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knitr's purl() leads to large vertical spaces (empty lines) in the resulting R script
R script line numbers at error?How can I read command line parameters from an R script?Run R script from command linevertically distribute multiple lines with smart spacingHow to adjust code block line spacing in knitr?executing a script with spaces in the path leading to itSkip all leading empty lines in read.csvLarge space between y-ticks and y-labelHow to make xtable draw the vertical lines by default in a knitr documentEnsuring the same vertical space after a knitrout environment
.everyoneloves__top-leaderboard:empty,.everyoneloves__mid-leaderboard:empty,.everyoneloves__bot-mid-leaderboard:empty margin-bottom:0;
As you can see from purl()ing the following minimal working example, there is a lot of vertical space in the resulting .R script before str(X). The empty chunk also introduces another empty line. Why? If you have various side-by-side plots (through nested chunks, for example), then the vertical space can add up quite a bit (leaving half a page empty in the resulting .R script). In my opinion, one empty line should be the default as vertical space between chunks. I played with tidy and tidy.opts but could not solve this problem. Is this a known issue with knitr or am I just using it in the wrong way?
documentclassarticle
begindocument
<<chunk1>>=
library(mvtnorm)
set.seed(271)
X <- rmvt(1000, df = 3.5)
U <- apply(X, 2, rank) / (nrow(X) + 1)
<<chunk1-fig, eval = FALSE, comment = "">>=
plot(X)
@
<<chunk2-fig, eval = FALSE, comment = "">>=
plot(U)
@
setkeysGinwidth=textwidth
beginfigure[htbp]
centering
<<fig_chunk_1, echo = FALSE, purl = FALSE, fig.width=6, fig.height=6>>=
<<chunk1-fig>>
@
endfigure
<<echo = FALSE, purl = FALSE>>=
@
<<chunk2>>=
str(X)
@
enddocument
r knitr
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
add a comment |
As you can see from purl()ing the following minimal working example, there is a lot of vertical space in the resulting .R script before str(X). The empty chunk also introduces another empty line. Why? If you have various side-by-side plots (through nested chunks, for example), then the vertical space can add up quite a bit (leaving half a page empty in the resulting .R script). In my opinion, one empty line should be the default as vertical space between chunks. I played with tidy and tidy.opts but could not solve this problem. Is this a known issue with knitr or am I just using it in the wrong way?
documentclassarticle
begindocument
<<chunk1>>=
library(mvtnorm)
set.seed(271)
X <- rmvt(1000, df = 3.5)
U <- apply(X, 2, rank) / (nrow(X) + 1)
<<chunk1-fig, eval = FALSE, comment = "">>=
plot(X)
@
<<chunk2-fig, eval = FALSE, comment = "">>=
plot(U)
@
setkeysGinwidth=textwidth
beginfigure[htbp]
centering
<<fig_chunk_1, echo = FALSE, purl = FALSE, fig.width=6, fig.height=6>>=
<<chunk1-fig>>
@
endfigure
<<echo = FALSE, purl = FALSE>>=
@
<<chunk2>>=
str(X)
@
enddocument
r knitr
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
add a comment |
As you can see from purl()ing the following minimal working example, there is a lot of vertical space in the resulting .R script before str(X). The empty chunk also introduces another empty line. Why? If you have various side-by-side plots (through nested chunks, for example), then the vertical space can add up quite a bit (leaving half a page empty in the resulting .R script). In my opinion, one empty line should be the default as vertical space between chunks. I played with tidy and tidy.opts but could not solve this problem. Is this a known issue with knitr or am I just using it in the wrong way?
documentclassarticle
begindocument
<<chunk1>>=
library(mvtnorm)
set.seed(271)
X <- rmvt(1000, df = 3.5)
U <- apply(X, 2, rank) / (nrow(X) + 1)
<<chunk1-fig, eval = FALSE, comment = "">>=
plot(X)
@
<<chunk2-fig, eval = FALSE, comment = "">>=
plot(U)
@
setkeysGinwidth=textwidth
beginfigure[htbp]
centering
<<fig_chunk_1, echo = FALSE, purl = FALSE, fig.width=6, fig.height=6>>=
<<chunk1-fig>>
@
endfigure
<<echo = FALSE, purl = FALSE>>=
@
<<chunk2>>=
str(X)
@
enddocument
r knitr
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
As you can see from purl()ing the following minimal working example, there is a lot of vertical space in the resulting .R script before str(X). The empty chunk also introduces another empty line. Why? If you have various side-by-side plots (through nested chunks, for example), then the vertical space can add up quite a bit (leaving half a page empty in the resulting .R script). In my opinion, one empty line should be the default as vertical space between chunks. I played with tidy and tidy.opts but could not solve this problem. Is this a known issue with knitr or am I just using it in the wrong way?
documentclassarticle
begindocument
<<chunk1>>=
library(mvtnorm)
set.seed(271)
X <- rmvt(1000, df = 3.5)
U <- apply(X, 2, rank) / (nrow(X) + 1)
<<chunk1-fig, eval = FALSE, comment = "">>=
plot(X)
@
<<chunk2-fig, eval = FALSE, comment = "">>=
plot(U)
@
setkeysGinwidth=textwidth
beginfigure[htbp]
centering
<<fig_chunk_1, echo = FALSE, purl = FALSE, fig.width=6, fig.height=6>>=
<<chunk1-fig>>
@
endfigure
<<echo = FALSE, purl = FALSE>>=
@
<<chunk2>>=
str(X)
@
enddocument
r knitr
r knitr
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
asked Mar 26 at 22:08
Marius HofertMarius Hofert
2,8496 gold badges28 silver badges80 bronze badges
2,8496 gold badges28 silver badges80 bronze badges
add a comment |
add a comment |
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