future.apply: Apply Function to Elements in Parallel using Futures

AIPW

Version: 0.6.3.2
GitHub: https://github.com/yqzhong7/AIPW
Source code: https://github.com/cran/AIPW
Date/Publication: 2021-06-11 09:30:02 UTC
Number of recursive dependencies: 99

Run revdep_details(, "AIPW") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘Rsolnp’ ‘SuperLearner’ ‘future.apply’ ‘ggplot2’ ‘progressr’ ‘stats’ ‘utils’ All declared Imports should be used.

altdoc

Version: 0.3.0
GitHub: https://github.com/etiennebacher/altdoc
Source code: https://github.com/cran/altdoc
Date/Publication: 2024-02-21 16:00:06 UTC
Number of recursive dependencies: 84

Run revdep_details(, "altdoc") for more info

checking tests ... `` Running ‘spelling.R’ Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: v Setting active project to '<no active project>' v Setting active project to '/scratch/henrik/1734856/Rtmp4zaexs/testpkg26e50316e2aed' v Setting active project to '<no active project>' v Setting active project to '/scratch/henrik/1734856/Rtmp4zaexs/testpkg26e503ae1d67b' v Setting active project to '<no active project>' ... Error inrender_docs(path = getwd())`: There were some failures when rendering vignettes. Backtrace: ▆
1. └─altdoc::render_docs(path = getwd()) at test-update.R:111:5
2. └─cli::cli_abort("There were some failures when rendering vignettes.")
3. └─rlang::abort(...)
[ FAIL 5 | WARN 0 | SKIP 7 | PASS 56 ] Error: Test failures Execution halted ```

arkdb

Version: 0.0.18
GitHub: https://github.com/ropensci/arkdb
Source code: https://github.com/cran/arkdb
Date/Publication: 2024-01-16 00:20:02 UTC
Number of recursive dependencies: 96

Run revdep_details(, "arkdb") for more info

checking tests ... ``` Running ‘spelling.R’ Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output:
1. ├─ParquetFileWriter$create(...)
2. │ └─arrow:::parquetarrowParquetFileWriter__Open(...)
3. └─ParquetWriterProperties$create(...)
4. └─arrow:::parquetWriterPropertiesBuilder__create() ── Error ('test-arkdb.R:315:3'): e2e with filter for flights month = 12: parquet ── ... 3: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 4: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 5: Connection is garbage-collected, use dbDisconnect() to avoid this. 6: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 7: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 8: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. Execution halted Warning messages: 1: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 2: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. ```

BAMBI

Version: 2.3.5
GitHub: https://github.com/c7rishi/BAMBI
Source code: https://github.com/cran/BAMBI
Date/Publication: 2023-03-08 23:10:05 UTC
Number of recursive dependencies: 53

Run revdep_details(, "BAMBI") for more info

checking whether package ‘BAMBI’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/BAMBI/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/BAMBI/new/BAMBI.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 7.3Mb sub-directories of 1Mb or more: libs 6.8Mb

BEKKs

Version: 1.4.4
GitHub: NA
Source code: https://github.com/cran/BEKKs
Date/Publication: 2024-01-14 15:50:09 UTC
Number of recursive dependencies: 86

Run revdep_details(, "BEKKs") for more info

checking whether package ‘BEKKs’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/BEKKs/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/BEKKs/new/BEKKs.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 18.5Mb sub-directories of 1Mb or more: libs 17.6Mb

bigDM

Version: 0.5.3
GitHub: https://github.com/spatialstatisticsupna/bigDM
Source code: https://github.com/cran/bigDM
Date/Publication: 2023-10-17 12:50:02 UTC
Number of recursive dependencies: 128

Run revdep_details(, "bigDM") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘INLA’
checking data for non-ASCII characters ... NOTE Note: found 940 marked Latin-1 strings

blavaan

Version: 0.5-3
GitHub: https://github.com/ecmerkle/blavaan
Source code: https://github.com/cran/blavaan
Date/Publication: 2024-01-19 22:50:02 UTC
Number of recursive dependencies: 98

Run revdep_details(, "blavaan") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘cmdstanr’
checking installed package size ... NOTE installed size is 196.2Mb sub-directories of 1Mb or more: R 1.2Mb libs 193.4Mb testdata 1.4Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

brms

Version: 2.21.0
GitHub: https://github.com/paul-buerkner/brms
Source code: https://github.com/cran/brms
Date/Publication: 2024-03-20 12:30:08 UTC
Number of recursive dependencies: 201

Run revdep_details(, "brms") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘cmdstanr’
checking installed package size ... NOTE installed size is 8.4Mb sub-directories of 1Mb or more: R 3.7Mb doc 3.5Mb

clickR

Version: 0.9.39
GitHub: NA
Source code: https://github.com/cran/clickR
Date/Publication: 2023-08-07 17:40:06 UTC
Number of recursive dependencies: 9

Run revdep_details(, "clickR") for more info

checking data for non-ASCII characters ... NOTE Note: found 1 marked UTF-8 string

collinear

Version: 1.1.1
GitHub: NA
Source code: https://github.com/cran/collinear
Date/Publication: 2023-12-08 08:50:02 UTC
Number of recursive dependencies: 55

Run revdep_details(, "collinear") for more info

checking data for non-ASCII characters ... NOTE Note: found 89 marked Latin-1 strings Note: found 1203 marked UTF-8 strings

cSEM

Version: 0.5.0
GitHub: https://github.com/M-E-Rademaker/cSEM
Source code: https://github.com/cran/cSEM
Date/Publication: 2022-11-24 17:50:05 UTC
Number of recursive dependencies: 127

Run revdep_details(, "cSEM") for more info

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

deseats

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/deseats
Date/Publication: 2023-11-08 19:50:02 UTC
Number of recursive dependencies: 108

Run revdep_details(, "deseats") for more info

checking whether package ‘deseats’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/deseats/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/deseats/new/deseats.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 8.3Mb sub-directories of 1Mb or more: libs 7.6Mb

dipsaus

Version: 0.2.8
GitHub: https://github.com/dipterix/dipsaus
Source code: https://github.com/cran/dipsaus
Date/Publication: 2023-07-03 20:00:03 UTC
Number of recursive dependencies: 69

Run revdep_details(, "dipsaus") for more info

checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: doc 1.1Mb libs 3.5Mb

EFAtools

Version: 0.4.4
GitHub: https://github.com/mdsteiner/EFAtools
Source code: https://github.com/cran/EFAtools
Date/Publication: 2023-01-06 14:50:40 UTC
Number of recursive dependencies: 93

Run revdep_details(, "EFAtools") for more info

checking whether package ‘EFAtools’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/EFAtools/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/EFAtools/new/EFAtools.Rcheck/00install.out’ for details.
checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 7.2Mb sub-directories of 1Mb or more: libs 6.0Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘progress’ All declared Imports should be used.

EpiNow2

Version: 1.4.0
GitHub: https://github.com/epiforecasts/EpiNow2
Source code: https://github.com/cran/EpiNow2
Date/Publication: 2023-09-26 12:00:02 UTC
Number of recursive dependencies: 130

Run revdep_details(, "EpiNow2") for more info

checking installed package size ... NOTE installed size is 223.7Mb sub-directories of 1Mb or more: help 2.0Mb libs 220.8Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

forecastML

Version: 0.9.0
GitHub: https://github.com/nredell/forecastML
Source code: https://github.com/cran/forecastML
Date/Publication: 2020-05-07 15:10:17 UTC
Number of recursive dependencies: 104

Run revdep_details(, "forecastML") for more info

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

genBaRcode

Version: 1.2.7
GitHub: NA
Source code: https://github.com/cran/genBaRcode
Date/Publication: 2023-12-11 13:10:05 UTC
Number of recursive dependencies: 160

Run revdep_details(, "genBaRcode") for more info

checking re-building of vignette outputs ... WARNING `` Error(s) in re-building vignettes: --- re-building ‘genBaRcode_GUI_Vignette.Rmd’ using rmarkdown ! LaTeX Error: Fileiftex.sty' not found.

! Emergency stop.

Error: processing vignette 'genBaRcode_GUI_Vignette.Rmd' failed with diagnostics: LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/genBaRcode/new/genBaRcode.Rcheck/vign_test/genBaRcode/vignettes/genBaRcode_GUI_Vignette.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See genBaRcode_GUI_Vignette.log for more info. --- failed re-building ‘genBaRcode_GUI_Vignette.Rmd’ ...

Error: processing vignette 'genBaRcode_Vignette.Rmd' failed with diagnostics: LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/genBaRcode/new/genBaRcode.Rcheck/vign_test/genBaRcode/vignettes/genBaRcode_Vignette.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See genBaRcode_Vignette.log for more info. --- failed re-building ‘genBaRcode_Vignette.Rmd’

SUMMARY: processing the following files failed: ‘genBaRcode_GUI_Vignette.Rmd’ ‘genBaRcode_Vignette.Rmd’

Error: Vignette re-building failed. Execution halted ```

geocmeans

Version: 0.3.4
GitHub: https://github.com/JeremyGelb/geocmeans
Source code: https://github.com/cran/geocmeans
Date/Publication: 2023-09-12 03:10:02 UTC
Number of recursive dependencies: 197

Run revdep_details(, "geocmeans") for more info

checking whether package ‘geocmeans’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/geocmeans/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/geocmeans/new/geocmeans.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 13.5Mb sub-directories of 1Mb or more: extdata 3.0Mb libs 8.2Mb

geohabnet

Version: 2.0.0
GitHub: https://github.com/GarrettLab/HabitatConnectivity
Source code: https://github.com/cran/geohabnet
Date/Publication: 2024-02-27 19:50:02 UTC
Number of recursive dependencies: 134

Run revdep_details(, "geohabnet") for more info

checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: --- re-building ‘LinkWeightsAnalysis.Rmd’ using rmarkdown trying URL 'https://s3.us-east-2.amazonaws.com/earthstatdata/HarvestedAreaYield175Crops_Indvidual_Geotiff/potato_HarvAreaYield_Geotiff.zip' Content type 'application/zip' length 10812124 bytes (10.3 MB) ================================================== downloaded 10.3 MB

trying URL 'https://geohabnet.s3.us-east-2.amazonaws.com/util-rasters/ZeroRaster.tif' Content type 'image/tiff' length 1056851 bytes (1.0 MB) ================================================== ... Quitting from lines 108-109 [unnamed-chunk-5] (analysis.Rmd) Error: processing vignette 'analysis.Rmd' failed with diagnostics: (/c4/home/henrik/.config/R/geohabnet/parameters.yaml) Duplicate map key: 'default' --- failed re-building ‘analysis.Rmd’

SUMMARY: processing the following file failed: ‘analysis.Rmd’

Error: Vignette re-building failed. Execution halted ```

hackeRnews

Version: 0.1.0
GitHub: https://github.com/szymanskir/hackeRnews
Source code: https://github.com/cran/hackeRnews
Date/Publication: 2019-12-13 13:20:05 UTC
Number of recursive dependencies: 68

Run revdep_details(, "hackeRnews") for more info

checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

hbamr

Version: 2.2.1
GitHub: https://github.com/jbolstad/hbamr
Source code: https://github.com/cran/hbamr
Date/Publication: 2024-02-23 12:30:02 UTC
Number of recursive dependencies: 90

Run revdep_details(, "hbamr") for more info

checking installed package size ... NOTE installed size is 353.1Mb sub-directories of 1Mb or more: libs 351.6Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

hero

Version: 0.6
GitHub: NA
Source code: https://github.com/cran/hero
Date/Publication: 2023-07-15 21:10:09 UTC
Number of recursive dependencies: 160

Run revdep_details(, "hero") for more info

checking dependencies in R code ... NOTE ``` [c4-n1:91644] OPAL ERROR: Not initialized in file pmix2x_client.c at line 109 -------------------------------------------------------------------------- The application appears to have been direct launched using "srun", but OMPI was not built with SLURM's PMI support and therefore cannot execute. There are several options for building PMI support under SLURM, depending upon the SLURM version you are using:

version 16.05 or later: you can use SLURM's PMIx support. This requires that you configure and build SLURM --with-pmix.

Versions earlier than 16.05: you must use either SLURM's PMI-1 or PMI-2 support. SLURM builds PMI-1 by default, or you can manually install PMI-2. You must then build Open MPI using --with-pmi pointing to the SLURM PMI library location.

Please configure as appropriate and try again.

```

InPAS

Version: 2.10.0
GitHub: NA
Source code: https://github.com/cran/InPAS
Date/Publication: 2023-10-24
Number of recursive dependencies: 171

Run revdep_details(, "InPAS") for more info

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: ‘adjust_distalCPs’ ‘adjust_proximalCPs’ ‘adjust_proximalCPsByNBC’ ‘adjust_proximalCPsByPWM’ ‘calculate_mse’ ‘find_valleyBySpline’ ‘get_PAscore’ ‘get_PAscore2’ ‘remove_convergentUTR3s’ ‘search_distalCPs’ ‘search_proximalCPs’

ivmte

Version: 1.4.0
GitHub: NA
Source code: https://github.com/cran/ivmte
Date/Publication: 2021-09-17 12:20:07 UTC
Number of recursive dependencies: 112

Run revdep_details(, "ivmte") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'gurobi', 'cplexAPI'

keyATM

Version: 0.5.1
GitHub: https://github.com/keyATM/keyATM
Source code: https://github.com/cran/keyATM
Date/Publication: 2024-02-04 23:30:02 UTC
Number of recursive dependencies: 107

Run revdep_details(, "keyATM") for more info

checking installed package size ... NOTE installed size is 24.7Mb sub-directories of 1Mb or more: libs 24.3Mb

MAI

Version: 1.8.0
GitHub: https://github.com/KechrisLab/MAI
Source code: https://github.com/cran/MAI
Date/Publication: 2023-10-24
Number of recursive dependencies: 178

Run revdep_details(, "MAI") for more info

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

metabolomicsR

Version: 1.0.0
GitHub: https://github.com/XikunHan/metabolomicsR
Source code: https://github.com/cran/metabolomicsR
Date/Publication: 2022-04-29 07:40:02 UTC
Number of recursive dependencies: 182

Run revdep_details(, "metabolomicsR") for more info

checking dependencies in R code ... WARNING Missing or unexported object: ‘future::multiprocess’
checking package dependencies ... NOTE Package suggested but not available for checking: ‘genuMet’

MineICA

Version: 1.42.0
GitHub: NA
Source code: https://github.com/cran/MineICA
Date/Publication: 2023-10-24
Number of recursive dependencies: 215

Run revdep_details(, "MineICA") for more info

checking dependencies in R code ... WARNING Namespace in Imports field not imported from: ‘lumiHumanAll.db’ All declared Imports should be used. Packages in Depends field not imported from: ‘GOstats’ ‘Hmisc’ ‘JADE’ ‘RColorBrewer’ ‘Rgraphviz’ ‘annotate’ ‘biomaRt’ ‘cluster’ ‘colorspace’ ‘fastICA’ ‘foreach’ ‘ggplot2’ ‘graph’ ‘gtools’ ‘igraph’ ‘marray’ ‘mclust’ ‘methods’ ‘plyr’ ‘scales’ ‘xtable’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. Missing or unexported object: ‘GOstats::geneIdsByCategory’ ':::' calls which should be '::': ‘Biobase:::annotation<-’ ‘Biobase:::validMsg’ ‘fpc:::pamk’ ‘lumi:::getChipInfo’ ‘mclust:::adjustedRandIndex’ See the note in ?`:::` about the use of this operator. Unexported object imported by a ':::' call: ‘Biobase:::isValidVersion’ See the note in ?`:::` about the use of this operator.
checking Rd cross-references ... WARNING ``` Missing link or links in documentation object 'Alist.Rd': ‘class-IcaSet’

Missing link or links in documentation object 'Slist.Rd': ‘class-IcaSet’

Missing link or links in documentation object 'class-IcaSet.Rd': ‘class-IcaSet’

Missing link or links in documentation object 'getComp.Rd': ‘class-IcaSet’

Missing link or links in documentation object 'runAn.Rd': ‘[Category:class-GOHyperGParams]{GOHyperGParams}’

See section 'Cross-references' in the 'Writing R Extensions' manual. ```
checking for missing documentation entries ... WARNING Undocumented S4 classes: ‘MineICAParams’ 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 package dependencies ... NOTE ``` Package which this enhances but not available for checking: ‘doMC’

Depends: includes the non-default packages: 'BiocGenerics', 'Biobase', 'plyr', 'ggplot2', 'scales', 'foreach', 'xtable', 'biomaRt', 'gtools', 'GOstats', 'cluster', 'marray', 'mclust', 'RColorBrewer', 'colorspace', 'igraph', 'Rgraphviz', 'graph', 'annotate', 'Hmisc', 'fastICA', 'JADE' Adding so many packages to the search path is excessive and importing selectively is preferable. ```
checking DESCRIPTION meta-information ... NOTE Packages listed in more than one of Depends, Imports, Suggests, Enhances: ‘biomaRt’ ‘GOstats’ ‘cluster’ ‘mclust’ ‘igraph’ A package should be listed in only one of these fields.
checking R code for possible problems ... NOTE addGenesToGoReport: no visible global function definition for ‘conditional’ addGenesToGoReport: no visible global function definition for ‘sigCategories’ annot2Color: no visible global function definition for ‘brewer.pal’ annot2Color: no visible global function definition for ‘heat_hcl’ annot2Color: no visible global function definition for ‘terrain_hcl’ annot2Color: no visible global function definition for ‘cm.colors’ annot2Color: no visible global function definition for ‘rainbow_hcl’ annotFeatures: no visible global function definition for ‘na.omit’ ... importFrom("methods", "callNextMethod", "new", "validObject") importFrom("stats", "aggregate", "as.dendrogram", "as.dist", "as.hclust", "chisq.test", "cor", "cor.test", "cutree", "dist", "hclust", "kmeans", "kruskal.test", "lm", "median", "na.omit", "order.dendrogram", "p.adjust", "quantile", "reorder", "shapiro.test", "wilcox.test") importFrom("utils", "capture.output", "combn", "read.table", "write.table") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods').
checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘MineICA.Rnw’ using Sweave Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:
```
IQR, mad, sd, var, xtabs
```
... l.23 \usepackage {subfig}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘MineICA.Rnw’

SUMMARY: processing the following file failed: ‘MineICA.Rnw’

Error: Vignette re-building failed. Execution halted ```

missSBM

Version: 1.0.4
GitHub: https://github.com/grossSBM/missSBM
Source code: https://github.com/cran/missSBM
Date/Publication: 2023-10-24 16:00:05 UTC
Number of recursive dependencies: 113

Run revdep_details(, "missSBM") for more info

checking whether package ‘missSBM’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/missSBM/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/missSBM/new/missSBM.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 9.8Mb sub-directories of 1Mb or more: libs 7.8Mb

MOSS

Version: 0.2.2
GitHub: https://github.com/agugonrey/MOSS
Source code: https://github.com/cran/MOSS
Date/Publication: 2022-03-25 15:50:05 UTC
Number of recursive dependencies: 183

Run revdep_details(, "MOSS") for more info

checking re-building of vignette outputs ... WARNING `` Error(s) in re-building vignettes: ... --- re-building ‘MOSS_working_example.Rmd’ using rmarkdown ! LaTeX Error: Fileiftex.sty' not found.

! Emergency stop.

Error: processing vignette 'MOSS_working_example.Rmd' failed with diagnostics: LaTeX failed to compile /c4/home/henrik/repositories/future.apply/revdep/checks/MOSS/new/MOSS.Rcheck/vign_test/MOSS/vignettes/MOSS_working_example.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See MOSS_working_example.log for more info. --- failed re-building ‘MOSS_working_example.Rmd’

SUMMARY: processing the following file failed: ‘MOSS_working_example.Rmd’

Error: Vignette re-building failed. Execution halted ```

pavo

Version: 2.9.0
GitHub: https://github.com/rmaia/pavo
Source code: https://github.com/cran/pavo
Date/Publication: 2023-09-24 10:10:02 UTC
Number of recursive dependencies: 103

Run revdep_details(, "pavo") for more info

checking whether package ‘pavo’ can be installed ... WARNING Found the following significant warnings: Warning: no DISPLAY variable so Tk is not available See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/pavo/new/pavo.Rcheck/00install.out’ for details.
checking package dependencies ... NOTE Package suggested but not available for checking: ‘imager’

phylolm

Version: 2.6.2
GitHub: https://github.com/lamho86/phylolm
Source code: https://github.com/cran/phylolm
Date/Publication: 2020-06-22 05:10:08 UTC
Number of recursive dependencies: 41

Run revdep_details(, "phylolm") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘geiger’, ‘caper’

PLNmodels

Version: 1.2.0
GitHub: https://github.com/pln-team/PLNmodels
Source code: https://github.com/cran/PLNmodels
Date/Publication: 2024-03-05 15:50:03 UTC
Number of recursive dependencies: 151

Run revdep_details(, "PLNmodels") for more info

checking whether package ‘PLNmodels’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/PLNmodels/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/PLNmodels/new/PLNmodels.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 27.5Mb sub-directories of 1Mb or more: data 1.4Mb doc 2.0Mb libs 22.4Mb

portvine

Version: 1.0.3
GitHub: https://github.com/EmanuelSommer/portvine
Source code: https://github.com/cran/portvine
Date/Publication: 2024-01-18 16:30:02 UTC
Number of recursive dependencies: 129

Run revdep_details(, "portvine") for more info

checking installed package size ... NOTE installed size is 52.9Mb sub-directories of 1Mb or more: libs 51.9Mb

QDNAseq

Version: 1.38.0
GitHub: https://github.com/ccagc/QDNAseq
Source code: https://github.com/cran/QDNAseq
Date/Publication: 2023-10-24
Number of recursive dependencies: 88

Run revdep_details(, "QDNAseq") for more info

checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: --- re-building ‘QDNAseq.Rnw’ using Sweave EM algorithm started ...

Warning in allprior/tot : Recycling array of length 1 in vector-array arithmetic is deprecated. Use c() or as.vector() instead.

Warning in allprior/tot : Recycling array of length 1 in vector-array arithmetic is deprecated. ... l.196 \RequirePackage {parnotes}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘QDNAseq.Rnw’

SUMMARY: processing the following file failed: ‘QDNAseq.Rnw’

Error: Vignette re-building failed. Execution halted ```

receptiviti

Version: 0.1.7
GitHub: https://github.com/Receptiviti/receptiviti-r
Source code: https://github.com/cran/receptiviti
Date/Publication: 2024-02-23 23:50:05 UTC
Number of recursive dependencies: 66

Run revdep_details(, "receptiviti") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(receptiviti) > > test_check("receptiviti") Status: ERROR Message: 400 ...
1. └─receptiviti::receptiviti(...) ── Failure ('test-receptiviti_status.R:5:3'): failures works ─────────────────── receptiviti_status(...) is not NULL
actual is a list expected is NULL

[ FAIL 2 | WARN 0 | SKIP 2 | PASS 6 ] Error: Test failures Execution halted ```

robotstxt

Version: 0.7.13
GitHub: https://github.com/ropensci/robotstxt
Source code: https://github.com/cran/robotstxt
Date/Publication: 2020-09-03 19:30:02 UTC
Number of recursive dependencies: 69

Run revdep_details(, "robotstxt") for more info

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘future’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

sctransform

Version: 0.4.1
GitHub: https://github.com/satijalab/sctransform
Source code: https://github.com/cran/sctransform
Date/Publication: 2023-10-19 04:40:02 UTC
Number of recursive dependencies: 68

Run revdep_details(, "sctransform") for more info

checking whether package ‘sctransform’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/sctransform/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/sctransform/new/sctransform.Rcheck/00install.out’ for details.
checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘glmGamPoi’

sdmApp

Version: 0.0.2
GitHub: https://github.com/Abson-dev/sdmApp
Source code: https://github.com/cran/sdmApp
Date/Publication: 2021-07-07 08:30:02 UTC
Number of recursive dependencies: 173

Run revdep_details(, "sdmApp") for more info

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

sdmTMB

Version: 0.4.3
GitHub: https://github.com/pbs-assess/sdmTMB
Source code: https://github.com/cran/sdmTMB
Date/Publication: 2024-02-29 01:40:02 UTC
Number of recursive dependencies: 115

Run revdep_details(, "sdmTMB") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: 'test-deprecated-args.R:2:3', 'test-deprecated-args.R:67:3', 'test-dharma.R:3:3', 'test-extra-optimization.R:2:3', 'test-extra-time.R:3:3', 'test-extra-time.R:42:3', 'test-extra-time.R:116:3', 'test-factor-levels.R:2:3', 'test-factor-levels.R:37:3', 'test-factor-levels.R:91:3', 'test-forecasting.R:2:3', 'test-index.R:3:3', 'test-link-prediction.R:5:3', 'test-link-prediction.R:67:3', ... [6] -0.37427778 - -0.37427783 [6] [7] -0.01713492 - -0.01713497 [7] [8] 0.14953175 - 0.14953169 [8] [9] -0.51713492 - -0.51713497 [9] [10] 0.08286508 - 0.08286503 [10] ... ... ... and 290 more ...

[ FAIL 1 | WARN 0 | SKIP 146 | PASS 151 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE installed size is 105.4Mb sub-directories of 1Mb or more: libs 103.7Mb

sentopics

Version: 0.7.2
GitHub: https://github.com/odelmarcelle/sentopics
Source code: https://github.com/cran/sentopics
Date/Publication: 2023-05-28 09:50:02 UTC
Number of recursive dependencies: 173

Run revdep_details(, "sentopics") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > > library("testthat") > library("sentopics") > > if (Sys.getenv("R_COVR") != "true") {
- test_check("sentopics") ... }), by = c("date", "doc_id", "title"))`: j doesn't evaluate to the same number of columns for each group Backtrace: ▆
- └─sentopics:::get_ECB_press_conferences(years = 1998) at test-others.R:2:3
- ├─...[]
- └─data.table::[.data.table(...)
[ FAIL 1 | WARN 8 | SKIP 1 | PASS 326 ] Error: Test failures Execution halted ```
checking whether package ‘sentopics’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/sentopics/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/sentopics/new/sentopics.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 8.1Mb sub-directories of 1Mb or more: data 1.2Mb libs 6.2Mb
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘lexicon’
checking data for non-ASCII characters ... NOTE Note: found 3128 marked UTF-8 strings

Seurat

Version: 5.0.3
GitHub: https://github.com/satijalab/seurat
Source code: https://github.com/cran/Seurat
Date/Publication: 2024-03-18 23:40:02 UTC
Number of recursive dependencies: 266

Run revdep_details(, "Seurat") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'BPCells', 'presto'
checking installed package size ... NOTE installed size is 16.0Mb sub-directories of 1Mb or more: R 1.7Mb libs 13.5Mb
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘Signac’

SeuratObject

Version: 5.0.1
GitHub: https://github.com/mojaveazure/seurat-object
Source code: https://github.com/cran/SeuratObject
Date/Publication: 2023-11-17 22:40:16 UTC
Number of recursive dependencies: 102

Run revdep_details(, "SeuratObject") for more info

checking package dependencies ... NOTE ``` Package suggested but not available for checking: ‘BPCells’

Package which this enhances but not available for checking: ‘Seurat’ ```
checking installed package size ... NOTE installed size is 5.4Mb sub-directories of 1Mb or more: R 1.5Mb libs 3.2Mb
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘plotly’

sharp

Version: 1.4.6
GitHub: https://github.com/barbarabodinier/sharp
Source code: https://github.com/cran/sharp
Date/Publication: 2024-02-03 17:30:02 UTC
Number of recursive dependencies: 156

Run revdep_details(, "sharp") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘rCOSA’
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘rCOSA’

Signac

Version: 1.12.0
GitHub: https://github.com/stuart-lab/signac
Source code: https://github.com/cran/Signac
Date/Publication: 2023-11-08 09:30:02 UTC
Number of recursive dependencies: 253

Run revdep_details(, "Signac") for more info

checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: R 1.1Mb libs 2.9Mb

signeR

Version: 2.4.0
GitHub: https://github.com/TojalLab/signeR
Source code: https://github.com/cran/signeR
Date/Publication: 2023-10-24
Number of recursive dependencies: 244

Run revdep_details(, "signeR") for more info

checking whether package ‘signeR’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/signeR/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/signeR/new/signeR.Rcheck/00install.out’ for details.
checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: R 1.2Mb doc 4.5Mb
checking R code for possible problems ... NOTE covariate: no visible binding for global variable ‘.’ explorepage: no visible binding for global variable ‘.’ genCountMatrixFromMAF: no visible binding for global variable ‘Variant_Type’ genCountMatrixFromMAF: no visible binding for global variable ‘Reference_Allele’ genCountMatrixFromMAF: no visible binding for global variable ‘Tumor_Seq_Allele2’ genCountMatrixFromMAF: no visible binding for global variable ‘Tumor_Seq_Allele1’ ... ExposureCorrelation,SignExp-numeric: no visible binding for global variable ‘exposure’ ExposureCorrelation,matrix-numeric: no visible binding for global variable ‘Feature’ ExposureCorrelation,matrix-numeric: no visible binding for global variable ‘exposure’ Undefined global functions or variables: . Col Feature Frequency Reference_Allele Row Samples Signatures Tumor_Seq_Allele1 Tumor_Seq_Allele2 Variant_Type alt<- exposure fc project sig sig_test
checking Rd files ... NOTE prepare_Rd: cosmic_data.Rd:91-93: Dropping empty section \details prepare_Rd: cosmic_data.Rd:98-100: Dropping empty section \references prepare_Rd: cosmic_data.Rd:101-102: Dropping empty section \examples prepare_Rd: tcga_similarities.Rd:96-98: Dropping empty section \details prepare_Rd: tcga_similarities.Rd:99-101: Dropping empty section \source prepare_Rd: tcga_similarities.Rd:102-104: Dropping empty section \references prepare_Rd: tcga_similarities.Rd:105-106: Dropping empty section \examples prepare_Rd: tcga_tumors.Rd:18-20: Dropping empty section \details prepare_Rd: tcga_tumors.Rd:21-23: Dropping empty section \source prepare_Rd: tcga_tumors.Rd:24-26: Dropping empty section \references prepare_Rd: tcga_tumors.Rd:27-28: Dropping empty section \examples

SimDesign

Version: 2.14
GitHub: https://github.com/philchalmers/SimDesign
Source code: https://github.com/cran/SimDesign
Date/Publication: 2024-01-09 09:10:11 UTC
Number of recursive dependencies: 123

Run revdep_details(, "SimDesign") for more info

checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: --- re-building ‘Catch_errors.Rmd’ using rmarkdown --- finished re-building ‘Catch_errors.Rmd’

--- re-building ‘Fixed_obj_fun.Rmd’ using rmarkdown

Quitting from lines 65-69 [unnamed-chunk-5] (Fixed_obj_fun.Rmd) Error: processing vignette 'Fixed_obj_fun.Rmd' failed with diagnostics: creation of server socket failed: port 11240 cannot be opened --- failed re-building ‘Fixed_obj_fun.Rmd’ ... --- finished re-building ‘Saving-results.Rmd’

--- re-building ‘SimDesign-intro.Rmd’ using rmarkdown --- finished re-building ‘SimDesign-intro.Rmd’

SUMMARY: processing the following file failed: ‘Fixed_obj_fun.Rmd’

Error: Vignette re-building failed. Execution halted ```

checking installed package size ... NOTE installed size is 5.8Mb sub-directories of 1Mb or more: doc 5.2Mb

smoots

Version: 1.1.4
GitHub: NA
Source code: https://github.com/cran/smoots
Date/Publication: 2023-09-11 08:50:02 UTC
Number of recursive dependencies: 75

Run revdep_details(, "smoots") for more info

checking whether package ‘smoots’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/smoots/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/smoots/new/smoots.Rcheck/00install.out’ for details.

solitude

Version: 1.1.3
GitHub: https://github.com/talegari/solitude
Source code: https://github.com/cran/solitude
Date/Publication: 2021-07-29 20:00:02 UTC
Number of recursive dependencies: 131

Run revdep_details(, "solitude") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘R6’ ‘lgr’ All declared Imports should be used.

spaMM

Version: 4.4.16
GitHub: NA
Source code: https://github.com/cran/spaMM
Date/Publication: 2023-12-20 13:50:02 UTC
Number of recursive dependencies: 102

Run revdep_details(, "spaMM") for more info

checking package dependencies ... NOTE ``` Packages suggested but not available for checking: 'Infusion', 'blackbox'

Packages which this enhances but not available for checking: 'multcomp', 'RLRsim', 'lmerTest' ```
checking installed package size ... NOTE installed size is 56.9Mb sub-directories of 1Mb or more: R 2.7Mb libs 52.9Mb

SPARSEMODr

Version: 1.2.0
GitHub: https://github.com/NAU-CCL/SPARSEMODr
Source code: https://github.com/cran/SPARSEMODr
Date/Publication: 2022-07-19 20:50:02 UTC
Number of recursive dependencies: 127

Run revdep_details(, "SPARSEMODr") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘future’ ‘geosphere’ ‘lubridate’ ‘tidyverse’ ‘viridis’ All declared Imports should be used.

spatialwarnings

Version: 3.0.3
GitHub: https://github.com/spatial-ews/spatialwarnings
Source code: https://github.com/cran/spatialwarnings
Date/Publication: 2022-03-21 13:00:02 UTC
Number of recursive dependencies: 97

Run revdep_details(, "spatialwarnings") for more info

checking whether package ‘spatialwarnings’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/spatialwarnings/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/spatialwarnings/new/spatialwarnings.Rcheck/00install.out’ for details.
checking Rd cross-references ... WARNING ``` Missing link or links in documentation object 'indictest.Rd': ‘mgcv’

See section 'Cross-references' in the 'Writing R Extensions' manual. ```
checking installed package size ... NOTE installed size is 7.0Mb sub-directories of 1Mb or more: libs 6.0Mb

spNetwork

Version: 0.4.3.8
GitHub: https://github.com/JeremyGelb/spNetwork
Source code: https://github.com/cran/spNetwork
Date/Publication: 2023-08-24 11:20:05 UTC
Number of recursive dependencies: 143

Run revdep_details(, "spNetwork") for more info

checking whether package ‘spNetwork’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/spNetwork/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/spNetwork/new/spNetwork.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 25.5Mb sub-directories of 1Mb or more: doc 1.0Mb extdata 2.6Mb libs 20.5Mb

stars

Version: 0.6-4
GitHub: https://github.com/r-spatial/stars
Source code: https://github.com/cran/stars
Date/Publication: 2023-09-11 11:50:02 UTC
Number of recursive dependencies: 165

Run revdep_details(, "stars") for more info

checking examples ...sh: line 1: 39634 Aborted (core dumped) LANGUAGE=en R_CHECK_INTERNALS2=1 '/software/c4/cbi/software/_centos7/R-4.3.3-gcc10/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'stars-Ex.Rout' 2>&1 < 'stars-Ex.R' ``` ERROR Running examples in ‘stars-Ex.R’ failed The error most likely occurred in:

Name: mdim

Title: Read or write data using GDAL's multidimensional array API

Aliases: mdim read_mdim write_mdim

** Examples

... dmalloc: no Packages w/ extra debug output: none API tracing: no Using memory checker: no Memory allocation sanity checks: no Function stack tracing: no Use file locking: best-effort Strict file format checks: no Optimization instrumentation: no Bye... ```

checking examples ...sh: line 1: 39641 Aborted (core dumped) LANGUAGE=en R_CHECK_INTERNALS2=1 '/software/c4/cbi/software/_centos7/R-4.3.3-gcc10/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'stars-Ex.Rout' 2>&1 < 'stars-Ex.R' ``` ERROR Running examples in ‘stars-Ex.R’ failed The error most likely occurred in:

Name: mdim

Title: Read or write data using GDAL's multidimensional array API

Aliases: mdim read_mdim write_mdim

** Examples

... dmalloc: no Packages w/ extra debug output: none API tracing: no Using memory checker: no Memory allocation sanity checks: no Function stack tracing: no Use file locking: best-effort Strict file format checks: no Optimization instrumentation: no Bye... ```

checking tests ... Running ‘aggregate.R’ Comparing ‘aggregate.Rout’ to ‘aggregate.Rout.save’ ...4c4 < Linking to GEOS 3.11.2, GDAL 3.6.4, PROJ 8.2.1; sf_use_s2() is TRUE --- > Linking to GEOS 3.11.2, GDAL 3.6.2, PROJ 9.2.0; sf_use_s2() is TRUE Running ‘align.R’ Comparing ‘align.Rout’ to ‘align.Rout.save’ ... OK Running ‘area.R’ Comparing ‘area.Rout’ to ‘area.Rout.save’ ... OK Running ‘crop.R’ ... dmalloc: no Packages w/ extra debug output: none API tracing: no Using memory checker: no Memory allocation sanity checks: no Function stack tracing: no Use file locking: best-effort Strict file format checks: no Optimization instrumentation: no Bye...
checking package dependencies ... NOTE Package suggested but not available for checking: ‘starsdata’
checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: doc 2.4Mb nc 1.7Mb

stppSim

Version: 1.3.2
GitHub: https://github.com/Manalytics/stppSim
Source code: https://github.com/cran/stppSim
Date/Publication: 2023-10-29 21:20:02 UTC
Number of recursive dependencies: 130

Run revdep_details(, "stppSim") for more info

checking whether package ‘stppSim’ can be installed ... WARNING Found the following significant warnings: Warning: no DISPLAY variable so Tk is not available See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/stppSim/new/stppSim.Rcheck/00install.out’ for details.

targeted

Version: 0.5
GitHub: https://github.com/kkholst/targeted
Source code: https://github.com/cran/targeted
Date/Publication: 2024-02-22 10:00:21 UTC
Number of recursive dependencies: 97

Run revdep_details(, "targeted") for more info

checking whether package ‘targeted’ can be installed ... WARNING Found the following significant warnings: /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:63:13: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:65:7: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] /c4/home/henrik/repositories/future.apply/revdep/library/targeted/RcppArmadillo/include/armadillo_bits/fn_reshape.hpp:74:9: warning: ‘arma::Mat<typename T1::elem_type> arma::reshape(const arma::Base<typename T1::elem_type, T1>&, arma::uword, arma::uword, arma::uword)’ is deprecated: don't use this form: it will be removed [-Wdeprecated-declarations] See ‘/c4/home/henrik/repositories/future.apply/revdep/checks/targeted/new/targeted.Rcheck/00install.out’ for details.
checking installed package size ... NOTE installed size is 22.4Mb sub-directories of 1Mb or more: doc 1.1Mb libs 20.9Mb

TreeMineR

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/TreeMineR
Date/Publication: 2024-03-22 20:10:06 UTC
Number of recursive dependencies: 49

Run revdep_details(, "TreeMineR") for more info

checking data for non-ASCII characters ... NOTE Note: found 3 marked UTF-8 strings

tsdistributions

Version: 1.0.0
GitHub: https://github.com/tsmodels/tsdistributions
Source code: https://github.com/cran/tsdistributions
Date/Publication: 2024-03-17 09:10:05 UTC
Number of recursive dependencies: 71

Run revdep_details(, "tsdistributions") for more info

checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: ... --- re-building ‘estimation_demo.Rmd’ using rmarkdown --- finished re-building ‘estimation_demo.Rmd’

--- re-building ‘location_scale_distributions.Rmd’ using rmarkdown ! LaTeX Error: File `iftex.sty' not found.

! Emergency stop. ... --- failed re-building ‘location_scale_distributions.Rmd’

--- re-building ‘profile_demo.Rmd’ using rmarkdown --- finished re-building ‘profile_demo.Rmd’

SUMMARY: processing the following file failed: ‘location_scale_distributions.Rmd’

Error: Vignette re-building failed. Execution halted ```
checking installed package size ... NOTE installed size is 42.4Mb sub-directories of 1Mb or more: libs 41.8Mb

txshift

Version: 0.3.8
GitHub: https://github.com/nhejazi/txshift
Source code: https://github.com/cran/txshift
Date/Publication: 2022-02-09 22:30:02 UTC
Number of recursive dependencies: 112

Run revdep_details(, "txshift") for more info

checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘sl3’

XNAString

Version: 1.10.0
GitHub: NA
Source code: https://github.com/cran/XNAString
Date/Publication: 2023-10-24
Number of recursive dependencies: 105

Run revdep_details(, "XNAString") for more info

checking compiled code ... WARNING ``` File ‘XNAString/libs/XNAString.so’: Found ‘rand’, possibly from ‘rand’ (C) Object: ‘./ViennaRNA/utils/utils.o’ Found ‘sprintf’, possibly from ‘sprintf’ (C) Objects: ‘./ViennaRNA/part_func_up.o’, ‘./ViennaRNA/RNAstruct.o’, ‘./ViennaRNA/model.o’ Found ‘srand’, possibly from ‘srand’ (C) Object: ‘./ViennaRNA/utils/utils.o’

Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs nor [v]sprintf.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. ```
checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 11.2Mb sub-directories of 1Mb or more: doc 1.0Mb libs 9.5Mb
checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file.

HenrikBengtsson/future.apply documentation built on April 2, 2024, 9:31 p.m.

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HenrikBengtsson/future.apply Apply Function to Elements in Parallel using Futures

revdep/problems.md In HenrikBengtsson/future.apply: Apply Function to Elements in Parallel using Futures

AIPW

In both

altdoc

In both

arkdb

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BAMBI

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BEKKs

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bigDM

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blavaan

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brms

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clickR

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collinear

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cSEM

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deseats

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dipsaus

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EFAtools

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EpiNow2

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forecastML

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genBaRcode

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geocmeans

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geohabnet

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hackeRnews

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hbamr

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hero

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Please configure as appropriate and try again.

InPAS

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ivmte

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keyATM

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MAI

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metabolomicsR

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MineICA

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missSBM

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MOSS

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pavo

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phylolm

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PLNmodels

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portvine

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QDNAseq

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receptiviti

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robotstxt

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sctransform

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sdmApp

HenrikBengtsson/future.apply
Apply Function to Elements in Parallel using Futures

revdep/problems.md
In HenrikBengtsson/future.apply: Apply Function to Elements in Parallel using Futures