revdep/tidyr/failures.md

In lionel-/selectr: Select from a Set of Strings

anomalyDetection

• Version: 0.2.5
• Source code: https://github.com/cran/anomalyDetection
• URL: https://github.com/koalaverse/anomalyDetection
• BugReports: https://github.com/koalaverse/anomalyDetection/issues
• Date/Publication: 2018-03-07 16:18:12 UTC
• Number of recursive dependencies: 0

Run revdep_details(,"anomalyDetection") for more info

In both

• checking whether package ‘anomalyDetection’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/anomalyDetection/new/anomalyDetection.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘anomalyDetection’ ...
** package ‘anomalyDetection’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/anomalyDetection/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/anomalyDetection/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘anomalyDetection’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/anomalyDetection/new/anomalyDetection.Rcheck/anomalyDetection’

CRAN

* installing *source* package ‘anomalyDetection’ ...
** package ‘anomalyDetection’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/anomalyDetection/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/anomalyDetection/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘anomalyDetection’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/anomalyDetection/old/anomalyDetection.Rcheck/anomalyDetection’

BgeeDB

• Version: 2.10.0
• Source code: https://github.com/cran/BgeeDB
• URL: https://github.com/BgeeDB/BgeeDB_R
• BugReports: https://github.com/BgeeDB/BgeeDB_R/issues
• Date/Publication: 2019-05-02
• Number of recursive dependencies: 74

Run revdep_details(,"BgeeDB") for more info

In both

• R CMD check timed out

• checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file.

circumplex

• Version: 0.3.4
• Source code: https://github.com/cran/circumplex
• URL: https://github.com/jmgirard/circumplex
• BugReports: https://github.com/jmgirard/circumplex/issues
• Date/Publication: 2019-12-05 11:30:02 UTC
• Number of recursive dependencies: 95

Run revdep_details(,"circumplex") for more info

In both

• checking whether package ‘circumplex’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/circumplex/new/circumplex.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘circumplex’ ...
** package ‘circumplex’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/circumplex/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/circumplex/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘circumplex’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/circumplex/new/circumplex.Rcheck/circumplex’

CRAN

* installing *source* package ‘circumplex’ ...
** package ‘circumplex’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/circumplex/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/circumplex/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘circumplex’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/circumplex/old/circumplex.Rcheck/circumplex’

clusterProfiler

• Version:
• Source code: ???
• URL: https://tidyselect.r-lib.org, https://github.com/r-lib/tidyselect
• BugReports: https://github.com/r-lib/tidyselect/issues
• Number of recursive dependencies: 0

Run revdep_details(,"") for more info

Error before installation

Devel

installing the source packages ‘KEGG.db’, ‘reactome.db’

CRAN

installing the source packages ‘KEGG.db’, ‘reactome.db’

CNPBayes

• Version: 1.13.5
• Source code: https://github.com/cran/CNPBayes
• URL: https://github.com/scristia/CNPBayes
• BugReports: https://github.com/scristia/CNPBayes/issues
• Date/Publication: 2019-01-05
• Number of recursive dependencies: 163

Run revdep_details(,"CNPBayes") for more info

In both

• checking examples ... ERROR ``` ... Running examples in ‘CNPBayes-Ex.R’ failed The error most likely occurred in:

  Name: ggChains

  Title: Trace plots of MCMC chains and mixture model densities

  Aliases: ggChains ggMixture ggMixture,MultiBatchCopyNumber-method

  ggMixture,MultiBatchCopyNumberPooled-method

  ggMixture,MultiBatchModel-method ggMixture,MultiBatch-method

  ggMixture,MultiBatchPooled-method ggChains,MultiBatchModel-method

  ggChains,MultiBatchPooled-method

  ** Examples

  sb <- SingleBatchModelExample iter(sb) <- 1000 burnin(sb) <- 100 sb <- posteriorSimulation(sb) fig.chains <- ggChains(sb) Error: 1 components of ... had unexpected names.

  We detected these problematic arguments: ```

• R CMD check timed out

• checking for missing documentation entries ... WARNING ... generic 'sigma<-' and siglist 'MultiBatchPooled' generic 'sigma2' and siglist 'MultiBatch' generic 'sigma2.0' and siglist 'MultiBatch' generic 'tau2' and siglist 'MultiBatch' generic 'theta' and siglist 'MultiBatch' generic 'theta<-' and siglist 'McmcChains,ANY' generic 'theta<-' and siglist 'MixtureModel,ANY' generic 'theta<-' and siglist 'MultiBatch,matrix' generic 'theta<-' and siglist 'MultiBatchModel,ANY' generic 'thin' and siglist 'MultiBatch' generic 'thin' and siglist 'MultiBatchList' generic 'thin<-' and siglist 'McmcParams,numeric' generic 'thin<-' and siglist 'MultiBatch,numeric' generic 'thin<-' and siglist 'MultiBatchList,numeric' generic 'triodata_lrr' and siglist 'TrioBatchModel' generic 'z' and siglist 'MultiBatch' generic 'zFreq' and siglist 'MultiBatch' All user-level objects in a package (including S4 classes and methods) should have documentation entries. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual.

• checking for code/documentation mismatches ... WARNING ``` ... Slots for class 'MultiBatch' Code: chains current_values data down_sample flags parameters specs summaries Docs: chains current_values data down_sample flags parameters summaries

  S4 class codoc mismatches from documentation object 'MultiBatchModel-class': Slots for class 'MultiBatchModel' Code: .internal.constraint .internal.counter batch batchElements data data.mean data.prec hyperparams k label_switch loglik logprior marginal_lik mcmc.chains mcmc.params modes mu nu.0 pi predictive probz sigma2 sigma2.0 tau2 theta u z zfreq zstar Inherited: k hyperparams theta sigma2 nu.0 sigma2.0 pi mu tau2 predictive zstar data data.mean data.prec z zfreq probz u logprior loglik mcmc.chains batch batchElements modes mcmc.params label_switch marginal_lik .internal.constraint .internal.counter Docs: .internal.constraint batch batchElements data data.mean data.prec hyperparams is_mendelian k label_switch loglik logprior mcmc.chains mcmc.params modes mu nu.0 pi probz sigma2 sigma2.0 tau2 theta z zfreq ```

• checking Rd \usage sections ... WARNING ``` ...

  Documented arguments not in \usage in documentation object 'iter<-': ‘force’

  Documented arguments not in \usage in documentation object 'mcmcParams': ‘force’

  Undocumented arguments in documentation object 'sigma<-' ‘value’

  Undocumented arguments in documentation object 'singleBatchGuided,MultiBatchList,MultiBatch-method' ‘x’ ‘guide’

  Undocumented arguments in documentation object 'theta' ‘value’

  Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. ```

• checking installed package size ... NOTE installed size is 8.2Mb sub-directories of 1Mb or more: doc 3.0Mb R 3.1Mb

• checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘RcppArmadillo’ All declared Imports should be used.

• checking R code for possible problems ... NOTE ... findSurrogates,MultiBatch: no visible binding for global variable ‘id’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00_pkg_src/CNPBayes/R/methods-SummarizedExperiment.R:127-133) findSurrogates,MultiBatch: no visible binding for global variable ‘provisional_batch’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00_pkg_src/CNPBayes/R/methods-SummarizedExperiment.R:127-133) findSurrogates,MultiBatch: no visible binding for global variable ‘batch_labels’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00_pkg_src/CNPBayes/R/methods-SummarizedExperiment.R:127-133) findSurrogates,MultiBatch: no visible binding for global variable ‘id’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00_pkg_src/CNPBayes/R/methods-SummarizedExperiment.R:138-142) sigma,MultiBatchCopyNumberPooled: no visible binding for global variable ‘s2’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/CNPBayes/new/CNPBayes.Rcheck/00_pkg_src/CNPBayes/R/methods-MultiBatchPooled.R:161) Undefined global functions or variables: := . .gibbs_trios_mcmc2 .gibbs_trios_mcmc3 batch_index batch_labels batches bk copy_number father id log_ratio maplabel medians model mother mprob nhom parents prec provisional_batch s s2 snpdat spec spec<- t.test value Consider adding importFrom("stats", "t.test") to your NAMESPACE file.

colorednoise

• Version: 1.0.5
• Source code: https://github.com/cran/colorednoise
• BugReports: http://github.com/japilo/colorednoise/issues
• Date/Publication: 2019-09-27 13:10:02 UTC
• Number of recursive dependencies: 83

Run revdep_details(,"colorednoise") for more info

In both

• checking whether package ‘colorednoise’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/colorednoise/new/colorednoise.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘colorednoise’ ...
** package ‘colorednoise’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/colorednoise/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/colorednoise/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘colorednoise’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/colorednoise/new/colorednoise.Rcheck/colorednoise’

CRAN

* installing *source* package ‘colorednoise’ ...
** package ‘colorednoise’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/colorednoise/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/colorednoise/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘colorednoise’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/colorednoise/old/colorednoise.Rcheck/colorednoise’

dexter

• Version: 1.0.2
• Source code: https://github.com/cran/dexter
• URL: http://dexterities.netlify.com
• BugReports: https://github.com/jessekps/dexter/issues
• Date/Publication: 2019-12-11 17:00:09 UTC
• Number of recursive dependencies: 79

Run revdep_details(,"dexter") for more info

In both

• checking whether package ‘dexter’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dexter/new/dexter.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘dexter’ ...
** package ‘dexter’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dexter/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dexter/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘dexter’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dexter/new/dexter.Rcheck/dexter’

CRAN

* installing *source* package ‘dexter’ ...
** package ‘dexter’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dexter/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dexter/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘dexter’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dexter/old/dexter.Rcheck/dexter’

dynfrail

• Version: 0.5.2
• Source code: https://github.com/cran/dynfrail
• Date/Publication: 2017-10-30 10:11:49 UTC
• Number of recursive dependencies: 64

Run revdep_details(,"dynfrail") for more info

In both

• checking whether package ‘dynfrail’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dynfrail/new/dynfrail.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘dynfrail’ ...
** package ‘dynfrail’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dynfrail/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dynfrail/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘dynfrail’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dynfrail/new/dynfrail.Rcheck/dynfrail’

CRAN

* installing *source* package ‘dynfrail’ ...
** package ‘dynfrail’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dynfrail/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/dynfrail/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -mtune=core2 -O3 -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘dynfrail’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/dynfrail/old/dynfrail.Rcheck/dynfrail’

ELMER

• Version: 2.8.3
• Source code: https://github.com/cran/ELMER
• Date/Publication: 2019-09-06
• Number of recursive dependencies: 211

Run revdep_details(,"ELMER") for more info

In both

• R CMD check timed out

• checking Rd \usage sections ... WARNING ``` Undocumented arguments in documentation object 'heatmapGene' ‘correlation.method’ ‘scatter.plot.width’ ‘scatter.plot.height’

  Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. ```

• checking installed package size ... NOTE installed size is 75.8Mb sub-directories of 1Mb or more: doc 75.1Mb

• checking R code for possible problems ... NOTE ... (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/GetNearbyGenes.R:538-539) getRegionNearGenes: no visible binding for global variable 'ID' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/GetNearbyGenes.R:551) getTFtargets: no visible binding for global variable 'TF' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/Main_function.R:1620) getTFtargets: no visible binding for global variable 'TF' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/Main_function.R:1622) heatmapGene: no visible global function definition for 'melt' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:590) heatmapGene: no visible binding for global variable 'mae' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:590) heatmapGene: no visible binding for global variable 'mae' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:592) heatmapGene: no visible global function definition for 'melt' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:593) heatmapGene: no visible binding for global variable 'mae' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:593) heatmapGene: no visible global function definition for 'stat_cor' (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/ELMER/new/ELMER.Rcheck/00_pkg_src/ELMER/R/plots.R:597-613) Undefined global functions or variables: DistanceTSS Hugo_Symbol ID mae melt Side stat_cor TF

maEndToEnd

• Version:
• Source code: ???
• URL: https://tidyselect.r-lib.org, https://github.com/r-lib/tidyselect
• BugReports: https://github.com/r-lib/tidyselect/issues
• Number of recursive dependencies: 0

Run revdep_details(,"") for more info

Error before installation

Devel

installing the source packages ‘hugene10sttranscriptcluster.db’, ‘pd.hugene.1.0.st.v1’, ‘reactome.db’

CRAN

installing the source packages ‘hugene10sttranscriptcluster.db’, ‘pd.hugene.1.0.st.v1’, ‘reactome.db’

MSstats

• Version: 3.16.2
• Source code: https://github.com/cran/MSstats
• URL: http://msstats.org
• BugReports: https://groups.google.com/forum/#!forum/msstats
• Date/Publication: 2019-08-16
• Number of recursive dependencies: 88

Run revdep_details(,"MSstats") for more info

In both

• R CMD check timed out

• checking whether package ‘MSstats’ can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import ‘MASS::select’ by ‘dplyr::select’ when loading ‘MSstats’ See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/MSstats/new/MSstats.Rcheck/00install.out’ for details.

• checking R code for possible problems ... NOTE ... ‘fea’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/MSstats/new/MSstats.Rcheck/00_pkg_src/MSstats/R/SpectronauttoMSstatsFormat.R:196) SpectronauttoMSstatsFormat: no visible binding for global variable ‘Intensity’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/MSstats/new/MSstats.Rcheck/00_pkg_src/MSstats/R/SpectronauttoMSstatsFormat.R:196) SpectronauttoMSstatsFormat: no visible binding for global variable ‘PeptideSequence’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/MSstats/new/MSstats.Rcheck/00_pkg_src/MSstats/R/SpectronauttoMSstatsFormat.R:222) SpectronauttoMSstatsFormat: no visible binding for global variable ‘ProteinName’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/MSstats/new/MSstats.Rcheck/00_pkg_src/MSstats/R/SpectronauttoMSstatsFormat.R:222) Undefined global functions or variables: .resid ABUNDANCE aggr_Fragment_Annotation aggr_Peak_Area analysis censored ciw cover_feature datafeature df_resid fea feature FEATURE FRACTION Intensity INTENSITY is_censored is_lowcvr is_obs is_olr label LABEL log2inty logFC Mean min_obs missing.col Name nb_feature nb_full nb_obs nb_run ncount originalRUN ount peptide PEPTIDE PeptideSequence pi_obs protein Protein PROTEIN Protein_number ProteinName resid_null residual rlm_fit run RUN s_resid s_resid_eb Selected_fragments Selected_peptides shape svar_feature svar_ref Train_size var_feature var_resid_eb weight x y ymax ymin

phenofit

• Version: 0.2.5-2
• Source code: https://github.com/cran/phenofit
• URL: https://github.com/kongdd/phenofit
• BugReports: https://github.com/kongdd/phenofit/issues
• Date/Publication: 2019-06-07 08:00:08 UTC
• Number of recursive dependencies: 88

Run revdep_details(,"phenofit") for more info

In both

• checking whether package ‘phenofit’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/phenofit/new/phenofit.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘phenofit’ ...
** package ‘phenofit’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/phenofit/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/phenofit/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘phenofit’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/phenofit/new/phenofit.Rcheck/phenofit’

CRAN

* installing *source* package ‘phenofit’ ...
** package ‘phenofit’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/phenofit/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/phenofit/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘phenofit’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/phenofit/old/phenofit.Rcheck/phenofit’

psycho

• Version:
• Source code: ???
• URL: https://tidyselect.r-lib.org, https://github.com/r-lib/tidyselect
• BugReports: https://github.com/r-lib/tidyselect/issues
• Number of recursive dependencies: 0

Run revdep_details(,"") for more info

Error before installation

Devel

CRAN

quokar

• Version: 0.1.0
• Source code: https://github.com/cran/quokar
• URL: https://github.com/wenjingwang/quokar
• BugReports: https://github.com/wenjingwang/quokar/issues
• Date/Publication: 2017-11-10 10:21:36 UTC
• Number of recursive dependencies: 85

Run revdep_details(,"quokar") for more info

In both

• checking whether package ‘quokar’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/quokar/new/quokar.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘quokar’ ...
** package ‘quokar’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c init.c -o init.o
gfortran-8  -fPIC  -Wall -g -O2  -c rqbr.f -o rqbr.o
make: gfortran-8: No such file or directory
make: *** [rqbr.o] Error 1
ERROR: compilation failed for package ‘quokar’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/quokar/new/quokar.Rcheck/quokar’

CRAN

* installing *source* package ‘quokar’ ...
** package ‘quokar’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c init.c -o init.o
gfortran-8  -fPIC  -Wall -g -O2  -c rqbr.f -o rqbr.o
make: gfortran-8: No such file or directory
make: *** [rqbr.o] Error 1
ERROR: compilation failed for package ‘quokar’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/quokar/old/quokar.Rcheck/quokar’

RxODE

• Version: 0.9.1-8
• Source code: https://github.com/cran/RxODE
• URL: https://nlmixrdevelopment.github.io/RxODE/
• BugReports: https://github.com/nlmixrdevelopment/RxODE/issues
• Date/Publication: 2019-11-12 14:30:06 UTC
• Number of recursive dependencies: 122

Run revdep_details(,"RxODE") for more info

In both

• checking whether package ‘RxODE’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/RxODE/new/RxODE.Rcheck/00install.out’ for details.

• checking package dependencies ... NOTE Packages suggested but not available for checking: 'SnakeCharmR', 'installr'

Installation

Devel

* installing *source* package ‘RxODE’ ...
** package ‘RxODE’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking for clang option to support OpenMP... unsupported
configure: creating ./config.status
config.status: creating src/Makevars
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
CXX_STD     = CXX11

################################################################################
## Package library flags.
PKG_LIBS    = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) 

# Release options
PKG_CFLAGS  =  -D_isRxODE_
PKG_CXXFLAGS =  -D_isRxODE_


SOURCES_C = call_dvode.c dop853.c tran.c omegaChol.c init.c par_solve.c cfode.c common.c corfailure.c correction.c daxpy.c ddot.c dgefa.c dgesl.c dscal.c fnorm.c idamax.c intdy.c lsoda.c methodswitch.c orderswitch.c prja.c scaleh.c solsy.c stoda.c vmnorm.c strdup_printf.c rprintf.c lincmt.c box.c 
SOURCES_CPP = RcppExports.cpp WinDrive.cpp rxInv.cpp rxData.cpp etTran.cpp et.cpp rxStack.cpp cvPost.cpp
SOURCES_FORTAN = dlsoda.f opkda2.f

OBJECTS = $(SOURCES_C:.c=.o) $(SOURCES_FORTAN:.f=.o) $(SOURCES_CPP:.cpp=.o)

# strippedLib: $(SHLIB)
#   if test -e "/usr/bin/strip"; then /usr/bin/strip -s $(SHLIB); fi

.PHONY: all 
# all: strippedLib
# $(SHLIB): mylibs
all: $(SHLIB)
# mylibs:  
#   $(CC) -I"$(R_INCLUDE_DIR)" $(CFLAGS) $(CPPFLAGS) $(SHLIB_CFLAGS) $(CPICFLAGS) -I../inst/include/ ../inst/include/RxODE_model.h || $(CC) --version


--------[end src/Makevars]--------
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c call_dvode.c -o call_dvode.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dop853.c -o dop853.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c tran.c -o tran.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c omegaChol.c -o omegaChol.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c par_solve.c -o par_solve.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c cfode.c -o cfode.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c common.c -o common.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c corfailure.c -o corfailure.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c correction.c -o correction.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c daxpy.c -o daxpy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c ddot.c -o ddot.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dgefa.c -o dgefa.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dgesl.c -o dgesl.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dscal.c -o dscal.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c fnorm.c -o fnorm.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c idamax.c -o idamax.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c intdy.c -o intdy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c lsoda.c -o lsoda.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c methodswitch.c -o methodswitch.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c orderswitch.c -o orderswitch.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c prja.c -o prja.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c scaleh.c -o scaleh.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c solsy.c -o solsy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c stoda.c -o stoda.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c vmnorm.c -o vmnorm.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c strdup_printf.c -o strdup_printf.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c rprintf.c -o rprintf.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c lincmt.c -o lincmt.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c box.c -o box.o
gfortran-8  -fPIC  -Wall -g -O2  -c dlsoda.f -o dlsoda.o
make: gfortran-8: No such file or directory
make: *** [dlsoda.o] Error 1
ERROR: compilation failed for package ‘RxODE’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/RxODE/new/RxODE.Rcheck/RxODE’

CRAN

* installing *source* package ‘RxODE’ ...
** package ‘RxODE’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking for clang option to support OpenMP... unsupported
configure: creating ./config.status
config.status: creating src/Makevars
--------[begin src/Makevars]--------
# -*- mode: makefile-gmake -*-
CXX_STD     = CXX11

################################################################################
## Package library flags.
PKG_LIBS    = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) 

# Release options
PKG_CFLAGS  =  -D_isRxODE_
PKG_CXXFLAGS =  -D_isRxODE_


SOURCES_C = call_dvode.c dop853.c tran.c omegaChol.c init.c par_solve.c cfode.c common.c corfailure.c correction.c daxpy.c ddot.c dgefa.c dgesl.c dscal.c fnorm.c idamax.c intdy.c lsoda.c methodswitch.c orderswitch.c prja.c scaleh.c solsy.c stoda.c vmnorm.c strdup_printf.c rprintf.c lincmt.c box.c 
SOURCES_CPP = RcppExports.cpp WinDrive.cpp rxInv.cpp rxData.cpp etTran.cpp et.cpp rxStack.cpp cvPost.cpp
SOURCES_FORTAN = dlsoda.f opkda2.f

OBJECTS = $(SOURCES_C:.c=.o) $(SOURCES_FORTAN:.f=.o) $(SOURCES_CPP:.cpp=.o)

# strippedLib: $(SHLIB)
#   if test -e "/usr/bin/strip"; then /usr/bin/strip -s $(SHLIB); fi

.PHONY: all 
# all: strippedLib
# $(SHLIB): mylibs
all: $(SHLIB)
# mylibs:  
#   $(CC) -I"$(R_INCLUDE_DIR)" $(CFLAGS) $(CPPFLAGS) $(SHLIB_CFLAGS) $(CPICFLAGS) -I../inst/include/ ../inst/include/RxODE_model.h || $(CC) --version


--------[end src/Makevars]--------
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c call_dvode.c -o call_dvode.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dop853.c -o dop853.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c tran.c -o tran.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c omegaChol.c -o omegaChol.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c par_solve.c -o par_solve.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c cfode.c -o cfode.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c common.c -o common.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c corfailure.c -o corfailure.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c correction.c -o correction.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c daxpy.c -o daxpy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c ddot.c -o ddot.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dgefa.c -o dgefa.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dgesl.c -o dgesl.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c dscal.c -o dscal.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c fnorm.c -o fnorm.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c idamax.c -o idamax.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c intdy.c -o intdy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c lsoda.c -o lsoda.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c methodswitch.c -o methodswitch.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c orderswitch.c -o orderswitch.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c prja.c -o prja.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c scaleh.c -o scaleh.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c solsy.c -o solsy.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c stoda.c -o stoda.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c vmnorm.c -o vmnorm.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c strdup_printf.c -o strdup_printf.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c rprintf.c -o rprintf.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c lincmt.c -o lincmt.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/dparser/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/RcppArmadillo/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/RxODE/PreciseSums/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -D_isRxODE_ -fPIC  -Wall -g -O2   -Wall -pedantic -fno-common -mtune=core2  -O3 -c box.c -o box.o
gfortran-8  -fPIC  -Wall -g -O2  -c dlsoda.f -o dlsoda.o
make: gfortran-8: No such file or directory
make: *** [dlsoda.o] Error 1
ERROR: compilation failed for package ‘RxODE’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/RxODE/old/RxODE.Rcheck/RxODE’

sesame

• Version:
• Source code: ???
• URL: https://tidyselect.r-lib.org, https://github.com/r-lib/tidyselect
• BugReports: https://github.com/r-lib/tidyselect/issues
• Number of recursive dependencies: 0

Run revdep_details(,"") for more info

Error before installation

Devel

  There is a binary version available but the source version is later:
      binary source needs_compilation
fansi  0.4.0  0.4.1              TRUE

  Binaries will be installed


installing the source packages ‘FlowSorted.Blood.450k’, ‘FlowSorted.CordBloodNorway.450k’

CRAN

  There is a binary version available but the source version is later:
      binary source needs_compilation
fansi  0.4.0  0.4.1              TRUE

  Binaries will be installed


installing the source packages ‘FlowSorted.Blood.450k’, ‘FlowSorted.CordBloodNorway.450k’

TCGAbiolinks

• Version: 2.12.6
• Source code: https://github.com/cran/TCGAbiolinks
• URL: https://github.com/BioinformaticsFMRP/TCGAbiolinks
• BugReports: https://github.com/BioinformaticsFMRP/TCGAbiolinks/issues
• Date/Publication: 2019-09-05
• Number of recursive dependencies: 266

Run revdep_details(,"TCGAbiolinks") for more info

In both

• R CMD check timed out

• checking installed package size ... NOTE installed size is 97.3Mb sub-directories of 1Mb or more: data 4.3Mb doc 90.1Mb R 2.7Mb

• checking dependencies in R code ... NOTE There are ::: calls to the package's namespace in its code. A package almost never needs to use ::: for its own objects: ‘move’

• checking R code for possible problems ... NOTE ... (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/clinical.R:712) TCGAtumor_purity: no visible binding for global variable ‘Tumor.purity’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/clinical.R:723-724) TCGAvisualize_oncoprint: no visible binding for global variable ‘value’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/visualize.R:932) TCGAvisualize_SurvivalCoxNET: no visible global function definition for ‘dNetInduce’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/visualize.R:156-157) TCGAvisualize_SurvivalCoxNET: no visible global function definition for ‘dNetPipeline’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/visualize.R:161-162) TCGAvisualize_SurvivalCoxNET: no visible global function definition for ‘dCommSignif’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/visualize.R:174) TCGAvisualize_SurvivalCoxNET: no visible global function definition for ‘visNet’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TCGAbiolinks/new/TCGAbiolinks.Rcheck/00_pkg_src/TCGAbiolinks/R/visualize.R:184-189) Undefined global functions or variables: barcode c3net clinical coordinates dCommSignif dNetInduce dNetPipeline exon knnmi.cross limmacontrasts.fit limmamakeContrasts minet openSesame portions rse_gene Tumor.purity value visNet

TPP

• Version: 3.12.0
• Source code: https://github.com/cran/TPP
• Date/Publication: 2019-05-02
• Number of recursive dependencies: 97

Run revdep_details(,"TPP") for more info

In both

• R CMD check timed out

• checking installed package size ... NOTE installed size is 13.9Mb sub-directories of 1Mb or more: data 1.9Mb example_data 8.0Mb test_data 1.9Mb

• checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘broom’ All declared Imports should be used. Unexported objects imported by ':::' calls: ‘doParallel:::.options’ ‘mefa:::rep.data.frame’ See the note in ?`:::` about the use of this operator.

• checking R code for possible problems ... NOTE ``` File ‘TPP/R/TPP.R’: .onLoad calls: packageStartupMessage(msgText, "\n")

  See section ‘Good practice’ in '?.onAttach'.

  plot_fSta_distribution: no visible binding for global variable ‘..density..’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TPP/new/TPP.Rcheck/00_pkg_src/TPP/R/plot_fSta_distribution.R:19-28) plot_pVal_distribution: no visible binding for global variable ‘..density..’ (/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/TPP/new/TPP.Rcheck/00_pkg_src/TPP/R/plot_pVal_distribution.R:22-31) Undefined global functions or variables: ..density.. ```

trialr

• Version: 0.1.3
• Source code: https://github.com/cran/trialr
• URL: https://github.com/brockk/trialr
• BugReports: https://github.com/brockk/trialr/issues
• Date/Publication: 2020-01-08 22:30:10 UTC
• Number of recursive dependencies: 108

Run revdep_details(,"trialr") for more info

In both

• R CMD check timed out

vlad

• Version: 0.2.0
• Source code: https://github.com/cran/vlad
• BugReports: https://github.com/wittenberg/vlad/issues
• Date/Publication: 2018-12-06 08:50:03 UTC
• Number of recursive dependencies: 70

Run revdep_details(,"vlad") for more info

In both

• checking whether package ‘vlad’ can be installed ... ERROR Installation failed. See ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/vlad/new/vlad.Rcheck/00install.out’ for details.

Installation

Devel

* installing *source* package ‘vlad’ ...
** package ‘vlad’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/vlad/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/vlad/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘vlad’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/vlad/new/vlad.Rcheck/vlad’

CRAN

* installing *source* package ‘vlad’ ...
** package ‘vlad’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -std=gnu++11 -std=c++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/vlad/Rcpp/include" -I"/Users/lionel/Desktop/tidyselect/revdep/library.noindex/vlad/RcppArmadillo/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC  -Wall -g -O2  -arch x86_64 -ftemplate-depth-256 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang: error: unsupported option '-fopenmp'
make: *** [RcppExports.o] Error 1
ERROR: compilation failed for package ‘vlad’
* removing ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/vlad/old/vlad.Rcheck/vlad’

activPAL

• Version: 0.1.3
• Source code: https://github.com/cran/activPAL
• Date/Publication: 2019-07-18 11:30:03 UTC
• Number of recursive dependencies: 98

Run revdep_details(,"activPAL") for more info

Error before installation

Devel

* using log directory ‘/Users/lionel/Desktop/tidyselect/revdep/checks.noindex/activPAL/new/activPAL.Rcheck’
* using R version 3.6.2 (2019-12-12)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using options ‘--no-manual --no-build-vignettes’
* checking for file ‘activPAL/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘activPAL’ version ‘0.1.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘activPAL’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
 OK
* DONE
Status: OK




  Running ‘testthat.R’

CRAN

lionel-/selectr documentation built on March 14, 2024, 10:04 p.m.