Installing leaflet package failed

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Joga Rao

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Jul 1, 2015, 10:54:37 PM7/1/15

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When I try to install leaflet package as advised using the following command

devtools::install_github("rstudio/leaflet") is failing.

Attached is the complete install log and my sessionInfo.

Any help in resolving this will be highly appreciated

Regards

Joga

install_leaflet_errors.txt

Yihui Xie

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Jul 2, 2015, 2:16:19 AM7/2/15

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Hmm. The error message said sp was not found (hence raster could not
be installed, then leaflet failed), but apparently you successfully
loaded it into R. It sounds like a devtools problem? Have you tried to
just install.packages('leaflet') from CRAN?

Regards,
Yihui

Joga Rao

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Jul 2, 2015, 3:11:25 AM7/2/15

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Thanks Yihui

I have tried that as well but no luck.

Attached is the log with errors ( for some reason I could not attach as text file , hence I pasted below)

Your help is very much appreciated.

Kind regards

Joga

################

Rinstall.packages('leaflet')

Installing package into ‘/home/rstudio-server/R/x86_64-redhat-linux-gnu-library/3.1’

(as ‘lib’ is unspecified)

also installing the dependency ‘raster’

trying URL 'http://cran.ms.unimelb.edu.au/src/contrib/raster_2.3-40.tar.gz'

Content type 'application/x-gzip' length 1022598 bytes (998 KB)

opened URL

==================================================

downloaded 998 KB

trying URL 'http://cran.ms.unimelb.edu.au/src/contrib/leaflet_1.0.0.tar.gz'

Content type 'application/x-gzip' length 401681 bytes (392 KB)

opened URL

==================================================

downloaded 392 KB

Loading required package: MASS

Loading required package: grDevices

Loading required package: graphics

Loading required package: stats

Loading required package: utils

* installing *source* package ‘raster’ ...

** package ‘raster’ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c aggregate.c -o aggregate.o

gcc -m64 -std=gnu99 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o raster.so aggregate.o aggregate_get.o broom.o clamp.o direction.o dist_util.o distance.o edge.o focal_fun.o focal_get.o focal_sum.o intersect.o layerize.o minmax.o mode.o pointinpoly.o rasterize.o reclass.o solar.o terrain.o util.o wirth.o -L/usr/lib64/R/lib -lR

installing to /home/rstudio-server/R/x86_64-redhat-linux-gnu-library/3.1/raster/libs

** R

** inst

** byte-compile and prepare package for lazy loading

Creating a generic function for ‘aggregate’ from package ‘stats’ in package ‘raster’

Creating a generic function for ‘as.array’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘as.matrix’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘as.vector’ from package ‘base’ in package ‘raster’

in method for ‘brick’ with signature ‘x="big.matrix"’: no definition for class “big.matrix”

in method for ‘brick’ with signature ‘x="kasc"’: no definition for class “kasc”

in method for ‘brick’ with signature ‘x="grf"’: no definition for class “grf”

in method for ‘coerce’ with signature ‘"STFDF","RasterBrick"’: no definition for class “STFDF”

in method for ‘coerce’ with signature ‘"STSDF","RasterBrick"’: no definition for class “STSDF”

in method for ‘coerce’ with signature ‘"asc","RasterLayer"’: no definition for class “asc”

in method for ‘coerce’ with signature ‘"RasterLayer","asc"’: no definition for class “asc”

in method for ‘coerce’ with signature ‘"kasc","RasterBrick"’: no definition for class “kasc”

in method for ‘coerce’ with signature ‘"kasc","RasterStack"’: no definition for class “kasc”

in method for ‘coerce’ with signature ‘"kde","RasterLayer"’: no definition for class “kde”

in method for ‘coerce’ with signature ‘"grf","RasterBrick"’: no definition for class “grf”

in method for ‘coerce’ with signature ‘"grf","RasterLayer"’: no definition for class “grf”

Creating a generic function for ‘nrow’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘ncol’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘hist’ from package ‘graphics’ in package ‘raster’

Creating a generic function for ‘mean’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘labels’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘print’ from package ‘base’ in package ‘raster’

Creating a generic function for ‘quantile’ from package ‘stats’ in package ‘raster’

in method for ‘raster’ with signature ‘x="big.matrix"’: no definition for class “big.matrix”

in method for ‘raster’ with signature ‘x="kasc"’: no definition for class “kasc”

in method for ‘raster’ with signature ‘x="asc"’: no definition for class “asc”

in method for ‘raster’ with signature ‘x="kde"’: no definition for class “kde”

in method for ‘raster’ with signature ‘x="grf"’: no definition for class “grf”

Creating a generic function for ‘scale’ from package ‘base’ in package ‘raster’

in method for ‘stack’ with signature ‘x="kasc"’: no definition for class “kasc”

** help

*** installing help indices

converting help for package ‘raster’

finding HTML links ... done

Arith-methods html

Compare-methods html

Extent-class html

KML html

Logic-methods html

Math-methods html

NAvalue html

RGB html

Raster-classes html

Summary-methods html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/Summary-methods.Rd:22: missing file link ‘maxValue’

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/Summary-methods.Rd:22: missing file link ‘minValue’

addLayer html

adjacent html

aggregate html

alignExtent html

animate html

approxNA html

area html

as.data.frame html

as.logical-methods html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/as.logical-methods.Rd:14: missing file link ‘as.logical’

as.matrix html

as.raster html

atan2 html

autocor html

bands html

barplot html

bind html

blockSize html

boundaries html

boxplot html

brick html

buffer html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/buffer.Rd:35: missing file link ‘pointDistance’

calc html

cellFrom html

cellStats html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/cellStats.Rd:37: missing file link ‘minValue’

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/cellStats.Rd:37: missing file link ‘maxValue’

cellsFromExtent html

clamp html

clearValues html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/clearValues.Rd:21: missing file link ‘values’

click html

clump html

cluster html

compare html

compareCRS html

contour html

coordinates html

corLocal html

cover html

crop html

crosstab html

cut html

cv html

dataType html

datasource html

density html

dimensions html

direction html

disaggregate html

distance html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/distance.Rd:31: missing file link ‘pointDistance’

distanceFromPoints html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/distanceFromPoints.Rd:27: missing file link ‘pointDistance’

draw html

drawExtent html

erase html

extend html

extension html

extent html

extract html

finding level-2 HTML links ... done

extractIndex html

extremeValues html

factor html

filename html

filledContour html

flip html

flowpath html

focal html

focalWeight html

freq html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/freq.Rd:23: missing file link ‘round’

gainoffset html

getData html

getValues html

getValuesBlock html

getValuesFocal html

gridDistance html

hdrFiles html

headtail html

hillShade html

hist html

image html

iniFile html

init html

interpolate html

intersect html

isLonLat html

layerStats html

layerize html

localFun html

mask html

match html

merge html

metadata html

modal html

mosaic html

movingFun html

names html

ncell html

nlayers html

origin html

overlay html

pairs html

persp html

plot html

plotRGB html

pointdistance html

predict html

programming html

projectRaster html

projection html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/projection.Rd:31: missing file link ‘CRS’

properties html

quantile html

raster-package html

raster html

rasterFromCells html

rasterFromXYZ html

rasterOptions html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/rasterOptions.Rd:40: missing file link ‘canProcessInMemory’

rasterTmpFile html

rasterToContour html

rasterToPoints html

rasterToPolygons html

rasterize html

readAll html

reclassify html

rectify html

replacement html

resample html

resolution html

rotate html

rotated html

round html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/round.Rd:44: missing file link ‘round’

roundExtent html

rowFromCell html

sampleInt html

sampleRandom html

sampleRegular html

sampleStratified html

saveStack html

scale html

scalebar html

select html

setExtent html

setMinMax html

setValues html

shapefile html

shift html

slopeAspect html

spEasy html

spplot html

stack html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/stack.Rd:49: missing file link ‘dropLayer’

stackApply html

stackSelect html

strech html

subset html

Rd warning: /tmp/Rtmp9SwboQ/R.INSTALL62673f8fa8dd/raster/man/subset.Rd:34: missing file link ‘dropLayer’

substitute html

summary html

symdif html

terrain html

text html

transpose html

trim html

union html

unique html

unstack html

update html

validCell html

validNames html

weighted.mean html

which html

which.minmax html

writeFormats html

writeRaster html

writeValues html

xyFromCell html

zApply html

zonal html

zoom html

zvalues html

** building package indices

** installing vignettes

** testing if installed package can be loaded

Loading required package: MASS

Loading required package: grDevices

Loading required package: graphics

Loading required package: stats

Loading required package: utils

Error : package ‘sp’ required by ‘raster’ could not be found

Error: loading failed

Execution halted

ERROR: loading failed

* removing ‘/home/rstudio-server/R/x86_64-redhat-linux-gnu-library/3.1/raster’

Warning in install.packages :

installation of package ‘raster’ had non-zero exit status

Loading required package: MASS

Loading required package: grDevices

Loading required package: graphics

Loading required package: stats

Loading required package: utils

ERROR: dependency ‘raster’ is not available for package ‘leaflet’

* removing ‘/home/rstudio-server/R/x86_64-redhat-linux-gnu-library/3.1/leaflet’

Warning in install.packages :

installation of package ‘leaflet’ had non-zero exit status

The downloaded source packages are in

‘/tmp/Rtmpcab8bE/downloaded_packages’

R> sessionInfo()

R version 3.1.3 (2015-03-09)

Platform: x86_64-redhat-linux-gnu (64-bit)

Running under: CentOS Linux 7 (Core)

locale:

[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8

[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C

[9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:

[1] datasets utils stats graphics grDevices methods base

other attached packages:

[1] sp_1.1-1 DT_0.0.38 httr_1.0.0 devtools_1.7.0 RJDBC_0.2-5 rJava_0.9-6 DBI_0.3.1 MASS_7.3-39

loaded via a namespace (and not attached):

[1] digest_0.6.4 grid_3.1.3 htmltools_0.2.6 htmlwidgets_0.3.3 lattice_0.20-30 magrittr_1.5

[7] R6_2.0.1 stringr_0.6.2 tools_3.1.3

########################

Yihui Xie

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Jul 2, 2015, 4:12:07 PM7/2/15

to Joga Rao, shiny-discuss

I'm curious what's wrong with sp. Could you try install.packages('sp')?

Regards,
Yihui

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