revdep/problems.md
In hadley/lazyeval: Lazy (Non-Standard) Evaluation
atlantistools
Version: 0.4.3
In both
-
checking re-building of vignette outputs ... WARNING
```
Error in re-building vignettes:
...
! File ended while scanning use of \@@BOOKMARK.
\par
l.107 \begin{document}
pandoc: Error producing PDF from TeX source
Error: processing vignette 'model-calibration.Rmd' failed with diagnostics:
pandoc document conversion failed with error 43
Execution halted
```
condformat
Version: 0.6.0
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
>
> test_check("condformat")
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
- Error: condformat2excel generates a file (@test_rendering.R#22) -------------
Please install the xlsx package in order to export to excel
1: condformat2excel(condformat(head(iris, n = rows_to_write)), filename = filename) at testthat/test_rendering.R:22
2: stop("Please install the xlsx package in order to export to excel")
testthat results ================================================================
OK: 53 SKIPPED: 0 FAILED: 1
1. Error: condformat2excel generates a file (@test_rendering.R#22)
Error: testthat unit tests failed
Execution halted
```
-
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
Namespace in Imports field not imported from: ‘utils’
All declared Imports should be used.
cpr
Version: 0.2.3
In both
- checking whether package ‘cpr’ can be installed ... ERROR
Installation failed.
See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/new/cpr.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘cpr’ ...
** package ‘cpr’ successfully unpacked and MD5 sums checked
** libs
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c boehm.cpp -o boehm.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c bsplines.cpp -o bsplines.o
bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable]
double a = 0.0;
^
bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable]
double b = 0.0;
^
2 warnings generated.
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c cpr.cpp -o cpr.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c diag_only.cpp -o diag_only.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c matrix_rank.cpp -o matrix_rank.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c tensors.cpp -o tensors.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [cpr.so] Error 1
ERROR: compilation failed for package ‘cpr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/new/cpr.Rcheck/cpr’
CRAN
* installing *source* package ‘cpr’ ...
** package ‘cpr’ successfully unpacked and MD5 sums checked
** libs
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c boehm.cpp -o boehm.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c bsplines.cpp -o bsplines.o
bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable]
double a = 0.0;
^
bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable]
double b = 0.0;
^
2 warnings generated.
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c cpr.cpp -o cpr.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c diag_only.cpp -o diag_only.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c matrix_rank.cpp -o matrix_rank.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c tensors.cpp -o tensors.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [cpr.so] Error 1
ERROR: compilation failed for package ‘cpr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/old/cpr.Rcheck/cpr’
emil
Version: 2.2.8
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘Rcpp’
All declared Imports should be used.
eyetrackingR
Version: 0.1.6
In both
-
checking examples ... ERROR
```
...
- time_column = "TimeFromTrialOnset",
- trackloss_column = "TrackLoss",
- aoi_columns = c('Animate','Inanimate'),
- treat_non_aoi_looks_as_missing = TRUE )
mutate_each() is deprecated.
Use mutate_all(), mutate_at() or mutate_if() instead.
To map funs over a selection of variables, use mutate_at()
response_window <- subset_by_window(data, window_start_time = 15500, window_end_time = 21000,
- rezero = FALSE)
Avg. window length in new data will be 5500
response_time <- make_time_sequence_data(response_window, time_bin_size = 500, aois = "Animate",
- predictor_columns = "Sex")
time_cluster_data <- make_time_cluster_data(data = response_time, predictor_column = "SexM",
- aoi = "Animate", test = "lmer",
- threshold = 1.5,
- formula = LogitAdjusted ~ Sex + (1|Trial) + (1|ParticipantName))
Error in UseMethod("analyze_time_bins") :
no applicable method for 'analyze_time_bins' applied to an object of class "data.frame"
Calls: make_time_cluster_data ... make_time_cluster_data.time_sequence_data -> do.call ->
Execution halted
```
-
checking tests ...
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
Computing t.test for each time bin...
Computing t.test for each time bin...
`mutate_each()` is deprecated.
Use `mutate_all()`, `mutate_at()` or `mutate_if()` instead.
To map `funs` over a selection of variables, use `mutate_at()`
Avg. window length in new data will be 5500
Performing Trackloss Analysis...
Will exclude trials whose trackloss proportion is greater than : 0.25
...removed 33 trials.
Error in UseMethod("make_time_cluster_data") :
no applicable method for 'make_time_cluster_data' applied to an object of class "data.frame"
Calls: test_check ... source_file -> eval -> eval -> make_time_cluster_data
testthat results ================================================================
OK: 38 SKIPPED: 0 FAILED: 0
Execution halted
flextable
Version: 0.3.0
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘magrittr’
All declared Imports should be used.
foghorn
Version: 0.4.4
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
testthat results ================================================================
OK: 49 SKIPPED: 0 FAILED: 10
- Failure: output of summary cran results (@test-foghorn.R#176)
- Failure: output of summary cran results (@test-foghorn.R#178)
- Failure: output of summary cran results (@test-foghorn.R#189)
- Failure: output of summary cran results (@test-foghorn.R#201)
- Failure: output of summary cran results (@test-foghorn.R#213)
- Failure: output of summary cran results (@test-foghorn.R#226)
- Failure: output of summary cran results (@test-foghorn.R#233)
- Failure: output of summary cran results (@test-foghorn.R#239)
- Failure: output of show cran results (@test-foghorn.R#264)
- Failure: output of show cran results (@test-foghorn.R#266)
Error: testthat unit tests failed
Execution halted
```
gaiah
Version: 0.0.2
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘ggplot2’ ‘maptools’ ‘rgeos’ ‘stringr’ ‘tidyr’
All declared Imports should be used.
GenomicDataCommons
Version: 1.0.5
In both
-
checking R code for possible problems ... NOTE
default_fields.character: no visible binding for global variable
‘defaults’
Undefined global functions or variables:
defaults
-
checking Rd \usage sections ... NOTE
```
S3 methods shown with full name in documentation object 'as.data.frame.GDCResults':
‘as.data.frame.GDCResults’
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
```
geoparser
Version: 0.1.1
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
- Error: no problems if no results (@test_query.R#26) -------------------------
HTTP failure: 401
1: geoparser_q(text_input = "no placename here") at testthat/test_query.R:26
2: lapply(text_input, total, key = key)
3: FUN(X[[i]], ...)
4: geoparser_check(temp)
5: stop("HTTP failure: ", status, call. = FALSE)
testthat results ================================================================
OK: 3 SKIPPED: 0 FAILED: 2
1. Error: query returns a list of data.frames (@test_query.R#4)
2. Error: no problems if no results (@test_query.R#26)
Error: testthat unit tests failed
Execution halted
```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Quitting from lines 34-37 (geoparser.Rmd)
Error: processing vignette 'geoparser.Rmd' failed with diagnostics:
HTTP failure: 401
Execution halted
ggguitar
Version: 0.1.1
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘gridExtra’ ‘lazyeval’ ‘readr’
All declared Imports should be used.
ggplot2
Version: 2.2.1
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘reshape2’
All declared Imports should be used.
ggraptR
Version: 1.0
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
>
> if (Sys.getenv("NOT_CRAN") == "true") { # like global skip_on_cran
- Sys.setenv("R_TESTS" = "") # accroding to https://github.com/hadley/testthat/issues/144
- test_check("ggraptR")
- }
Initial plotError in file(filename, "r", encoding = encoding) :
cannot open the connection
Calls: test_check ... source -> withVisible -> eval -> eval -> source -> file
In addition: Warning message:
In file(filename, "r", encoding = encoding) :
cannot open file '../../inst/ggraptR/functions/helper.R': No such file or directory
testthat results ================================================================
OK: 0 SKIPPED: 0 FAILED: 0
Execution halted
```
-
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘DBI’ ‘GGally’ ‘RColorBrewer’ ‘Rcpp’ ‘assertthat’ ‘backports’
‘colorspace’ ‘colourpicker’ ‘evaluate’ ‘futile.options’ ‘gdtools’
‘gtable’ ‘htmltools’ ‘htmlwidgets’ ‘httpuv’ ‘labeling’ ‘lambda.r’
‘lazyeval’ ‘magrittr’ ‘miniUI’ ‘munsell’ ‘plyr’ ‘reshape’ ‘rprojroot’
‘scales’ ‘stringi’ ‘stringr’ ‘svglite’ ‘tibble’ ‘xtable’ ‘yaml’
All declared Imports should be used.
ggstance
Version: 0.3
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’
All declared Imports should be used.
ggvis
Version: 0.4.3
In both
- checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘plyr’
grattan
Version: 1.5.1.2
In both
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘taxstats’
gutenbergr
Version: 0.1.3
In both
- checking data for non-ASCII characters ... NOTE
Note: found 13617 marked UTF-8 strings
harrietr
Version: 0.2.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘ggplot2’
All declared Imports should be used.
HTSSIP
Version: 1.2.0
In both
- R CMD check timed out
hurricaneexposure
Version: 0.0.1
In both
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘hurricaneexposuredata’
huxtable
Version: 1.0.0
In both
- checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘xtable’
jqr
Version: 1.0.0
In both
- checking whether package ‘jqr’ can be installed ... ERROR
Installation failed.
See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/new/jqr.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘jqr’ ...
** package ‘jqr’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=-I/usr/local/opt/jq/include
Using PKG_LIBS=-L/usr/local/lib -ljq
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libjq was not found.
On Ubuntu 14.04 or 16.04 you can use the PPA:
sudo add-apt-repository -y ppa:opencpu/jq
sudo apt-get update
sudo apt-get install libjq-dev
On other sytems try installing:
* deb: libjq-dev (Debian, Ubuntu 16.10 and up).
* rpm: jq-devel (Fedora, EPEL)
* csw: libjq_dev (Solaris)
* brew: jq (OSX)
If is already installed set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘jqr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/new/jqr.Rcheck/jqr’
CRAN
* installing *source* package ‘jqr’ ...
** package ‘jqr’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=-I/usr/local/opt/jq/include
Using PKG_LIBS=-L/usr/local/lib -ljq
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libjq was not found.
On Ubuntu 14.04 or 16.04 you can use the PPA:
sudo add-apt-repository -y ppa:opencpu/jq
sudo apt-get update
sudo apt-get install libjq-dev
On other sytems try installing:
* deb: libjq-dev (Debian, Ubuntu 16.10 and up).
* rpm: jq-devel (Fedora, EPEL)
* csw: libjq_dev (Solaris)
* brew: jq (OSX)
If is already installed set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘jqr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/old/jqr.Rcheck/jqr’
lidR
Version: 1.3.1
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘Rcpp’ ‘memoise’
All declared Imports should be used.
loopr
Version: 1.0.1
In both
- checking R code for possible problems ... NOTE
amendColumns: no visible global function definition for ‘setNames’
fillColumns: no visible global function definition for ‘setNames’
Undefined global functions or variables:
setNames
Consider adding
importFrom("stats", "setNames")
to your NAMESPACE file.
lplyr
Version: 0.1.6
In both
-
checking examples ... ERROR
```
...
rename(xs, x0 = x1)
$x0
[1] 1 2 3
$x2
[1] 2 3 4 5
$x3
$x3[[1]]
[1] "alpha"
$x3[[2]]
[1] "beta" "gamma"
select(xs, -x3)
Error in select.list(xs, -x3) :
select.list() cannot be used non-interactively
Calls: select -> select.list
Execution halted
```
-
checking re-building of vignette outputs ... WARNING
```
...
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'lplyr'
The following object is masked from 'package:dplyr':
pull
Quitting from lines 22-30 (lplyr-vignette.Rmd)
Error: processing vignette 'lplyr-vignette.Rmd' failed with diagnostics:
select.list() cannot be used non-interactively
Execution halted
```
mapfuser
Version: 0.1.2
In both
-
checking package dependencies ... ERROR
```
Package required but not available: ‘LPmerge’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
```
markmyassignment
Version: 0.6.1
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’
All declared Imports should be used.
mason
Version: 0.2.5
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘ggplot2’, ‘pander’, ‘pixiedust’
metagenomeFeatures
Version: 1.8.1
In both
-
checking installed package size ... NOTE
installed size is 8.7Mb
sub-directories of 1Mb or more:
extdata 6.7Mb
-
checking R code for possible problems ... NOTE
.mgDb_annotateFeatures: no visible binding for global variable
‘db_keys’
.select.taxa: no visible binding for global variable ‘Keys’
.select.taxa: no visible binding for global variable ‘.’
aggregate_taxa: no visible binding for global variable ‘.’
aggregate_taxa: no visible binding for global variable ‘index’
vignette_pheno_data: no visible global function definition for
‘read.csv’
Undefined global functions or variables:
. Keys db_keys index read.csv
Consider adding
importFrom("utils", "read.csv")
to your NAMESPACE file.
modelr
Version: 0.1.1
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘lme4’, ‘rstanarm’
mosaic
Version: 1.1.0
In both
-
checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘manipulate’
-
checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘cubature’
mosaicModel
Version: 0.3.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘MASS’ ‘caret’ ‘ggformula’ ‘knitr’ ‘testthat’ ‘tidyverse’
All declared Imports should be used.
mrgsolve
Version: 0.8.9
In both
- checking whether package ‘mrgsolve’ can be installed ... ERROR
Installation failed.
See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/new/mrgsolve.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘mrgsolve’ ...
** package ‘mrgsolve’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c RcppExports.cpp -o RcppExports.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c dataobject.cpp -o dataobject.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c datarecord.cpp -o datarecord.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c devtran.cpp -o devtran.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c housemodel-mread-source.cpp -o housemodel-mread-source.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve.cpp -o mrgsolve.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve_init.cpp -o mrgsolve_init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odepack_dlsoda.cpp -o odepack_dlsoda.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odeproblem.cpp -o odeproblem.o
gfortran -fPIC -g -O2 -c opk_dlsoda_mrg.f -o opk_dlsoda_mrg.o
gfortran -fPIC -g -O2 -c opkda1_mrg.f -o opkda1_mrg.o
gfortran -fPIC -g -O2 -c opkda2_mrg.f -o opkda2_mrg.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c quick.cpp -o quick.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odepack_dlsoda.o odeproblem.o opk_dlsoda_mrg.o opkda1_mrg.o opkda2_mrg.o quick.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [mrgsolve.so] Error 1
ERROR: compilation failed for package ‘mrgsolve’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/new/mrgsolve.Rcheck/mrgsolve’
CRAN
* installing *source* package ‘mrgsolve’ ...
** package ‘mrgsolve’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c RcppExports.cpp -o RcppExports.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c dataobject.cpp -o dataobject.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c datarecord.cpp -o datarecord.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c devtran.cpp -o devtran.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c housemodel-mread-source.cpp -o housemodel-mread-source.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve.cpp -o mrgsolve.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve_init.cpp -o mrgsolve_init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odepack_dlsoda.cpp -o odepack_dlsoda.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odeproblem.cpp -o odeproblem.o
gfortran -fPIC -g -O2 -c opk_dlsoda_mrg.f -o opk_dlsoda_mrg.o
gfortran -fPIC -g -O2 -c opkda1_mrg.f -o opkda1_mrg.o
gfortran -fPIC -g -O2 -c opkda2_mrg.f -o opkda2_mrg.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c quick.cpp -o quick.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odepack_dlsoda.o odeproblem.o opk_dlsoda_mrg.o opkda1_mrg.o opkda2_mrg.o quick.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [mrgsolve.so] Error 1
ERROR: compilation failed for package ‘mrgsolve’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/old/mrgsolve.Rcheck/mrgsolve’
nonmemica
Version: 0.7.6
In both
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
Quitting from lines 197-201 (parameter-table.Rmd)
Error: processing vignette 'parameter-table.Rmd' failed with diagnostics:
package 'ReporteRsjars' could not be loaded
Execution halted
-
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
observer
Version: 0.1.2
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘ensurer’, ‘validate’
openair
Version: 2.1-5
In both
- checking whether package ‘openair’ can be installed ... ERROR
Installation failed.
See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/new/openair.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘openair’ ...
** package ‘openair’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c cluster.cpp -o cluster.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c init.c -o init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c rolling.cpp -o rolling.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [openair.so] Error 1
ERROR: compilation failed for package ‘openair’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/new/openair.Rcheck/openair’
CRAN
* installing *source* package ‘openair’ ...
** package ‘openair’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c cluster.cpp -o cluster.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c init.c -o init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c rolling.cpp -o rolling.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [openair.so] Error 1
ERROR: compilation failed for package ‘openair’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/old/openair.Rcheck/openair’
parsemsf
Version: 0.1.0
In both
-
checking examples ... ERROR
```
Running examples in ‘parsemsf-Ex.R’ failed
The error most likely occurred in:
Name: make_area_table
Title: Make a table of peptide areas
Aliases: make_area_table
** Examples
make_area_table(parsemsf_example("test_db.msf"))
Error: The dbplyr package is required to communicate with database backends.
Execution halted
```
-
checking tests ...
``
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
10: src_sqlite(msf_file)
11: check_dbplyr()
12: check_pkg("dbplyr", "communicate with database backends", install = FALSE)
13: glubort(NULL, "The {name} package is required to {reason}.", if (install) "\nPlease install it withinstall.packages(\"{name}\")`")
14: .abort(text)
Error: The dbplyr package is required to communicate with database backends.
testthat results ================================================================
OK: 0 SKIPPED: 0 FAILED: 3
1. Error: make_area_table creates a data frame with the correct column names (@test_make_area_table.R#16)
2. Error: make_pep_table creates a data frame with the correct column names (@test_make_pep_table.R#13)
3. Error: map_peptides creates a data frame with the correct column names (@test_map_peptides.R#16)
Error: testthat unit tests failed
Execution halted
```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Quitting from lines 20-25 (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The dbplyr package is required to communicate with database backends.
Execution halted
-
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘RSQLite’
All declared Imports should be used.
PKPDmisc
Version: 2.0.0
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘purrr’
All declared Imports should be used.
purrrlyr
Version: 0.0.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’
All declared Imports should be used.
R6Frame
Version: 0.1.0
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
testthat results ================================================================
OK: 139 SKIPPED: 0 FAILED: 10
- Error: gather works with R6 data.frame (@test-tidyr_reshape.R#11)
- Error: gather works with R6 data.table (@test-tidyr_reshape.R#25)
- Error: gather works with R6 tbl_df (@test-tidyr_reshape.R#38)
- Error: spread works with R6 data.frame (@test-tidyr_reshape.R#52)
- Error: spread works with R6 data.table (@test-tidyr_reshape.R#67)
- Error: spread works with R6 tbl_df (@test-tidyr_reshape.R#81)
- Error: complete works with R6 data.frame (@test-tidyr_verbs.R#13)
- Error: complete works with R6 data.table (@test-tidyr_verbs.R#27)
- Error: complete works with R6 tbl_df (@test-tidyr_verbs.R#41)
- Error: fill works with R6 tbl_df (@test-tidyr_verbs.R#72)
Error: testthat unit tests failed
Execution halted
```
rbokeh
Version: 0.5.0
In both
-
checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘shiny’
-
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘ggplot2’
All declared Imports should be used.
rfishbase
Version: 2.1.2
In both
- checking data for non-ASCII characters ... NOTE
Note: found 44 marked UTF-8 strings
rgho
Version: 1.0.1
In both
-
checking examples ... ERROR
```
Running examples in ‘rgho-Ex.R’ failed
The error most likely occurred in:
Name: get_gho_data
Title: Returns GHO Data
Aliases: get_gho_data
** Examples
result <- get_gho_data(
+ dimension = "GHO",
+ code = "MDG_0000000001"
+ )
Error: parse error: premature EOF
{ "copyright": "(c) World Healt
(right here) ------^
Execution halted
```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Quitting from lines 36-38 (a-intro.Rmd)
Error: processing vignette 'a-intro.Rmd' failed with diagnostics:
parse error: premature EOF
{ "copyright": "(c) World Healt
(right here) ------^
Execution halted
RNeXML
Version: 2.0.7
In both
- checking package dependencies ... NOTE
Packages suggested but not available for checking: ‘rrdf’ ‘Sxslt’
ropenaq
Version: 0.2.2
In both
- R CMD check timed out
rPref
Version: 1.2
In both
- checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
rscorecard
Version: 0.4.0
In both
- checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Quitting from lines 22-29 (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Missing API key; ?sc_key for details
Execution halted
rtimicropem
Version: 1.3
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘R6’
All declared Imports should be used.
sf
Version: 0.5-4
In both
- checking whether package ‘sf’ can be installed ... ERROR
Installation failed.
See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/new/sf.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘sf’ ...
** package ‘sf’ successfully unpacked and MD5 sums checked
configure: CC: clang
configure: CXX: ccache clang++
checking for gdal-config... no
no
configure: error: gdal-config not found or not executable.
ERROR: configuration failed for package ‘sf’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/new/sf.Rcheck/sf’
CRAN
* installing *source* package ‘sf’ ...
** package ‘sf’ successfully unpacked and MD5 sums checked
configure: CC: clang
configure: CXX: ccache clang++
checking for gdal-config... no
no
configure: error: gdal-config not found or not executable.
ERROR: configuration failed for package ‘sf’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/old/sf.Rcheck/sf’
shazam
Version: 0.1.8
In both
- checking data for non-ASCII characters ... NOTE
Note: found 2 marked UTF-8 strings
SpaDES.core
Version: 0.1.0
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/test-all.R’ failed.
Last 13 lines of output:
100 43558 100 43558 0 0 457k 0 --:--:-- --:--:-- --:--:-- 457k
- Error: spelling errors (@test-spelling.R#19) --------------------------------
No suitable spell-checker program found
1: aspell_package_vignettes(pkgDir) at testthat/test-spelling.R:19
2: aspell(character())
3: stop("No suitable spell-checker program found")
testthat results ================================================================
OK: 304 SKIPPED: 2 FAILED: 1
1. Error: spelling errors (@test-spelling.R#19)
Error: testthat unit tests failed
In addition: Warning message:
In fun(libname, pkgname) : couldn't connect to display ""
Execution halted
```
-
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘CircStats’ ‘RandomFields’ ‘grDevices’ ‘sp’
All declared Imports should be used.
sparklyr
Version: 0.6.3
In both
- checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
> library(testthat)
> library(sparklyr)
>
> if (identical(Sys.getenv("NOT_CRAN"), "true")) {
- test_check("sparklyr")
- on.exit({ spark_disconnect_all() ; livy_service_stop() })
- }
Error in validate_java_version_line(master, version) :
Java version detected but couldn't parse version from No Java runtime present, requesting install.
Calls: test_check ... validate_java_version -> validate_java_version_line
In addition: Warning message:
running command ''/usr/bin/java' -version 2>&1' had status 1
testthat results ================================================================
OK: 0 SKIPPED: 0 FAILED: 0
Execution halted
```
statisticalModeling
Version: 0.3.0
In both
-
checking tests ...
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(statisticalModeling)
Loading required package: ggplot2
>
> test_check("statisticalModeling")
Error: gwm() has been removed from `mosaic'.
It will be replaced by better tools in `mosaicModel'.
testthat results ================================================================
OK: 21 SKIPPED: 0 FAILED: 0
Execution halted
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes:
...
Quitting from lines 303-306 (modeling.Rmd)
Error: processing vignette 'modeling.Rmd' failed with diagnostics:
Invalid formula type for gf_point.
Execution halted
-
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘magrittr’ ‘rpart’
All declared Imports should be used.
sweep
Version: 0.2.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘devtools’ ‘lazyeval’ ‘lubridate’ ‘tidyr’
All declared Imports should be used.
tadaatoolbox
Version: 0.13.0
In both
-
checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘rmdformats’
-
checking data for non-ASCII characters ... NOTE
Note: found 3 marked UTF-8 strings
taxa
Version: 0.1.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘knitr’ ‘lazyeval’ ‘rlang’
All declared Imports should be used.
tbl2xts
Version: 0.1.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘PerformanceAnalytics’
All declared Imports should be used.
tidyquant
Version: 0.5.3
In both
-
checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
testthat results ================================================================
OK: 191 SKIPPED: 0 FAILED: 9
1. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
2. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
3. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
4. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
5. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
6. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
7. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
8. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
9. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
Error: testthat unit tests failed
Execution halted
```
-
checking re-building of vignette outputs ... WARNING
```
...
Reason: image not found
Getting data...
Getting holdings for DOW
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
Warning: running command '/usr/libexec/java_home' had status 1
Warning in tq_index("DOW") :
Error at DOW during download.
Error: .onLoad failed in loadNamespace() for 'rJava', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so':
dlopen(/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so, 6): Library not loaded: @rpath/libjvm.dylib
Referenced from: /Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so
Reason: image not found
Quitting from lines 105-108 (TQ03-scaling-and-modeling-with-tidyquant.Rmd)
Error: processing vignette 'TQ03-scaling-and-modeling-with-tidyquant.Rmd' failed with diagnostics:
subscript out of bounds
Execution halted
```
-
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)".
No Java runtime present, try --request to install.
Namespaces in Imports field not imported from:
‘broom’ ‘curl’ ‘devtools’ ‘rvest’ ‘timeSeries’ ‘tseries’ ‘zoo’
All declared Imports should be used.
timetk
Version: 0.1.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘devtools’ ‘forecast’
All declared Imports should be used.
valaddin
Version: 0.1.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘purrr’
All declared Imports should be used.
vqtl
Version: 1.2.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
‘iterators’ ‘knitr’ ‘testthat’
All declared Imports should be used.
hadley/lazyeval documentation built on June 19, 2022, 2:21 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
atlantistools
Version: 0.4.3
In both
-
checking re-building of vignette outputs ... WARNING ``` Error in re-building vignettes: ... ! File ended while scanning use of \@@BOOKMARK. \par l.107 \begin{document}
pandoc: Error producing PDF from TeX source Error: processing vignette 'model-calibration.Rmd' failed with diagnostics: pandoc document conversion failed with error 43 Execution halted ```
condformat
Version: 0.6.0
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: > > test_check("condformat") Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install.
- Error: condformat2excel generates a file (@test_rendering.R#22) ------------- Please install the xlsx package in order to export to excel 1: condformat2excel(condformat(head(iris, n = rows_to_write)), filename = filename) at testthat/test_rendering.R:22 2: stop("Please install the xlsx package in order to export to excel")
testthat results ================================================================ OK: 53 SKIPPED: 0 FAILED: 1 1. Error: condformat2excel generates a file (@test_rendering.R#22)
Error: testthat unit tests failed Execution halted ```
-
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install. Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install. Namespace in Imports field not imported from: ‘utils’ All declared Imports should be used.
cpr
Version: 0.2.3
In both
- checking whether package ‘cpr’ can be installed ... ERROR
Installation failed. See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/new/cpr.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘cpr’ ...
** package ‘cpr’ successfully unpacked and MD5 sums checked
** libs
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c boehm.cpp -o boehm.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c bsplines.cpp -o bsplines.o
bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable]
double a = 0.0;
^
bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable]
double b = 0.0;
^
2 warnings generated.
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c cpr.cpp -o cpr.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c diag_only.cpp -o diag_only.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c matrix_rank.cpp -o matrix_rank.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c tensors.cpp -o tensors.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [cpr.so] Error 1
ERROR: compilation failed for package ‘cpr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/new/cpr.Rcheck/cpr’
CRAN
* installing *source* package ‘cpr’ ...
** package ‘cpr’ successfully unpacked and MD5 sums checked
** libs
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c boehm.cpp -o boehm.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c bsplines.cpp -o bsplines.o
bsplines.cpp:24:10: warning: unused variable 'a' [-Wunused-variable]
double a = 0.0;
^
bsplines.cpp:25:10: warning: unused variable 'b' [-Wunused-variable]
double b = 0.0;
^
2 warnings generated.
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c cpr.cpp -o cpr.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c diag_only.cpp -o diag_only.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c matrix_rank.cpp -o matrix_rank.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -std=gnu++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/cpr/RcppArmadillo/include" -I/usr/local/include -I../inst/include -DARMA_64BIT_WORD -fPIC -Wall -g -O2 -c tensors.cpp -o tensors.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o cpr.so RcppExports.o boehm.o bsplines.o cpr.o diag_only.o matrix_rank.o registerDynamicSymbol.o tensors.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [cpr.so] Error 1
ERROR: compilation failed for package ‘cpr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/cpr/old/cpr.Rcheck/cpr’
emil
Version: 2.2.8
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘Rcpp’ All declared Imports should be used.
eyetrackingR
Version: 0.1.6
In both
-
checking examples ... ERROR ``` ...
- time_column = "TimeFromTrialOnset",
- trackloss_column = "TrackLoss",
- aoi_columns = c('Animate','Inanimate'),
- treat_non_aoi_looks_as_missing = TRUE )
mutate_each()is deprecated. Usemutate_all(),mutate_at()ormutate_if()instead. To mapfunsover a selection of variables, usemutate_at()response_window <- subset_by_window(data, window_start_time = 15500, window_end_time = 21000,
- rezero = FALSE)
Avg. window length in new data will be 5500
response_time <- make_time_sequence_data(response_window, time_bin_size = 500, aois = "Animate",
- predictor_columns = "Sex")
time_cluster_data <- make_time_cluster_data(data = response_time, predictor_column = "SexM",
- aoi = "Animate", test = "lmer",
- threshold = 1.5,
- formula = LogitAdjusted ~ Sex + (1|Trial) + (1|ParticipantName)) Error in UseMethod("analyze_time_bins") : no applicable method for 'analyze_time_bins' applied to an object of class "data.frame" Calls: make_time_cluster_data ... make_time_cluster_data.time_sequence_data -> do.call -> Execution halted ```
-
checking tests ...
ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: Computing t.test for each time bin... Computing t.test for each time bin... `mutate_each()` is deprecated. Use `mutate_all()`, `mutate_at()` or `mutate_if()` instead. To map `funs` over a selection of variables, use `mutate_at()` Avg. window length in new data will be 5500 Performing Trackloss Analysis... Will exclude trials whose trackloss proportion is greater than : 0.25 ...removed 33 trials. Error in UseMethod("make_time_cluster_data") : no applicable method for 'make_time_cluster_data' applied to an object of class "data.frame" Calls: test_check ... source_file -> eval -> eval -> make_time_cluster_data testthat results ================================================================ OK: 38 SKIPPED: 0 FAILED: 0 Execution halted
flextable
Version: 0.3.0
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘magrittr’ All declared Imports should be used.
foghorn
Version: 0.4.4
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: testthat results ================================================================ OK: 49 SKIPPED: 0 FAILED: 10
- Failure: output of summary cran results (@test-foghorn.R#176)
- Failure: output of summary cran results (@test-foghorn.R#178)
- Failure: output of summary cran results (@test-foghorn.R#189)
- Failure: output of summary cran results (@test-foghorn.R#201)
- Failure: output of summary cran results (@test-foghorn.R#213)
- Failure: output of summary cran results (@test-foghorn.R#226)
- Failure: output of summary cran results (@test-foghorn.R#233)
- Failure: output of summary cran results (@test-foghorn.R#239)
- Failure: output of show cran results (@test-foghorn.R#264)
- Failure: output of show cran results (@test-foghorn.R#266)
Error: testthat unit tests failed Execution halted ```
gaiah
Version: 0.0.2
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘ggplot2’ ‘maptools’ ‘rgeos’ ‘stringr’ ‘tidyr’ All declared Imports should be used.
GenomicDataCommons
Version: 1.0.5
In both
-
checking R code for possible problems ... NOTE
default_fields.character: no visible binding for global variable ‘defaults’ Undefined global functions or variables: defaults -
checking Rd \usage sections ... NOTE ``` S3 methods shown with full name in documentation object 'as.data.frame.GDCResults': ‘as.data.frame.GDCResults’
The \usage entries for S3 methods should use the \method markup and not their full name. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. ```
geoparser
Version: 0.1.1
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output:
- Error: no problems if no results (@test_query.R#26) ------------------------- HTTP failure: 401 1: geoparser_q(text_input = "no placename here") at testthat/test_query.R:26 2: lapply(text_input, total, key = key) 3: FUN(X[[i]], ...) 4: geoparser_check(temp) 5: stop("HTTP failure: ", status, call. = FALSE)
testthat results ================================================================ OK: 3 SKIPPED: 0 FAILED: 2 1. Error: query returns a list of data.frames (@test_query.R#4) 2. Error: no problems if no results (@test_query.R#26)
Error: testthat unit tests failed Execution halted ```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Quitting from lines 34-37 (geoparser.Rmd) Error: processing vignette 'geoparser.Rmd' failed with diagnostics: HTTP failure: 401 Execution halted
ggguitar
Version: 0.1.1
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘gridExtra’ ‘lazyeval’ ‘readr’ All declared Imports should be used.
ggplot2
Version: 2.2.1
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘reshape2’ All declared Imports should be used.
ggraptR
Version: 1.0
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: > > if (Sys.getenv("NOT_CRAN") == "true") { # like global skip_on_cran
- Sys.setenv("R_TESTS" = "") # accroding to https://github.com/hadley/testthat/issues/144
- test_check("ggraptR")
- }
Initial plotError in file(filename, "r", encoding = encoding) : cannot open the connection Calls: test_check ... source -> withVisible -> eval -> eval -> source -> file In addition: Warning message: In file(filename, "r", encoding = encoding) : cannot open file '../../inst/ggraptR/functions/helper.R': No such file or directory testthat results ================================================================ OK: 0 SKIPPED: 0 FAILED: 0 Execution halted ```
-
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘DBI’ ‘GGally’ ‘RColorBrewer’ ‘Rcpp’ ‘assertthat’ ‘backports’ ‘colorspace’ ‘colourpicker’ ‘evaluate’ ‘futile.options’ ‘gdtools’ ‘gtable’ ‘htmltools’ ‘htmlwidgets’ ‘httpuv’ ‘labeling’ ‘lambda.r’ ‘lazyeval’ ‘magrittr’ ‘miniUI’ ‘munsell’ ‘plyr’ ‘reshape’ ‘rprojroot’ ‘scales’ ‘stringi’ ‘stringr’ ‘svglite’ ‘tibble’ ‘xtable’ ‘yaml’ All declared Imports should be used.
ggstance
Version: 0.3
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’ All declared Imports should be used.
ggvis
Version: 0.4.3
In both
- checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘plyr’
grattan
Version: 1.5.1.2
In both
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘taxstats’
gutenbergr
Version: 0.1.3
In both
- checking data for non-ASCII characters ... NOTE
Note: found 13617 marked UTF-8 strings
harrietr
Version: 0.2.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘ggplot2’ All declared Imports should be used.
HTSSIP
Version: 1.2.0
In both
- R CMD check timed out
hurricaneexposure
Version: 0.0.1
In both
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘hurricaneexposuredata’
huxtable
Version: 1.0.0
In both
- checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘xtable’
jqr
Version: 1.0.0
In both
- checking whether package ‘jqr’ can be installed ... ERROR
Installation failed. See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/new/jqr.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘jqr’ ...
** package ‘jqr’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=-I/usr/local/opt/jq/include
Using PKG_LIBS=-L/usr/local/lib -ljq
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libjq was not found.
On Ubuntu 14.04 or 16.04 you can use the PPA:
sudo add-apt-repository -y ppa:opencpu/jq
sudo apt-get update
sudo apt-get install libjq-dev
On other sytems try installing:
* deb: libjq-dev (Debian, Ubuntu 16.10 and up).
* rpm: jq-devel (Fedora, EPEL)
* csw: libjq_dev (Solaris)
* brew: jq (OSX)
If is already installed set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘jqr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/new/jqr.Rcheck/jqr’
CRAN
* installing *source* package ‘jqr’ ...
** package ‘jqr’ successfully unpacked and MD5 sums checked
Using PKG_CFLAGS=-I/usr/local/opt/jq/include
Using PKG_LIBS=-L/usr/local/lib -ljq
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libjq was not found.
On Ubuntu 14.04 or 16.04 you can use the PPA:
sudo add-apt-repository -y ppa:opencpu/jq
sudo apt-get update
sudo apt-get install libjq-dev
On other sytems try installing:
* deb: libjq-dev (Debian, Ubuntu 16.10 and up).
* rpm: jq-devel (Fedora, EPEL)
* csw: libjq_dev (Solaris)
* brew: jq (OSX)
If is already installed set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘jqr’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/jqr/old/jqr.Rcheck/jqr’
lidR
Version: 1.3.1
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘Rcpp’ ‘memoise’ All declared Imports should be used.
loopr
Version: 1.0.1
In both
- checking R code for possible problems ... NOTE
amendColumns: no visible global function definition for ‘setNames’ fillColumns: no visible global function definition for ‘setNames’ Undefined global functions or variables: setNames Consider adding importFrom("stats", "setNames") to your NAMESPACE file.
lplyr
Version: 0.1.6
In both
-
checking examples ... ERROR ``` ...
rename(xs, x0 = x1) $x0 [1] 1 2 3
$x2 [1] 2 3 4 5
$x3 $x3[[1]] [1] "alpha"
$x3[[2]] [1] "beta" "gamma"
select(xs, -x3) Error in select.list(xs, -x3) : select.list() cannot be used non-interactively Calls: select -> select.list Execution halted ```
-
checking re-building of vignette outputs ... WARNING ``` ... Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lagThe following objects are masked from 'package:base':
intersect, setdiff, setequal, unionAttaching package: 'lplyr'
The following object is masked from 'package:dplyr':
pullQuitting from lines 22-30 (lplyr-vignette.Rmd) Error: processing vignette 'lplyr-vignette.Rmd' failed with diagnostics: select.list() cannot be used non-interactively Execution halted ```
mapfuser
Version: 0.1.2
In both
-
checking package dependencies ... ERROR ``` Package required but not available: ‘LPmerge’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```
markmyassignment
Version: 0.6.1
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’ All declared Imports should be used.
mason
Version: 0.2.5
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘ggplot2’, ‘pander’, ‘pixiedust’
metagenomeFeatures
Version: 1.8.1
In both
-
checking installed package size ... NOTE
installed size is 8.7Mb sub-directories of 1Mb or more: extdata 6.7Mb -
checking R code for possible problems ... NOTE
.mgDb_annotateFeatures: no visible binding for global variable ‘db_keys’ .select.taxa: no visible binding for global variable ‘Keys’ .select.taxa: no visible binding for global variable ‘.’ aggregate_taxa: no visible binding for global variable ‘.’ aggregate_taxa: no visible binding for global variable ‘index’ vignette_pheno_data: no visible global function definition for ‘read.csv’ Undefined global functions or variables: . Keys db_keys index read.csv Consider adding importFrom("utils", "read.csv") to your NAMESPACE file.
modelr
Version: 0.1.1
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘lme4’, ‘rstanarm’
mosaic
Version: 1.1.0
In both
-
checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘manipulate’ -
checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘cubature’
mosaicModel
Version: 0.3.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘MASS’ ‘caret’ ‘ggformula’ ‘knitr’ ‘testthat’ ‘tidyverse’ All declared Imports should be used.
mrgsolve
Version: 0.8.9
In both
- checking whether package ‘mrgsolve’ can be installed ... ERROR
Installation failed. See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/new/mrgsolve.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘mrgsolve’ ...
** package ‘mrgsolve’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c RcppExports.cpp -o RcppExports.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c dataobject.cpp -o dataobject.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c datarecord.cpp -o datarecord.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c devtran.cpp -o devtran.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c housemodel-mread-source.cpp -o housemodel-mread-source.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve.cpp -o mrgsolve.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve_init.cpp -o mrgsolve_init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odepack_dlsoda.cpp -o odepack_dlsoda.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odeproblem.cpp -o odeproblem.o
gfortran -fPIC -g -O2 -c opk_dlsoda_mrg.f -o opk_dlsoda_mrg.o
gfortran -fPIC -g -O2 -c opkda1_mrg.f -o opkda1_mrg.o
gfortran -fPIC -g -O2 -c opkda2_mrg.f -o opkda2_mrg.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c quick.cpp -o quick.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odepack_dlsoda.o odeproblem.o opk_dlsoda_mrg.o opkda1_mrg.o opkda2_mrg.o quick.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [mrgsolve.so] Error 1
ERROR: compilation failed for package ‘mrgsolve’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/new/mrgsolve.Rcheck/mrgsolve’
CRAN
* installing *source* package ‘mrgsolve’ ...
** package ‘mrgsolve’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c RcppExports.cpp -o RcppExports.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c dataobject.cpp -o dataobject.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c datarecord.cpp -o datarecord.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c devtran.cpp -o devtran.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c housemodel-mread-source.cpp -o housemodel-mread-source.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve.cpp -o mrgsolve.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c mrgsolve_init.cpp -o mrgsolve_init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odepack_dlsoda.cpp -o odepack_dlsoda.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c odeproblem.cpp -o odeproblem.o
gfortran -fPIC -g -O2 -c opk_dlsoda_mrg.f -o opk_dlsoda_mrg.o
gfortran -fPIC -g -O2 -c opkda1_mrg.f -o opkda1_mrg.o
gfortran -fPIC -g -O2 -c opkda2_mrg.f -o opkda2_mrg.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I../inst/include -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/Rcpp/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/RcppArmadillo/include" -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/mrgsolve/BH/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c quick.cpp -o quick.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o mrgsolve.so RcppExports.o dataobject.o datarecord.o devtran.o housemodel-mread-source.o mrgsolve.o mrgsolve_init.o odepack_dlsoda.o odeproblem.o opk_dlsoda_mrg.o opkda1_mrg.o opkda2_mrg.o quick.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [mrgsolve.so] Error 1
ERROR: compilation failed for package ‘mrgsolve’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/mrgsolve/old/mrgsolve.Rcheck/mrgsolve’
nonmemica
Version: 0.7.6
In both
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Warning in engine$weave(file, quiet = quiet, encoding = enc) : The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it. Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install. Quitting from lines 197-201 (parameter-table.Rmd) Error: processing vignette 'parameter-table.Rmd' failed with diagnostics: package 'ReporteRsjars' could not be loaded Execution halted -
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install.
observer
Version: 0.1.2
In both
- checking Rd cross-references ... NOTE
Packages unavailable to check Rd xrefs: ‘ensurer’, ‘validate’
openair
Version: 2.1-5
In both
- checking whether package ‘openair’ can be installed ... ERROR
Installation failed. See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/new/openair.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘openair’ ...
** package ‘openair’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c cluster.cpp -o cluster.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c init.c -o init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c rolling.cpp -o rolling.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [openair.so] Error 1
ERROR: compilation failed for package ‘openair’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/new/openair.Rcheck/openair’
CRAN
* installing *source* package ‘openair’ ...
** package ‘openair’ successfully unpacked and MD5 sums checked
** libs
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c cluster.cpp -o cluster.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -Wall -pedantic -O0 -c init.c -o init.o
ccache clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I"/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/openair/Rcpp/include" -I/usr/local/include -fPIC -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -O0 -c rolling.cpp -o rolling.o
ccache clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o openair.so cluster.o init.o rolling.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
ld: library not found for -lquadmath
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make: *** [openair.so] Error 1
ERROR: compilation failed for package ‘openair’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/openair/old/openair.Rcheck/openair’
parsemsf
Version: 0.1.0
In both
-
checking examples ... ERROR ``` Running examples in ‘parsemsf-Ex.R’ failed The error most likely occurred in:
Name: make_area_table
Title: Make a table of peptide areas
Aliases: make_area_table
** Examples
make_area_table(parsemsf_example("test_db.msf")) Error: The dbplyr package is required to communicate with database backends. Execution halted ```
-
checking tests ...
`` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: 10: src_sqlite(msf_file) 11: check_dbplyr() 12: check_pkg("dbplyr", "communicate with database backends", install = FALSE) 13: glubort(NULL, "The {name} package is required to {reason}.", if (install) "\nPlease install it withinstall.packages(\"{name}\")`") 14: .abort(text)Error: The dbplyr package is required to communicate with database backends. testthat results ================================================================ OK: 0 SKIPPED: 0 FAILED: 3 1. Error: make_area_table creates a data frame with the correct column names (@test_make_area_table.R#16) 2. Error: make_pep_table creates a data frame with the correct column names (@test_make_pep_table.R#13) 3. Error: map_peptides creates a data frame with the correct column names (@test_map_peptides.R#16)
Error: testthat unit tests failed Execution halted ```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Quitting from lines 20-25 (introduction.Rmd) Error: processing vignette 'introduction.Rmd' failed with diagnostics: The dbplyr package is required to communicate with database backends. Execution halted -
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘RSQLite’ All declared Imports should be used.
PKPDmisc
Version: 2.0.0
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘purrr’ All declared Imports should be used.
purrrlyr
Version: 0.0.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘lazyeval’ All declared Imports should be used.
R6Frame
Version: 0.1.0
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: testthat results ================================================================ OK: 139 SKIPPED: 0 FAILED: 10
- Error: gather works with R6 data.frame (@test-tidyr_reshape.R#11)
- Error: gather works with R6 data.table (@test-tidyr_reshape.R#25)
- Error: gather works with R6 tbl_df (@test-tidyr_reshape.R#38)
- Error: spread works with R6 data.frame (@test-tidyr_reshape.R#52)
- Error: spread works with R6 data.table (@test-tidyr_reshape.R#67)
- Error: spread works with R6 tbl_df (@test-tidyr_reshape.R#81)
- Error: complete works with R6 data.frame (@test-tidyr_verbs.R#13)
- Error: complete works with R6 data.table (@test-tidyr_verbs.R#27)
- Error: complete works with R6 tbl_df (@test-tidyr_verbs.R#41)
- Error: fill works with R6 tbl_df (@test-tidyr_verbs.R#72)
Error: testthat unit tests failed Execution halted ```
rbokeh
Version: 0.5.0
In both
-
checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘shiny’ -
checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘ggplot2’ All declared Imports should be used.
rfishbase
Version: 2.1.2
In both
- checking data for non-ASCII characters ... NOTE
Note: found 44 marked UTF-8 strings
rgho
Version: 1.0.1
In both
-
checking examples ... ERROR ``` Running examples in ‘rgho-Ex.R’ failed The error most likely occurred in:
Name: get_gho_data
Title: Returns GHO Data
Aliases: get_gho_data
** Examples
result <- get_gho_data( + dimension = "GHO", + code = "MDG_0000000001" + ) Error: parse error: premature EOF { "copyright": "(c) World Healt (right here) ------^ Execution halted ```
-
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Quitting from lines 36-38 (a-intro.Rmd) Error: processing vignette 'a-intro.Rmd' failed with diagnostics: parse error: premature EOF { "copyright": "(c) World Healt (right here) ------^ Execution halted
RNeXML
Version: 2.0.7
In both
- checking package dependencies ... NOTE
Packages suggested but not available for checking: ‘rrdf’ ‘Sxslt’
ropenaq
Version: 0.2.2
In both
- R CMD check timed out
rPref
Version: 1.2
In both
- checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
rscorecard
Version: 0.4.0
In both
- checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Quitting from lines 22-29 (introduction.Rmd) Error: processing vignette 'introduction.Rmd' failed with diagnostics: Missing API key; ?sc_key for details Execution halted
rtimicropem
Version: 1.3
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘R6’ All declared Imports should be used.
sf
Version: 0.5-4
In both
- checking whether package ‘sf’ can be installed ... ERROR
Installation failed. See ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/new/sf.Rcheck/00install.out’ for details.
Installation
Devel
* installing *source* package ‘sf’ ...
** package ‘sf’ successfully unpacked and MD5 sums checked
configure: CC: clang
configure: CXX: ccache clang++
checking for gdal-config... no
no
configure: error: gdal-config not found or not executable.
ERROR: configuration failed for package ‘sf’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/new/sf.Rcheck/sf’
CRAN
* installing *source* package ‘sf’ ...
** package ‘sf’ successfully unpacked and MD5 sums checked
configure: CC: clang
configure: CXX: ccache clang++
checking for gdal-config... no
no
configure: error: gdal-config not found or not executable.
ERROR: configuration failed for package ‘sf’
* removing ‘/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/checks/sf/old/sf.Rcheck/sf’
shazam
Version: 0.1.8
In both
- checking data for non-ASCII characters ... NOTE
Note: found 2 marked UTF-8 strings
SpaDES.core
Version: 0.1.0
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/test-all.R’ failed. Last 13 lines of output: 100 43558 100 43558 0 0 457k 0 --:--:-- --:--:-- --:--:-- 457k
- Error: spelling errors (@test-spelling.R#19) -------------------------------- No suitable spell-checker program found 1: aspell_package_vignettes(pkgDir) at testthat/test-spelling.R:19 2: aspell(character()) 3: stop("No suitable spell-checker program found")
testthat results ================================================================ OK: 304 SKIPPED: 2 FAILED: 1 1. Error: spelling errors (@test-spelling.R#19)
Error: testthat unit tests failed In addition: Warning message: In fun(libname, pkgname) : couldn't connect to display "" Execution halted ```
-
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘CircStats’ ‘RandomFields’ ‘grDevices’ ‘sp’ All declared Imports should be used.
sparklyr
Version: 0.6.3
In both
- checking tests ...
```
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
> library(testthat)
> library(sparklyr)
>
> if (identical(Sys.getenv("NOT_CRAN"), "true")) {
- test_check("sparklyr")
- on.exit({ spark_disconnect_all() ; livy_service_stop() })
- } Error in validate_java_version_line(master, version) : Java version detected but couldn't parse version from No Java runtime present, requesting install. Calls: test_check ... validate_java_version -> validate_java_version_line In addition: Warning message: running command ''/usr/bin/java' -version 2>&1' had status 1 testthat results ================================================================ OK: 0 SKIPPED: 0 FAILED: 0 Execution halted ```
statisticalModeling
Version: 0.3.0
In both
-
checking tests ...
ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(statisticalModeling) Loading required package: ggplot2 > > test_check("statisticalModeling") Error: gwm() has been removed from `mosaic'. It will be replaced by better tools in `mosaicModel'. testthat results ================================================================ OK: 21 SKIPPED: 0 FAILED: 0 Execution halted -
checking re-building of vignette outputs ... WARNING
Error in re-building vignettes: ... Quitting from lines 303-306 (modeling.Rmd) Error: processing vignette 'modeling.Rmd' failed with diagnostics: Invalid formula type for gf_point. Execution halted -
checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘magrittr’ ‘rpart’ All declared Imports should be used.
sweep
Version: 0.2.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘devtools’ ‘lazyeval’ ‘lubridate’ ‘tidyr’ All declared Imports should be used.
tadaatoolbox
Version: 0.13.0
In both
-
checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘rmdformats’ -
checking data for non-ASCII characters ... NOTE
Note: found 3 marked UTF-8 strings
taxa
Version: 0.1.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘knitr’ ‘lazyeval’ ‘rlang’ All declared Imports should be used.
tbl2xts
Version: 0.1.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘PerformanceAnalytics’ All declared Imports should be used.
tidyquant
Version: 0.5.3
In both
-
checking tests ... ``` ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output:
testthat results ================================================================ OK: 191 SKIPPED: 0 FAILED: 9 1. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 2. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 3. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 4. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 5. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 6. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 7. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 8. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22) 9. Failure: Test all stock.index options to ensure no issues during fetch. (@test_tq_index.R#22)
Error: testthat unit tests failed Execution halted ```
-
checking re-building of vignette outputs ... WARNING ``` ... Reason: image not found
Getting data...
Getting holdings for DOW Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install. Warning: running command '/usr/libexec/java_home' had status 1 Warning in tq_index("DOW") : Error at DOW during download. Error: .onLoad failed in loadNamespace() for 'rJava', details: call: dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared object '/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so': dlopen(/Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so, 6): Library not loaded: @rpath/libjvm.dylib Referenced from: /Users/lionel/Dropbox/Projects/R/hadley/lazyeval/revdep/library/tidyquant/rJava/libs/rJava.so Reason: image not found
Quitting from lines 105-108 (TQ03-scaling-and-modeling-with-tidyquant.Rmd) Error: processing vignette 'TQ03-scaling-and-modeling-with-tidyquant.Rmd' failed with diagnostics: subscript out of bounds Execution halted ```
-
checking dependencies in R code ... NOTE
Unable to find any JVMs matching version "(null)". No Java runtime present, try --request to install. Namespaces in Imports field not imported from: ‘broom’ ‘curl’ ‘devtools’ ‘rvest’ ‘timeSeries’ ‘tseries’ ‘zoo’ All declared Imports should be used.
timetk
Version: 0.1.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘devtools’ ‘forecast’ All declared Imports should be used.
valaddin
Version: 0.1.2
In both
- checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘purrr’ All declared Imports should be used.
vqtl
Version: 1.2.0
In both
- checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from: ‘iterators’ ‘knitr’ ‘testthat’ All declared Imports should be used.
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