspace using RStudio?](https://stackoverflow.com/questions/11155182/is-there-a-way-to-knitr-markdown-straight-out-of-your-workspace-using-rstudio?lq=1)
 - [Insert date in filename while knitting document using RStudio Knit button](https://stackoverflow.com/questions/32377291/insert-date-in-filename-while-knitting-document-using-rstudio-knit-button)
 
Using `knit2pdf()` instead of the &quot;Compile PDF&quot; button usually offers a simple solution to such questions. However, this comes at a price: There is the fundamental difference that &quot;Compile PDF&quot; processes the document [in a separate process and environment](https://support.rstudio.com/hc/en-us/articles/200552056-Using-Sweave-and-knitr) whereas `knit2pdf()` and friends don&#39;t. 
 
*This has implications and the problem is that not all of these implications are obvious.* Take the fact that `knit()` uses objects from the global environment (whereas &quot;Compile PDF&quot; does not) as an example. This might be obvious and the desired behavior in cases like the second example above, but it is an *unexpected consequence* when `knit()` is used to overcome problems like in example 1 and 3. 
 
 Moreover, there are more subtle differences:

  - The [working directory](https://stackoverflow.com/questions/33555002/difference-between-compile-pdf-and-knit2pdf) might not be set as expected. 
  - [Packages need to be loaded](https://stackoverflow.com/questions/31856298/function-is-not-found-in-knitr).
  - Some options that are usually set by RStudio may have [unexpected values](https://stackoverflow.com/questions/33969024/knitr-gives-error-message).

## The Question and it&#39;s goal ##
Whenever I read/write the advice to use `knit2pdf()` instead of &quot;Compile PDF&quot;, I think *&quot;correct, but the user should understand the consequences …&quot;*. 

Therefore, the question here is:

&gt; What are the (possibly unwanted) side-effects of using `knit()`/`knit2pdf()` instead of the &quot;Compile PDF&quot; button in RStudio?

If there was a comprehensive (community wiki?) answer to this question, it could be linked in future answers that suggest using `knit2pdf()`.

## Related Questions ##

There are dozens of related questions to this one. However, they either propose only code to (more or less) reproduce the behavior of the RStudio button or they explain what &quot;basically&quot; happens without mentioning the possible pitfalls. Others look like being very similar questions but turn out to be a (very) special case of it. Some examples:

  - [Knit2html not replicating functionality of Knit HTML button in R Studio](https://stackoverflow.com/questions/11275255/knit2html-not-replicating-functionality-of-knit-html-button-in-r-studio?lq=1): Caching issue.
  - [HTML outputs are different between using knitr in Rstudio &amp; knit2html in command line](https://stackoverflow.com/questions/25576095/html-outputs-are-different-between-using-knitr-in-rstudio-knit2html-in-command): Markdown versions.
  - [How to convert R Markdown to HTML? I.e., What does “Knit HTML” do in Rstudio 0.96?](https://stackoverflow.com/questions/10646665/how-to-convert-r-markdown-to-html-i-e-what-does-knit-html-do-in-rstudio-0-9): Rather superficial answer by Yihui (explains what &quot;basically&quot; happens) and some options how to reproduce the behavior of the RStudio button. Neither the [suggested](https://stackoverflow.com/a/10654295/2706569) `Sys.sleep(30)` nor [the &quot;Compile PDF&quot; log](https://stackoverflow.com/a/17515963/2706569) are insightful (both hints point to the same thing).
  - [What does “Knit HTML” do in Rstudio 0.98?](https://stackoverflow.com/questions/27881289/what-does-knit-html-do-in-rstudio-0-98): Reproduce behavior of button.
  
## About the answer ##

I think this question raised many of the issues that should be part of an answer. However, there might be many more aspects I don&#39;t know about which is the reason why I am reluctant to self-answer this question (though I might try if nobody answers).

 Probably, an answer should cover three main points:

  - The new session vs. current session issue (global options, working directory, loaded packages, …).
  - A consequence of the first point: The fact that `knit()` uses objects from the calling environment (default: `envir = parent.frame()`) and implications for reproducibility. I tried to tackle the issue of preventing `knit()` from using objects from outside the document in [this answer](https://stackoverflow.com/a/34017805/2706569) (second bullet point).
  - Things RStudio secretly does …
     - … when starting an interactive session ([example](https://stackoverflow.com/a/33970452/2706569)) --&gt; Not available when hitting &quot;Compile PDF&quot;
     - … when hitting &quot;Compile PDF&quot; (anything special besides the new session with the working directory set to the file processed?)


I am not sure about the right perspective on the issue. I think both, &quot;What happens when I hit &#39;Compile PDF&#39; + implications&quot; as well as &quot;What happens when I use `knit()` + implications&quot; is a good approach to tackle the question. 


----------
&lt;sup&gt;&lt;sup&gt;1&lt;/sup&gt; The same applies to the &quot;Knit HTML&quot; button when writing RMD documents.&lt;/sup&gt;

Difference: &quot;Compile PDF&quot; button in RStudio vs. knit() and knit2pdf()

I&#39;m trying to cross-reference figures and tables in a PDF produced with knitr/rmarkdown. There are some questions on SO and tex.stackexchange ([here](https://tex.stackexchange.com/a/296010/4762) and [here](https://stackoverflow.com/questions/31064353/how-to-make-a-figure-caption-in-rmarkdown/31071430#31071430), for example), that suggest the way to do this inline is to add `\ref{fig:my_fig}`, where `my_fig` is the chunk label. However, when I try that in my `rmarkdown` document, I get `??` where the figure number should be. I&#39;d like to find out how to get cross-referencing to work properly.  

A reproducible example is below. There are two files: the `rmarkdown` file plus a `header.tex` file that I&#39;ve included just in case it affects the answer (though I have the same problem whether I include the `header.tex` file or not).

In the `rmarkdown` file there are three cross-reference examples. Example 1 is a figure for which cross-referencing fails (`??` is displayed instead of the figure number). There&#39;s also a second, commented-out attempt (based on [this SO answer](https://tex.stackexchange.com/a/296010/4762)), where I try setting the figure environment, label, and caption with `latex` markup before and after the chunk, but this results in a `pandoc` error when I try to knit the document. The error is:

&gt;     ! Missing $ inserted.
&gt;     &lt;inserted text&gt; 
&gt;                     $
&gt;     l.108 ![](testCrossRef_

Example 2 uses `xtable` and cross-referencing works. Example 3 uses `kable` and cross-referencing fails.

A screenshot of the PDF output is included at the bottom of this post. 

### `rmarkdown` file

    ---
    title: | 
      | My Title  
    author: | 
      | eipi10  
      | Department of Redundancy Department  
    date: &quot;`r format(Sys.time(), &#39;%B %e, %Y&#39;)`&quot;
    output: 
      pdf_document:
        fig_caption: yes
        includes:
          in_header: header.tex
        keep_tex: yes
    fontsize: 11pt
    geometry: margin=1in
    graphics: yes
    ---
    
    ```{r setup, include=FALSE}
    knitr::opts_chunk$set(echo = FALSE, message=FALSE, warning=FALSE, fig.height=2, fig.width=4)
    ```
    
    # Example 1. Figure
    
    This is a report. Take a look at Figure \ref{fig:fig1}.  
    
    ```{r fig1, echo=FALSE, fig.cap=&quot;This is a caption&quot;}
    plot(mtcars$wt, mtcars$mpg)
    ```
    
    &lt;!-- Now, let&#39;s take a look at this other plot in Figure \ref{fig:fig2}. --&gt;
    
    &lt;!-- \begin{figure} --&gt;
    &lt;!-- ```{r fig2, echo=FALSE} --&gt;
    &lt;!-- plot(mtcars$cyl, mtcars$mpg) --&gt;
    &lt;!-- ``` --&gt;
    &lt;!-- \caption{This is another caption} --&gt;
    &lt;!-- \label{fig:fig2} --&gt;
    &lt;!-- \end{figure} --&gt;
    
    # Example 2: `xtable`
    
    Some more text. See Table \ref{tab:tab1} below. 
    
    ```{r echo=FALSE, results=&quot;asis&quot;}
    library(xtable)
    print.xtable(
      xtable(mtcars[1:3,1:4], label=&quot;tab:tab1&quot;, caption=&quot;An xtable table&quot;), 
      comment=FALSE)
    ```
    
    # Example 3: `kable`
    
    Some more text. See Table \ref{tab:tab2} below. 
    
    ```{r tab2, echo=FALSE}
    library(knitr)
    kable(mtcars[1:3,1:4], caption=&quot;A `kable` table&quot;)
    ```

### `header.tex` file

    % Caption on top
    % https://tex.stackexchange.com/a/14862/4762
    \usepackage{floatrow}
    \floatsetup[figure]{capposition=top}
    \floatsetup[table]{capposition=top}

### PDF output

[![enter image description here][1]][1]


  [1]: http://i.stack.imgur.com/bIhhT.png

knitr/rmarkdown/Latex: How to cross-reference figures and tables?

I am operating matrices with R 3.1 and RStudio 0.99.

I have my R Script and with cmd+enter it works without problem. 

I created an Rmd for reporting but I have this error

    Error in lazyLoadDBinsertVariable(vars[i], from, datafile, ascii, compress,  : 
      long vectors not supported yet: ../../../../R-3.3.1/src/main/connections.c:5600
    Calls: &lt;Anonymous&gt; ... &lt;Anonymous&gt; -&gt; &lt;Anonymous&gt; -&gt; lazyLoadDBinsertVariable
    Execution halted

Is there a way to bypass that error?

This seems to be a dupicate of https://stackoverflow.com/questions/24335692/large-matrices-in-r-long-vectors-not-supported-yet

but the difference is that this only happens when trying to create an Rmd, not in any other case


Content Type	Original Author	Original Content on Stackoverflow
Question	Locksmith	View Question on Stackoverflow
Solution 1 - R	scoa	View Answer on Stackoverflow
Solution 2 - R	Ramin Ar	View Answer on Stackoverflow
Solution 3 - R	John James	View Answer on Stackoverflow

install.packages fails in knitr document: "trying to use CRAN without setting a mirror"

R Problem Overview

R Solutions

Solution 1 - R

Solution 2 - R

Solution 3 - R

How to choose the Redux state shape for an app with list/detail views and pagination?

What is the point of naming queries and mutations in GraphQL?

Attributions