I have a Ubuntu server with an R installation that has 384 packages installed.
We are trying to replicate the system on a Red Hat Enterprise server. I
downloaded the list of packages from the Ubuntu machine and read it into an R
session on the new machine. Then I ran install.packages(listofpackages). Now I
have 352 packages on the new machine but several very common packages (like
much of the tidyverse, ggplot2, Hmisc) failed to install because of missing
dependencies (most of which are the other packages that failed to install).
R version 3.4.0 (2017-04-21)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: Red Hat Enterprise Linux Server 7.2 (Maipo)
Matrix products: default
BLAS/LAPACK: /usr/lib64/R/lib/libRblas.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] 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
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] dplyr_0.7.0 shiny_1.0.3
loaded via a namespace (and not attached):
[1] compiler_3.4.0 magrittr_1.5 assertthat_0.2.0 R6_2.2.2
[5] htmltools_0.3.6 tools_3.4.0 glue_1.1.1 tibble_1.3.3
[9] Rcpp_0.12.11 digest_0.6.12 xtable_1.8-2 httpuv_1.3.3
[13] mime_0.5 rlang_0.1.1
>
If I try and install Hmisc for example I get the following errors:
for the first error ERROR: 'configure' exists but is not executable -- see the
'R Installation and dministration Manual' I did not find the R Installation
and Administration Manual helpful.
> install.packages("Hmisc")
Installing package into '/usr/lib64/R/library'
(as 'lib' is unspecified)
also installing the dependencies 'stringi', 'evaluate', 'reshape2', 'stringr',
knitr', 'ggplot2', 'htmlTable', 'viridis'
trying URL 'https://cloud.r-project.org/src/contrib/stringi_1.1.5.tar.gz'
Content type 'application/x-gzip' length 3645872 bytes (3.5 MB)
==================================================
downloaded 3.5 MB
trying URL 'https://cloud.r-project.org/src/contrib/evaluate_0.10.tar.gz'
Content type 'application/x-gzip' length 21914 bytes (21 KB)
==================================================
downloaded 21 KB
trying URL 'https://cloud.r-project.org/src/contrib/reshape2_1.4.2.tar.gz'
Content type 'application/x-gzip' length 34688 bytes (33 KB)
==================================================
downloaded 33 KB
trying URL 'https://cloud.r-project.org/src/contrib/stringr_1.2.0.tar.gz'
Content type 'application/x-gzip' length 94095 bytes (91 KB)
==================================================
downloaded 91 KB
trying URL 'https://cloud.r-project.org/src/contrib/knitr_1.16.tar.gz'
Content type 'application/x-gzip' length 1031259 bytes (1007 KB)
==================================================
downloaded 1007 KB
trying URL 'https://cloud.r-project.org/src/contrib/ggplot2_2.2.1.tar.gz'
Content type 'application/x-gzip' length 2213308 bytes (2.1 MB)
==================================================
downloaded 2.1 MB
trying URL 'https://cloud.r-project.org/src/contrib/htmlTable_1.9.tar.gz'
Content type 'application/x-gzip' length 152095 bytes (148 KB)
==================================================
downloaded 148 KB
trying URL 'https://cloud.r-project.org/src/contrib/viridis_0.4.0.tar.gz'
Content type 'application/x-gzip' length 1787731 bytes (1.7 MB)
==================================================
downloaded 1.7 MB
trying URL 'https://cloud.r-project.org/src/contrib/Hmisc_4.0-3.tar.gz'
Content type 'application/x-gzip' length 702759 bytes (686 KB)
==================================================
downloaded 686 KB
* installing *source* package 'stringi' ...
** package 'stringi' successfully unpacked and MD5 sums checked
ERROR: 'configure' exists but is not executable -- see the 'R Installation and
dministration Manual'
* removing '/usr/lib64/R/library/stringi'
ERROR: dependency 'stringi' is not available for package 'stringr'
* removing '/usr/lib64/R/library/stringr'
ERROR: dependency 'stringr' is not available for package 'evaluate'
* removing '/usr/lib64/R/library/evaluate'
ERROR: dependency 'stringr' is not available for package 'reshape2'
* removing '/usr/lib64/R/library/reshape2'
ERROR: dependencies 'evaluate', 'stringr' are not available for package 'knitr'
* removing '/usr/lib64/R/library/knitr'
ERROR: dependency 'reshape2' is not available for package 'ggplot2'
* removing '/usr/lib64/R/library/ggplot2'
ERROR: dependencies 'stringr', 'knitr' are not available for package 'htmlTable
* removing '/usr/lib64/R/library/htmlTable'
ERROR: dependency 'ggplot2' is not available for package 'viridis'
* removing '/usr/lib64/R/library/viridis'
ERROR: dependencies 'ggplot2', 'htmlTable', 'viridis' are not available for
pacage 'Hmisc'
* removing '/usr/lib64/R/library/Hmisc'
Any help is appreciated.
--
W. Michael Conklin
Executive Vice President
Marketing & Data Sciences - North America
GfK | 8401 Golden Valley Road | Minneapolis | MN | 55427
mike.conk...@gfk.com<mailto:mike.conk...@gfk.com>
T +1 763 417 4545 | M +1 612 567 8287
www.gfk.com<http://www.gfk.com/>
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