future: Unified Parallel and Distributed Processing in R for Everyone

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: 102

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.

AlpsNMR

Version: 4.4.0
GitHub: https://github.com/sipss/AlpsNMR
Source code: https://github.com/cran/AlpsNMR
Date/Publication: 2023-10-24
Number of recursive dependencies: 187

Run revdep_details(, "AlpsNMR") for more info

checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: ... --- re-building ‘Vig01-introduction-to-alpsnmr.Rmd’ using rmarkdown Error: processing vignette 'Vig01-introduction-to-alpsnmr.Rmd' failed with diagnostics: LaTeX failed to compile /wynton/home/cbi/hb/repositories/future/revdep/checks/AlpsNMR/new/AlpsNMR.Rcheck/vign_test/AlpsNMR/vignettes/Vig01-introduction-to-alpsnmr.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. --- failed re-building ‘Vig01-introduction-to-alpsnmr.Rmd’

--- re-building ‘Vig01b-introduction-to-alpsnmr-old-api.Rmd’ using rmarkdown Error: processing vignette 'Vig01b-introduction-to-alpsnmr-old-api.Rmd' failed with diagnostics: LaTeX failed to compile /wynton/home/cbi/hb/repositories/future/revdep/checks/AlpsNMR/new/AlpsNMR.Rcheck/vign_test/AlpsNMR/vignettes/Vig01b-introduction-to-alpsnmr-old-api.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. ... LaTeX failed to compile /wynton/home/cbi/hb/repositories/future/revdep/checks/AlpsNMR/new/AlpsNMR.Rcheck/vign_test/AlpsNMR/vignettes/Vig02-handling-metadata-and-annotations.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. --- failed re-building ‘Vig02-handling-metadata-and-annotations.Rmd’

SUMMARY: processing the following files failed: ‘Vig01-introduction-to-alpsnmr.Rmd’ ‘Vig01b-introduction-to-alpsnmr-old-api.Rmd’ ‘Vig02-handling-metadata-and-annotations.Rmd’

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

aroma.core

Version: 3.3.0
GitHub: https://github.com/HenrikBengtsson/aroma.core
Source code: https://github.com/cran/aroma.core
Date/Publication: 2022-11-15 18:30:13 UTC
Number of recursive dependencies: 72

Run revdep_details(, "aroma.core") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'sfit', 'expectile', 'HaarSeg', 'mpcbs'

bamm

Version: 0.4.3
GitHub: https://github.com/luismurao/bamm
Source code: https://github.com/cran/bamm
Date/Publication: 2022-12-20 11:10:05 UTC
Number of recursive dependencies: 109

Run revdep_details(, "bamm") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

batchtools

Version: 0.9.17
GitHub: https://github.com/mllg/batchtools
Source code: https://github.com/cran/batchtools
Date/Publication: 2023-04-20 14:20:06 UTC
Number of recursive dependencies: 84

Run revdep_details(, "batchtools") for more info

checking dependencies in R code ... NOTE ``` dev3:pid2802163: PSM3 can't open nic unit: 0 (err=23) dev3:pid2802163.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid2802163.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) dev3:pid2802163: PSM3 can't open nic unit: 0 (err=23) dev3:pid2802163.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid2802163.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) dev3:pid2802163: PSM3 can't open nic unit: 0 (err=23) dev3:pid2802163.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid2802163.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) -------------------------------------------------------------------------- ... dev3:pid2802163.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid2802163.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) -------------------------------------------------------------------------- Open MPI failed an OFI Libfabric library call (fi_endpoint). This is highly unusual; your job may behave unpredictably (and/or abort) after this.

Local host: dev3 Location: mtl_ofi_component.c:513 Error: Invalid argument (22)

```
checking for detritus in the temp directory ... NOTE Found the following files/directories: ‘ompi.dev3.34002’

BEKKs

Version: 1.4.3
GitHub: NA
Source code: https://github.com/cran/BEKKs
Date/Publication: 2023-03-26 11:00:02 UTC
Number of recursive dependencies: 99

Run revdep_details(, "BEKKs") for more info

checking installed package size ... NOTE installed size is 7.6Mb sub-directories of 1Mb or more: libs 7.3Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘forecast’ All declared Imports should be used.

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: 135

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

bistablehistory

Version: 1.1.2
GitHub: https://github.com/alexander-pastukhov/bistablehistory
Source code: https://github.com/cran/bistablehistory
Date/Publication: 2023-09-13 13:20:09 UTC
Number of recursive dependencies: 92

Run revdep_details(, "bistablehistory") for more info

checking installed package size ... NOTE installed size is 22.5Mb sub-directories of 1Mb or more: libs 22.3Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

blavaan

Version: 0.5-2
GitHub: NA
Source code: https://github.com/cran/blavaan
Date/Publication: 2023-09-25 22:20:02 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 53.8Mb sub-directories of 1Mb or more: R 1.2Mb libs 52.6Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

brms

Version: 2.20.4
GitHub: https://github.com/paul-buerkner/brms
Source code: https://github.com/cran/brms
Date/Publication: 2023-09-25 19:00:09 UTC
Number of recursive dependencies: 200

Run revdep_details(, "brms") for more info

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

brpop

Version: 0.3.0
GitHub: NA
Source code: https://github.com/cran/brpop
Date/Publication: 2023-10-24 13:20:02 UTC
Number of recursive dependencies: 45

Run revdep_details(, "brpop") for more info

checking tests ... `` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: Backtrace: ▆ 1. ├─brpop::regsaude_female_pop(type = "reg_saude_449") at test-regsaude_female_pop.R:8:3 2. │ └─... %>% dplyr::ungroup() 3. ├─dplyr::ungroup(.) 4. ├─dplyr::collect(.) ... 7. │ └─multidplyr::cluster_assign_each(cluster,:=`(!!name, shards)) 8. │ └─multidplyr::cluster_assign(...) 9. └─base::loadNamespace(x)
1. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
2. └─base (local) withOneRestart(expr, restarts[[1L]])
3. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 6 | WARN 0 | SKIP 0 | PASS 6 ] Error: Test failures Execution halted ```

campsis

Version: 1.5.0
GitHub: https://github.com/Calvagone/campsis
Source code: https://github.com/cran/campsis
Date/Publication: 2023-10-13 13:40:02 UTC
Number of recursive dependencies: 161

Run revdep_details(, "campsis") for more info

checking tests ... Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: comment = NA_character_), new("theta", unit = NA_character_, name = "V2", index = 3L, value = 80, fix = FALSE, label = NA_character_, comment = NA_character_), new("theta", unit = NA_character_, name = "V3", index = 4L, value = 20, fix = FALSE, label = NA_character_, comment = NA_character_), new("theta", unit = NA_character_, name = "Q", index = 5L, value = 4, fix = FALSE, label = NA_character_, ... Deleting unused snapshots: • testDefaultPlots/scatterplot-colour-scenario.svg • testDefaultPlots/scatterplot-no-colour.svg • testDefaultPlots/shadedplot-colour-arm-strat-wt.svg • testDefaultPlots/shadedplot-colour-arm-wt-strat-wt.svg • testDefaultPlots/shadedplot-colour-scenario.svg • testDefaultPlots/spaghettiplot-colour-arm-strat-wt.svg • testDefaultPlots/spaghettiplot-colour-scenario.svg Error: Test failures Execution halted
checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: ... --- re-building ‘campsis.Rmd’ using rmarkdown

Quitting from lines 43-45 [unnamed-chunk-4] (campsis.Rmd) Error: processing vignette 'campsis.Rmd' failed with diagnostics: ℹ In index: 1. Caused by error: ℹ In index: 1. Caused by error in loadNamespace(): ! there is no package called 'qs' --- failed re-building ‘campsis.Rmd’

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

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

ceRNAnetsim

Version: 1.14.1
GitHub: https://github.com/selcenari/ceRNAnetsim
Source code: https://github.com/cran/ceRNAnetsim
Date/Publication: 2023-12-18
Number of recursive dependencies: 101

Run revdep_details(, "ceRNAnetsim") for more info

checking R code for possible problems ... NOTE simulate: no visible binding for global variable ‘avg_count_current’ simulate: no visible binding for global variable ‘avg_count_pre’ Undefined global functions or variables: avg_count_current avg_count_pre

ChromSCape

Version: 1.12.0
GitHub: https://github.com/vallotlab/ChromSCape
Source code: https://github.com/cran/ChromSCape
Date/Publication: 2023-10-25
Number of recursive dependencies: 235

Run revdep_details(, "ChromSCape") for more info

checking package dependencies ... ERROR ``` Package required but not available: ‘qs’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```

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

codebook

Version: 0.9.2
GitHub: https://github.com/rubenarslan/codebook
Source code: https://github.com/cran/codebook
Date/Publication: 2020-06-06 23:40:03 UTC
Number of recursive dependencies: 158

Run revdep_details(, "codebook") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘userfriendlyscience’
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘graphics’ ‘jsonlite’ ‘rlang’ ‘tidyselect’ ‘vctrs’ All declared Imports should be used.
checking data for non-ASCII characters ... NOTE Note: found 65 marked UTF-8 strings

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: 128

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.

CSGo

Version: 0.6.7
GitHub: https://github.com/adsoncostanzifilho/CSGo
Source code: https://github.com/cran/CSGo
Date/Publication: 2021-05-07 18:50:02 UTC
Number of recursive dependencies: 77

Run revdep_details(, "CSGo") for more info

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

dispositionEffect

Version: 1.0.1
GitHub: https://github.com/marcozanotti/dispositionEffect
Source code: https://github.com/cran/dispositionEffect
Date/Publication: 2022-05-30 07:50:02 UTC
Number of recursive dependencies: 136

Run revdep_details(, "dispositionEffect") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: ── Failure ('test-realized_duration.R:113:2'): realized_duration works (realized_only = TRUE) ── realized_duration(...) not equal to c(...). 1/4 mismatches [2] 34 - 28 == 6 ── Failure ('test-realized_duration.R:116:2'): realized_duration works (realized_only = TRUE) ── realized_duration(...) not equal to c(...). ... 1/4 mismatches [2] 34 - 28 == 6 ── Failure ('test-realized_duration.R:161:2'): realized_duration works (realized_only = TRUE) ── realized_duration(...) not equal to c(...). 1/4 mismatches [1] 34 - 28 == 6

[ FAIL 36 | WARN 0 | SKIP 0 | PASS 331 ] Error: Test failures Execution halted ```

dragon

Version: 1.2.1
GitHub: https://github.com/sjspielman/dragon
Source code: https://github.com/cran/dragon
Date/Publication: 2022-04-08 08:42:33 UTC
Number of recursive dependencies: 131

Run revdep_details(, "dragon") for more info

checking package subdirectories ... NOTE Problems with news in ‘NEWS.md’: No news entries found.
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘htmltools’ All declared Imports should be used.

drake

Version: 7.13.8
GitHub: https://github.com/ropensci/drake
Source code: https://github.com/cran/drake
Date/Publication: 2023-11-06 15:40:02 UTC
Number of recursive dependencies: 165

Run revdep_details(, "drake") for more info

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

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: 94

Run revdep_details(, "EFAtools") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘progress’ All declared Imports should be used.

EGAnet

Version: 2.0.3
GitHub: https://github.com/hfgolino/EGAnet
Source code: https://github.com/cran/EGAnet
Date/Publication: 2023-11-17 17:30:05 UTC
Number of recursive dependencies: 190

Run revdep_details(, "EGAnet") for more info

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

Name: community.detection

Title: Apply a Community Detection Algorithm

Aliases: community.detection

** Examples

Load data

... 1 1 1 1 1 2 2 2 3 3 2 2 3 wmt14 wmt15 wmt16 wmt17 wmt18 3 2 3 2 2

Compute Optimal (identifies maximum modularity solution)

community.detection(network, algorithm = "optimal") Error in (function (graph, weights = NULL) : At core/community/optimal_modularity.c:86 : GLPK is not available, Unimplemented function call Calls: community.detection -> do.call -> Execution halted ```

envi

Version: 0.1.17
GitHub: https://github.com/lance-waller-lab/envi
Source code: https://github.com/cran/envi
Date/Publication: 2023-02-02 00:40:02 UTC
Number of recursive dependencies: 110

Run revdep_details(, "envi") for more info

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

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: 129

Run revdep_details(, "EpiNow2") for more info

checking installed package size ... NOTE installed size is 77.1Mb sub-directories of 1Mb or more: libs 76.3Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

epitweetr

Version: 2.2.16
GitHub: https://github.com/EU-ECDC/epitweetr
Source code: https://github.com/cran/epitweetr
Date/Publication: 2023-11-15 09:30:08 UTC
Number of recursive dependencies: 149

Run revdep_details(, "epitweetr") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘taskscheduleR’
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘httpuv’ ‘knitr’ ‘plyr’ ‘tidyverse’ ‘xml2’ All declared Imports should be used.

fastRhockey

Version: 0.4.0
GitHub: https://github.com/sportsdataverse/fastRhockey
Source code: https://github.com/cran/fastRhockey
Date/Publication: 2022-10-25 20:55:15 UTC
Number of recursive dependencies: 116

Run revdep_details(, "fastRhockey") for more info

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

fdacluster

Version: 0.3.0
GitHub: https://github.com/astamm/fdacluster
Source code: https://github.com/cran/fdacluster
Date/Publication: 2023-07-04 15:53:04 UTC
Number of recursive dependencies: 120

Run revdep_details(, "fdacluster") for more info

checking installed package size ... NOTE installed size is 9.6Mb sub-directories of 1Mb or more: R 1.7Mb libs 7.8Mb

fect

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/fect
Date/Publication: 2022-10-14 09:52:32 UTC
Number of recursive dependencies: 81

Run revdep_details(, "fect") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 7.5Mb sub-directories of 1Mb or more: libs 6.4Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘panelView’ All declared Imports should be used.

FLAMES

Version: 1.8.0
GitHub: https://github.com/OliverVoogd/FLAMES
Source code: https://github.com/cran/FLAMES
Date/Publication: 2023-10-24
Number of recursive dependencies: 255

Run revdep_details(, "FLAMES") for more info

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

Name: sc_heatmap_expression

Title: FLAMES heetmap plots

Aliases: sc_heatmap_expression

** Examples

combined_sce <- combine_sce( ... sc_heatmap_expression(gene = "ENSG00000108107", multiAssay = combined_sce) Running PCA for experiments(multiAssay)$gene_counts ... harmonizing input: removing 257 sampleMap rows with 'colname' not in colnames of experiments removing 236 colData rownames not in sampleMap 'primary' Running UMAP for experiments(multiAssay)$gene_counts ... Error in irlba::irlba(L, nv = n, nu = 0, maxit = iters) : function 'as_cholmod_sparse' not provided by package 'Matrix' Calls: sc_heatmap_expression ... irlba_tsvd_normalized_laplacian_init -> irlba_spectral_tsvd Execution halted ```
checking for hidden files and directories ... NOTE Found the following hidden files and directories: .BBSoptions These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
checking whether package ‘FLAMES’ can be installed ... NOTE Found the following notes/warnings: Non-staged installation was used See ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/FLAMES/new/FLAMES.Rcheck/00install.out’ for details.
checking R code for possible problems ... NOTE annotation_to_fasta: no visible global function definition for 'write.table' generate_sc_sce: no visible binding for global variable 'FSM_match' plot_coverage: no visible binding for global variable 'x' plot_coverage: no visible binding for global variable 'transcript' plot_coverage: no visible binding for global variable 'length_bin' plot_demultiplex: no visible binding for global variable 'Freq' plot_demultiplex: no visible binding for global variable '.' plot_demultiplex: no visible binding for global variable 'x' plot_demultiplex: no visible binding for global variable ... sc_umap_expression : plot_idx: no visible binding for global variable 'y' transcript_coverage: no visible binding for global variable 'mat' Undefined global functions or variables: . BarcodeEditDist FSM_match FlankEditDist Freq all_vars cell_id cnt everything gene_id heatmap_annotation_colors label length_bin mat n name tr_id transcript transcript_id value write.table x y Consider adding importFrom("utils", "write.table") to your NAMESPACE file.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

flowGraph

Version: 1.10.0
GitHub: https://github.com/aya49/flowGraph
Source code: https://github.com/cran/flowGraph
Date/Publication: 2023-10-24
Number of recursive dependencies: 94

Run revdep_details(, "flowGraph") for more info

checking R code for possible problems ... NOTE get_child: no visible binding for global variable ‘no_cores’ get_paren: no visible binding for global variable ‘no_cores’ ms_psig: no visible binding for global variable ‘meta’ Undefined global functions or variables: meta no_cores
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘doParallel’
checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘temp’ ‘tmp’

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: 105

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.

future.batchtools

Version: 0.12.1
GitHub: https://github.com/HenrikBengtsson/future.batchtools
Source code: https://github.com/cran/future.batchtools
Date/Publication: 2023-12-20 12:20:02 UTC
Number of recursive dependencies: 36

Run revdep_details(, "future.batchtools") for more info

checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘.future-set-during-startup’

googleComputeEngineR

Version: 0.3.0
GitHub: https://github.com/cloudyr/googleComputeEngineR
Source code: https://github.com/cran/googleComputeEngineR
Date/Publication: 2019-05-04 22:40:02 UTC
Number of recursive dependencies: 69

Run revdep_details(, "googleComputeEngineR") for more info

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

googleTagManageR

Version: 0.2.0
GitHub: NA
Source code: https://github.com/cran/googleTagManageR
Date/Publication: 2022-04-16 18:12:29 UTC
Number of recursive dependencies: 71

Run revdep_details(, "googleTagManageR") for more info

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

greed

Version: 0.6.1
GitHub: https://github.com/comeetie/greed
Source code: https://github.com/cran/greed
Date/Publication: 2022-10-03 22:00:05 UTC
Number of recursive dependencies: 98

Run revdep_details(, "greed") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 17.1Mb sub-directories of 1Mb or more: libs 16.5Mb
checking data for non-ASCII characters ... NOTE Note: found 989 marked UTF-8 strings

gsynth

Version: 1.2.1
GitHub: NA
Source code: https://github.com/cran/gsynth
Date/Publication: 2021-08-06 07:50:05 UTC
Number of recursive dependencies: 77

Run revdep_details(, "gsynth") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

gtfs2gps

Version: 2.1-1
GitHub: https://github.com/ipeaGIT/gtfs2gps
Source code: https://github.com/cran/gtfs2gps
Date/Publication: 2023-04-28 19:50:02 UTC
Number of recursive dependencies: 90

Run revdep_details(, "gtfs2gps") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(gtfs2gps) gtfs2gps version 2.1-1 is now loaded NOTE: All filter functions from gtfs2gps were removed Please replace them by similar functions from gtfstools > library(magrittr) ...
1. └─terra (local) .local(x, ...)
2. ├─terra::makeValid(x)
3. └─terra::makeValid(x)
4. └─terra (local) .local(x, ...)
5. └─terra:::messages(x)
6. └─terra:::error(f, x@cpp$getError())
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 119 ] Error: Test failures 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: 71

Run revdep_details(, "hackeRnews") for more info

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

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: 162

Run revdep_details(, "hero") for more info

checking dependencies in R code ... NOTE ``` dev3:pid3635515: PSM3 can't open nic unit: 0 (err=23) dev3:pid3635515.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid3635515.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) dev3:pid3635515: PSM3 can't open nic unit: 0 (err=23) dev3:pid3635515.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid3635515.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) dev3:pid3635515: PSM3 can't open nic unit: 0 (err=23) dev3:pid3635515.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid3635515.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) -------------------------------------------------------------------------- ... dev3:pid3635515.R: Unable to create send CQ of size 5080 on mlx5_0: Cannot allocate memory dev3:pid3635515.R: Unable to initialize verbs NIC /sys/class/infiniband/mlx5_0 (unit 0:0) -------------------------------------------------------------------------- Open MPI failed an OFI Libfabric library call (fi_endpoint). This is highly unusual; your job may behave unpredictably (and/or abort) after this.

Local host: dev3 Location: mtl_ofi_component.c:513 Error: Invalid argument (22)

```
checking for detritus in the temp directory ... NOTE Found the following files/directories: ‘ompi.dev3.34002’

hoopR

Version: 2.1.0
GitHub: https://github.com/sportsdataverse/hoopR
Source code: https://github.com/cran/hoopR
Date/Publication: 2023-11-25 23:40:20 UTC
Number of recursive dependencies: 116

Run revdep_details(, "hoopR") for more info

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

hwep

Version: 2.0.2
GitHub: https://github.com/dcgerard/hwep
Source code: https://github.com/cran/hwep
Date/Publication: 2023-05-16 17:40:02 UTC
Number of recursive dependencies: 110

Run revdep_details(, "hwep") for more info

checking installed package size ... NOTE installed size is 28.1Mb sub-directories of 1Mb or more: libs 27.7Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

infercnv

Version: 1.18.1
GitHub: https://github.com/broadinstitute/inferCNV
Source code: https://github.com/cran/infercnv
Date/Publication: 2023-12-01
Number of recursive dependencies: 205

Run revdep_details(, "infercnv") for more info

checking dependencies in R code ... NOTE Unexported object imported by a ':::' call: ‘HiddenMarkov:::makedensity’ See the note in ?`:::` about the use of this operator.

InPAS

Version: 2.10.0
GitHub: NA
Source code: https://github.com/cran/InPAS
Date/Publication: 2023-10-24
Number of recursive dependencies: 172

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’

interflex

Version: 1.2.6
GitHub: NA
Source code: https://github.com/cran/interflex
Date/Publication: 2021-05-18 11:40:02 UTC
Number of recursive dependencies: 103

Run revdep_details(, "interflex") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

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: 0.5.0
GitHub: https://github.com/keyATM/keyATM
Source code: https://github.com/cran/keyATM
Date/Publication: 2023-05-11 07:20:03 UTC
Number of recursive dependencies: 107

Run revdep_details(, "keyATM") for more info

checking installed package size ... NOTE installed size is 9.3Mb sub-directories of 1Mb or more: libs 9.1Mb

ldsr

Version: 0.0.2
GitHub: https://github.com/ntthung/ldsr
Source code: https://github.com/cran/ldsr
Date/Publication: 2020-05-04 14:40:09 UTC
Number of recursive dependencies: 80

Run revdep_details(, "ldsr") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

lidR

Version: 4.0.4
GitHub: https://github.com/r-lidar/lidR
Source code: https://github.com/cran/lidR
Date/Publication: 2023-09-07 15:20:05 UTC
Number of recursive dependencies: 155

Run revdep_details(, "lidR") for more info

checking installed package size ... NOTE installed size is 7.8Mb sub-directories of 1Mb or more: libs 6.8Mb

lightr

Version: 1.7.0
GitHub: https://github.com/ropensci/lightr
Source code: https://github.com/cran/lightr
Date/Publication: 2022-05-14 13:50:02 UTC
Number of recursive dependencies: 88

Run revdep_details(, "lightr") for more info

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

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.

migraph

Version: 1.2.1
GitHub: https://github.com/snlab-ch/migraph
Source code: https://github.com/cran/migraph
Date/Publication: 2023-12-17 22:30:02 UTC
Number of recursive dependencies: 115

Run revdep_details(, "migraph") for more info

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

Name: community

Title: Community partitioning algorithms

Aliases: community node_optimal node_kernighanlin node_edge_betweenness

node_fast_greedy node_leading_eigen node_walktrap node_infomap

node_spinglass node_louvain node_leiden

** Examples

node_optimal(ison_adolescents) Error in igraph::cluster_optimal(manynet::as_igraph(.data)) : At core/community/optimal_modularity.c:86 : GLPK is not available, Unimplemented function call Calls: node_optimal -> Execution halted ```

MineICA

Version: 1.42.0
GitHub: NA
Source code: https://github.com/cran/MineICA
Date/Publication: 2023-10-24
Number of recursive dependencies: 216

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 ```
checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘ProjByComp’ ‘carbayo’ ‘gene2MixingMatrix’ ‘myGraph.txt’ ‘nodeInfo.txt’ ‘outputHyper_example.htm’ ‘resMineICACarbayo’ ‘toy’

mistyR

Version: 1.10.0
GitHub: https://github.com/saezlab/mistyR
Source code: https://github.com/cran/mistyR
Date/Publication: 2023-10-24
Number of recursive dependencies: 156

Run revdep_details(, "mistyR") for more info

checking R code for possible problems ... NOTE aggregate_results: no visible binding for global variable ‘measure’ aggregate_results: no visible binding for global variable ‘target’ aggregate_results: no visible binding for global variable ‘value’ aggregate_results: no visible binding for global variable ‘sd’ aggregate_results: no visible binding for global variable ‘view’ aggregate_results: no visible binding for global variable ‘.PT’ aggregate_results: no visible binding for global variable ‘Importance’ aggregate_results_subset: no visible binding for global variable ‘view’ aggregate_results_subset: no visible binding for global variable ‘.PT’ aggregate_results_subset: no visible binding for global variable ... run_misty : <anonymous>: no visible binding for global variable ‘multi.R2’ svm_model: no visible binding for global variable ‘index’ Undefined global functions or variables: .PT Importance Predictor Target fraction index intra.R2 intra.RMSE measure multi.R2 multi.RMSE nsamples p prediction sd target total ts value view Consider adding importFrom("stats", "sd", "ts") to your NAMESPACE file.
checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘results’

mlr3resampling

Version: 2023.12.20
GitHub: https://github.com/tdhock/mlr3resampling
Source code: https://github.com/cran/mlr3resampling
Date/Publication: 2023-12-21 16:40:07 UTC
Number of recursive dependencies: 86

Run revdep_details(, "mlr3resampling") for more info

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

Quitting from lines 543-708 [SimulationsAnimintClassification] (Simulations.Rmd) Error: processing vignette 'Simulations.Rmd' failed with diagnostics: Passed a vector of type 'NULL'. Needs to be type 'character'. --- failed re-building ‘Simulations.Rmd’

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

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

mrgsim.parallel

Version: 0.2.1
GitHub: https://github.com/kylebaron/mrgsim.parallel
Source code: https://github.com/cran/mrgsim.parallel
Date/Publication: 2022-03-17 19:50:05 UTC
Number of recursive dependencies: 76

Run revdep_details(, "mrgsim.parallel") for more info

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

nebula

Version: 1.4.2
GitHub: NA
Source code: https://github.com/cran/nebula
Date/Publication: 2023-07-05 23:20:07 UTC
Number of recursive dependencies: 74

Run revdep_details(, "nebula") for more info

checking installed package size ... NOTE installed size is 9.5Mb sub-directories of 1Mb or more: libs 9.3Mb

nfl4th

Version: 1.0.4
GitHub: https://github.com/nflverse/nfl4th
Source code: https://github.com/cran/nfl4th
Date/Publication: 2023-08-21 09:32:33 UTC
Number of recursive dependencies: 111

Run revdep_details(, "nfl4th") for more info

checking whether package ‘nfl4th’ can be installed ... WARNING Found the following significant warnings: Warning: GitHub.com seems offline, and `options(nfl4th.keep_games)` is not set to TRUE. Deleting the games cache, and predictions may not be available without an internet connection. See ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/nfl4th/new/nfl4th.Rcheck/00install.out’ for details.
checking whether the namespace can be loaded with stated dependencies ... NOTE `` Warning: GitHub.com seems offline, andoptions(nfl4th.keep_games)` is not set to TRUE. Deleting the games cache, and predictions may not be available without an internet connection.

A namespace must be able to be loaded with just the base namespace loaded: otherwise if the namespace gets loaded by a saved object, the session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file. ```

nflfastR

Version: 4.6.0
GitHub: https://github.com/nflverse/nflfastR
Source code: https://github.com/cran/nflfastR
Date/Publication: 2023-10-20 15:30:07 UTC
Number of recursive dependencies: 104

Run revdep_details(, "nflfastR") for more info

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

oncomsm

Version: 0.1.4
GitHub: https://github.com/Boehringer-Ingelheim/oncomsm
Source code: https://github.com/cran/oncomsm
Date/Publication: 2023-04-17 07:00:02 UTC
Number of recursive dependencies: 125

Run revdep_details(, "oncomsm") for more info

checking installed package size ... NOTE installed size is 19.9Mb sub-directories of 1Mb or more: libs 19.6Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

onemapsgapi

Version: 1.1.0
GitHub: NA
Source code: https://github.com/cran/onemapsgapi
Date/Publication: 2022-11-29 08:00:03 UTC
Number of recursive dependencies: 71

Run revdep_details(, "onemapsgapi") for more info

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

OOS

Version: 1.0.0
GitHub: https://github.com/tylerJPike/OOS
Source code: https://github.com/cran/OOS
Date/Publication: 2021-03-17 13:20:20 UTC
Number of recursive dependencies: 137

Run revdep_details(, "OOS") for more info

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

pareg

Version: 1.6.0
GitHub: https://github.com/cbg-ethz/pareg
Source code: https://github.com/cran/pareg
Date/Publication: 2023-10-24
Number of recursive dependencies: 320

Run revdep_details(, "pareg") for more info

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

Name: as.data.frame.pareg

Title: as.data.frame for an object of class 'pareg'.

Aliases: as.data.frame.pareg

** Examples

df_genes <- data.frame( ... [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/share/aclocal' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/lib/gettext' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/lib/pkgconfig' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/man/man1' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/share/man/man1' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/lib/bfd-plugins' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/include'

Error: Error creating conda environment 'fallback' [exit code 1] Execution halted ```
checking tests ... Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: pthread-stubs conda-forge/linux-64::pthread-stubs-0.4-h36c2ea0_1001 python conda-forge/linux-64::python-3.9.18-h0755675_0_cpython r-base conda-forge/linux-64::r-base-4.3.2-hb8ee39d_1 r-here conda-forge/noarch::r-here-1.0.1-r43hc72bb7e_2 r-jsonlite conda-forge/linux-64::r-jsonlite-1.8.8-r43h57805ef_0 r-lattice conda-forge/linux-64::r-lattice-0.22_5-r43h57805ef_0 ... done Executing transaction: ...working... done sh: /wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/bin/Rscript: No such file or directory Error in makePSOCKcluster(1, rscript = rscript) : Cluster setup failed. 1 worker of 1 failed to connect. Calls: <Anonymous> ... .activate_fallback -> basiliskStart -> makePSOCKcluster In addition: Warning message: In check_forbidden_install("Conda Environments") : cannot install Conda Environments during R CMD check Execution halted
checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: ... --- re-building ‘pareg.Rmd’ using rmarkdown The magick package is required to crop "/wynton/home/cbi/hb/repositories/future/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pareg_files/figure-html/unnamed-chunk-4-1.png" but not available. The magick package is required to crop "/wynton/home/cbi/hb/repositories/future/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pareg_files/figure-html/unnamed-chunk-5-1.png" but not available. 2023-12-21 15:55:36.343997: I tensorflow/core/platform/cpu_feature_guard.cc:193] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to use the following CPU instructions in performance-critical operations: SSE4.1 SSE4.2 AVX AVX2 FMA To enable them in other operations, rebuild TensorFlow with the appropriate compiler flags. sh: /wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/bin/Rscript: No such file or directory

Quitting from lines 145-150 [unnamed-chunk-9] (pareg.Rmd) ... --- re-building ‘pathway_similarities.Rmd’ using rmarkdown The magick package is required to crop "/wynton/home/cbi/hb/repositories/future/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pathway_similarities_files/figure-html/unnamed-chunk-2-1.png" but not available. The magick package is required to crop "/wynton/home/cbi/hb/repositories/future/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pathway_similarities_files/figure-html/unnamed-chunk-3-1.png" but not available. --- finished re-building ‘pathway_similarities.Rmd’

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

Error: Vignette re-building failed. Execution halted ```
checking for portable file names ... NOTE ``` Found the following non-portable file paths: pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_ablation_study/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_ablation_study/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_dispersion_fitting/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_dispersion_fitting/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_real_datasets/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_real_datasets/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_effect/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_effect/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_parameter/config.yaml ... pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_response_distribution/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_similarity_measures/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_similarity_measures/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/workflow/scripts/compare_rocauc_vs_loss.R pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_parameter

Tarballs are only required to store paths of up to 100 bytes and cannot store those of more than 256 bytes, with restrictions including to 100 bytes for the final component. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. ```
checking whether package ‘pareg’ can be installed ... NOTE Found the following notes/warnings: Non-staged installation was used See ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/pareg/new/pareg.Rcheck/00install.out’ for details.

partR2

Version: 0.9.1
GitHub: https://github.com/mastoffel/partR2
Source code: https://github.com/cran/partR2
Date/Publication: 2021-01-18 16:30:04 UTC
Number of recursive dependencies: 94

Run revdep_details(, "partR2") for more info

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

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: 104

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 ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/pavo/new/pavo.Rcheck/00install.out’ for details.

PCRedux

Version: 1.1-2
GitHub: https://github.com/PCRuniversum/PCRedux
Source code: https://github.com/cran/PCRedux
Date/Publication: 2022-05-11 11:40:02 UTC
Number of recursive dependencies: 155

Run revdep_details(, "PCRedux") for more info

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

Name: encu

Title: A function to calculate numerous features from amplification

curve data from a quantitative PCR experiment.

Aliases: encu

Keywords: intercept normalization preprocessing slope

** Examples

... Loading required package: MASS Loading required package: minpack.lm Loading required package: rgl Loading required package: robustbase Loading required package: Matrix res_encu <- encu(testdat[, 1:3]) Error in validObject(.Object) : invalid class “der” object: superclass "mMatrix" not defined in the environment of the object's class Calls: encu ... initialize -> initialize -> initMatrix -> validObject Execution halted ```
checking tests ... ``` Running ‘spelling.R’ Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: 8. ├─chipPCR::bg.max(x, y) 9. └─chipPCR::bg.max(x, y)
1. ├─chipPCR::inder(x, y, smooth.method = "supsmu")
2. └─chipPCR::inder(x, y, smooth.method = "supsmu")
3. └─methods::new("der", .Data = dat, method = smooth.method) ...
4. └─chipPCR::inder(x, y, smooth.method = "supsmu")
5. └─methods::new("der", .Data = dat, method = smooth.method)
6. ├─methods::initialize(value, ...)
7. └─methods::initialize(value, ...)
8. └─methods (local) initMatrix(.Object, ...)
9. └─methods::validObject(.Object)
[ FAIL 4 | WARN 4 | SKIP 0 | PASS 37 ] Error: Test failures Execution halted ```

photosynthesis

Version: 2.1.4
GitHub: https://github.com/cdmuir/photosynthesis
Source code: https://github.com/cran/photosynthesis
Date/Publication: 2023-08-15 07:20:05 UTC
Number of recursive dependencies: 144

Run revdep_details(, "photosynthesis") for more info

checking data for non-ASCII characters ... NOTE Note: found 13 marked UTF-8 strings

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: 1.0.4
GitHub: https://github.com/pln-team/PLNmodels
Source code: https://github.com/cran/PLNmodels
Date/Publication: 2023-08-24 15:10:02 UTC
Number of recursive dependencies: 150

Run revdep_details(, "PLNmodels") for more info

checking installed package size ... NOTE installed size is 8.7Mb sub-directories of 1Mb or more: libs 7.8Mb

portvine

Version: 1.0.2
GitHub: https://github.com/EmanuelSommer/portvine
Source code: https://github.com/cran/portvine
Date/Publication: 2023-01-06 09:40:04 UTC
Number of recursive dependencies: 132

Run revdep_details(, "portvine") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking installed package size ... NOTE installed size is 17.7Mb sub-directories of 1Mb or more: libs 17.4Mb

projpred

Version: 2.8.0
GitHub: https://github.com/stan-dev/projpred
Source code: https://github.com/cran/projpred
Date/Publication: 2023-12-15 00:00:02 UTC
Number of recursive dependencies: 158

Run revdep_details(, "projpred") for more info

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

Prostar

Version: 1.34.3
GitHub: https://github.com/prostarproteomics/Prostar
Source code: https://github.com/cran/Prostar
Date/Publication: 2023-11-27
Number of recursive dependencies: 331

Run revdep_details(, "Prostar") for more info

checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: ... --- re-building ‘Prostar_UserManual.Rmd’ using rmarkdown ! Undefined control sequence. dataset\textquotesingle {{}}\textquotesingle {{}}, l.556 ...textquotesingle{}\textquotesingle{}, one} imputed dataset'\,' and so...

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

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

Error: Vignette re-building failed. Execution halted ```
checking dependencies in R code ... WARNING '::' or ':::' import not declared from: ‘Biobase’ Namespaces in Imports field not imported from: ‘DT’ ‘R.utils’ ‘RColorBrewer’ ‘XML’ ‘colourpicker’ ‘gtools’ ‘knitr’ ‘rclipboard’ ‘sass’ ‘shinyTree’ ‘shinyWidgets’ All declared Imports should be used.

pseudohouseholds

Version: 0.1.1
GitHub: https://github.com/chris31415926535/pseudohouseholds
Source code: https://github.com/cran/pseudohouseholds
Date/Publication: 2023-07-19 09:30:02 UTC
Number of recursive dependencies: 105

Run revdep_details(, "pseudohouseholds") for more info

checking data for non-ASCII characters ... NOTE Note: found 596 marked UTF-8 strings

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: 93

Run revdep_details(, "QDNAseq") for more info

R CMD check timed out

RAINBOWR

Version: 0.1.33
GitHub: NA
Source code: https://github.com/cran/RAINBOWR
Date/Publication: 2023-09-12 05:40:02 UTC
Number of recursive dependencies: 167

Run revdep_details(, "RAINBOWR") for more info

checking installed package size ... NOTE installed size is 11.7Mb sub-directories of 1Mb or more: libs 10.8Mb

regmedint

Version: 1.0.0
GitHub: https://github.com/kaz-yos/regmedint
Source code: https://github.com/cran/regmedint
Date/Publication: 2022-04-06 20:20:02 UTC
Number of recursive dependencies: 155

Run revdep_details(, "regmedint") for more info

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

reproducible

Version: 2.0.10
GitHub: https://github.com/PredictiveEcology/reproducible
Source code: https://github.com/cran/reproducible
Date/Publication: 2023-11-22 04:40:02 UTC
Number of recursive dependencies: 103

Run revdep_details(, "reproducible") for more info

checking tests ... ``` Running ‘test-all.R’ ERROR Running the tests in ‘tests/test-all.R’ failed. Last 50 lines of output: 'test-preProcessWorks.R:315:3', 'test-preProcessWorks.R:328:3', 'test-preProcessWorks.R:348:3', 'test-preProcessWorks.R:361:3', 'test-preProcessWorks.R:374:3', 'test-preProcessWorks.R:391:3', 'test-preProcessWorks.R:409:3', 'test-preProcessWorks.R:438:3', 'test-preProcessWorks.R:459:3', 'test-preProcessWorks.R:487:3', 'test-preProcessWorks.R:543:3', 'test-preProcessWorks.R:569:3', ...
1. └─reproducible:::makeVal(x)
2. ├─terra::makeValid(x)
3. └─terra::makeValid(x)
4. └─terra (local) .local(x, ...)
5. └─terra:::messages(x)
6. └─terra:::error(f, x@cpp$getError())
[ FAIL 2 | WARN 7 | SKIP 92 | PASS 389 ] Error: Test failures Execution halted ```
checking package dependencies ... NOTE Package suggested but not available for checking: ‘qs’

rgee

Version: 1.1.7
GitHub: https://github.com/r-spatial/rgee
Source code: https://github.com/cran/rgee
Date/Publication: 2023-09-27 08:30:02 UTC
Number of recursive dependencies: 146

Run revdep_details(, "rgee") for more info

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

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: 70

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

rpm

Version: 0.7-1
GitHub: https://github.com/handcock/rpm
Source code: https://github.com/cran/rpm
Date/Publication: 2023-04-21 23:30:02 UTC
Number of recursive dependencies: 66

Run revdep_details(, "rpm") for more info

checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: libs 5.6Mb

sapfluxnetr

Version: 0.1.4
GitHub: https://github.com/sapfluxnet/sapfluxnetr
Source code: https://github.com/cran/sapfluxnetr
Date/Publication: 2023-01-25 15:30:02 UTC
Number of recursive dependencies: 83

Run revdep_details(, "sapfluxnetr") for more info

checking data for non-ASCII characters ... NOTE Note: found 4 marked UTF-8 strings

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 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: 177

Run revdep_details(, "sdmApp") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'rgdal', 'rgeos'
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘sp’ All declared Imports should be used.

sdmTMB

Version: 0.4.1
GitHub: https://github.com/pbs-assess/sdmTMB
Source code: https://github.com/cran/sdmTMB
Date/Publication: 2023-11-03 07:20:02 UTC
Number of recursive dependencies: 117

Run revdep_details(, "sdmTMB") for more info

checking installed package size ... NOTE installed size is 31.4Mb sub-directories of 1Mb or more: libs 30.9Mb

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 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: 5.0.1
GitHub: https://github.com/satijalab/seurat
Source code: https://github.com/cran/Seurat
Date/Publication: 2023-11-17 23:10:06 UTC
Number of recursive dependencies: 264

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 6.8Mb sub-directories of 1Mb or more: R 1.6Mb libs 5.0Mb
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: 105

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 Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘plotly’

shiny.worker

Version: 0.0.1
GitHub: NA
Source code: https://github.com/cran/shiny.worker
Date/Publication: 2021-01-21 11:00:02 UTC
Number of recursive dependencies: 65

Run revdep_details(, "shiny.worker") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘R6’ ‘shiny’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

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: 251

Run revdep_details(, "Signac") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'ggseqlogo', 'qlcMatrix'
checking Rd cross-references ... NOTE Unknown package ‘ggseqlogo’ in Rd xrefs

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 C++ specification ... NOTE Specified C++11: please drop specification unless essential
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
checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘tmp.pdf’

sits

Version: 1.4.2-1
GitHub: https://github.com/e-sensing/sits
Source code: https://github.com/cran/sits
Date/Publication: 2023-11-02 15:10:02 UTC
Number of recursive dependencies: 221

Run revdep_details(, "sits") for more info

checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: R 1.1Mb libs 4.6Mb

skpr

Version: 1.6.1
GitHub: https://github.com/tylermorganwall/skpr
Source code: https://github.com/cran/skpr
Date/Publication: 2023-12-07 16:50:02 UTC
Number of recursive dependencies: 149

Run revdep_details(, "skpr") for more info

checking installed package size ... NOTE installed size is 20.8Mb sub-directories of 1Mb or more: libs 20.3Mb

SmCCNet

Version: 2.0.1
GitHub: https://github.com/KechrisLab/SmCCNet
Source code: https://github.com/cran/SmCCNet
Date/Publication: 2023-10-03 21:50:16 UTC
Number of recursive dependencies: 163

Run revdep_details(, "SmCCNet") for more info

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

! Emergency stop.

Error: processing vignette 'SmCCNet_Vignette_AutoSmCCNet.Rmd' failed with diagnostics: LaTeX failed to compile /wynton/home/cbi/hb/repositories/future/revdep/checks/SmCCNet/new/SmCCNet.Rcheck/vign_test/SmCCNet/vignettes/SmCCNet_Vignette_AutoSmCCNet.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See SmCCNet_Vignette_AutoSmCCNet.log for more info. --- failed re-building ‘SmCCNet_Vignette_AutoSmCCNet.Rmd’ ... Error: processing vignette 'SmCCNet_Vignette_SingleOmics.Rmd' failed with diagnostics: LaTeX failed to compile /wynton/home/cbi/hb/repositories/future/revdep/checks/SmCCNet/new/SmCCNet.Rcheck/vign_test/SmCCNet/vignettes/SmCCNet_Vignette_SingleOmics.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See SmCCNet_Vignette_SingleOmics.log for more info. --- failed re-building ‘SmCCNet_Vignette_SingleOmics.Rmd’

SUMMARY: processing the following files failed: ‘SmCCNet_Vignette_AutoSmCCNet.Rmd’ ‘SmCCNet_Vignette_MultiOmics.Rmd’ ‘SmCCNet_Vignette_SingleOmics.Rmd’

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

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.

SpaDES.core

Version: 2.0.3
GitHub: https://github.com/PredictiveEcology/SpaDES.core
Source code: https://github.com/cran/SpaDES.core
Date/Publication: 2023-11-10 10:20:02 UTC
Number of recursive dependencies: 139

Run revdep_details(, "SpaDES.core") for more info

checking package dependencies ... ERROR ``` Package required but not available: ‘qs’

Package suggested but not available for checking: ‘NLMR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ```

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: 'IsoriX', 'ROI.plugin.glpk'

Packages which this enhances but not available for checking: 'multcomp', 'RLRsim', 'lmerTest' ```
checking installed package size ... NOTE installed size is 21.3Mb sub-directories of 1Mb or more: R 2.6Mb libs 18.2Mb

sparrpowR

Version: 0.2.7
GitHub: https://github.com/machiela-lab/sparrpowR
Source code: https://github.com/cran/sparrpowR
Date/Publication: 2023-02-02 01:00:02 UTC
Number of recursive dependencies: 130

Run revdep_details(, "sparrpowR") for more info

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

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 Rd cross-references ... WARNING ``` Missing link or links in documentation object 'indictest.Rd': ‘mgcv’

See section 'Cross-references' in the 'Writing R Extensions' manual. ```

sphunif

Version: 1.3.0
GitHub: https://github.com/egarpor/sphunif
Source code: https://github.com/cran/sphunif
Date/Publication: 2023-12-04 19:50:02 UTC
Number of recursive dependencies: 79

Run revdep_details(, "sphunif") for more info

checking installed package size ... NOTE installed size is 10.1Mb sub-directories of 1Mb or more: libs 9.8Mb
checking data for non-ASCII characters ... NOTE Note: found 189 marked UTF-8 strings

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: 149

Run revdep_details(, "spNetwork") for more info

checking installed package size ... NOTE installed size is 9.2Mb sub-directories of 1Mb or more: libs 8.8Mb

squat

Version: 0.2.1
GitHub: https://github.com/LMJL-Alea/squat
Source code: https://github.com/cran/squat
Date/Publication: 2023-07-09 09:10:05 UTC
Number of recursive dependencies: 133

Run revdep_details(, "squat") for more info

checking installed package size ... NOTE installed size is 6.2Mb sub-directories of 1Mb or more: libs 6.1Mb

ssdtools

Version: 1.0.6
GitHub: https://github.com/bcgov/ssdtools
Source code: https://github.com/cran/ssdtools
Date/Publication: 2023-09-07 14:10:02 UTC
Number of recursive dependencies: 120

Run revdep_details(, "ssdtools") for more info

checking installed package size ... NOTE installed size is 10.3Mb sub-directories of 1Mb or more: libs 10.0Mb

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: 163

Run revdep_details(, "stars") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'ncdfgeom', 'starsdata'

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: 134

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 ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/stppSim/new/stppSim.Rcheck/00install.out’ for details.

synergyfinder

Version: 3.10.0
GitHub: NA
Source code: https://github.com/cran/synergyfinder
Date/Publication: 2023-10-24
Number of recursive dependencies: 202

Run revdep_details(, "synergyfinder") for more info

checking dependencies in R code ... WARNING '::' or ':::' import not declared from: ‘scales’ Namespaces in Imports field not imported from: ‘future’ ‘gstat’ ‘nleqslv’ ‘sp’ ‘tidyverse’ All declared Imports should be used.
checking R code for possible problems ... NOTE .Extract2DrugPlotData: no visible binding for global variable ‘input_type’ .Extract2DrugPlotData: no visible binding for global variable ‘block_id’ .Extract2DrugPlotData: no visible binding for global variable ‘value’ .Extract2DrugPlotData: no visible binding for global variable ‘left’ .Extract2DrugPlotData: no visible binding for global variable ‘right’ .Extract2DrugPlotData: no visible binding for global variable ‘conc1’ .Extract2DrugPlotData: no visible binding for global variable ‘conc2’ .Extract2DrugPlotData: no visible binding for global variable ‘text’ ... response_mean response_origin response_origin_CI95 response_origin_mean response_origin_sd response_origin_sem response_sd response_sem right start synergy t.test text theta value x y Consider adding importFrom("grDevices", "dev.list", "dev.off") importFrom("graphics", "text") importFrom("stats", "end", "start", "t.test") importFrom("utils", "data", "head") to your NAMESPACE file.
checking Rd files ... NOTE checkRd: (-1) FitDoseResponse.Rd:55: Escaped LaTeX specials: \&

tableschema.r

Version: 1.1.2
GitHub: https://github.com/frictionlessdata/tableschema-r
Source code: https://github.com/cran/tableschema.r
Date/Publication: 2022-09-29 20:00:03 UTC
Number of recursive dependencies: 66

Run revdep_details(, "tableschema.r") for more info

checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘parsedate’

targeted

Version: 0.4
GitHub: https://github.com/kkholst/targeted
Source code: https://github.com/cran/targeted
Date/Publication: 2023-12-19 22:50:02 UTC
Number of recursive dependencies: 100

Run revdep_details(, "targeted") for more info

checking installed package size ... NOTE installed size is 9.6Mb sub-directories of 1Mb or more: libs 9.3Mb

targets

Version: 1.4.0
GitHub: https://github.com/ropensci/targets
Source code: https://github.com/cran/targets
Date/Publication: 2023-12-11 17:00:02 UTC
Number of recursive dependencies: 166

Run revdep_details(, "targets") for more info

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

text

Version: 1.0
GitHub: https://github.com/OscarKjell/text
Source code: https://github.com/cran/text
Date/Publication: 2023-08-09 16:40:05 UTC
Number of recursive dependencies: 155

Run revdep_details(, "text") for more info

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

TriDimRegression

Version: 1.0.2
GitHub: https://github.com/alexander-pastukhov/tridim-regression
Source code: https://github.com/cran/TriDimRegression
Date/Publication: 2023-09-13 14:10:03 UTC
Number of recursive dependencies: 100

Run revdep_details(, "TriDimRegression") for more info

checking whether package ‘TriDimRegression’ can be installed ... ERROR Installation failed. See ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/TriDimRegression/new/TriDimRegression.Rcheck/00install.out’ for details.

* installing *source* package ‘TriDimRegression’ ...
** package ‘TriDimRegression’ successfully unpacked and MD5 sums checked
** using staged installation
Error in loadNamespace(x) : there is no package called ‘rstantools’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
ERROR: configuration failed for package ‘TriDimRegression’
* removing ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/TriDimRegression/new/TriDimRegression.Rcheck/TriDimRegression’

* installing *source* package ‘TriDimRegression’ ...
** package ‘TriDimRegression’ successfully unpacked and MD5 sums checked
** using staged installation
Error in loadNamespace(x) : there is no package called ‘rstantools’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
ERROR: configuration failed for package ‘TriDimRegression’
* removing ‘/wynton/home/cbi/hb/repositories/future/revdep/checks/TriDimRegression/old/TriDimRegression.Rcheck/TriDimRegression’

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: 113

Run revdep_details(, "txshift") for more info

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

vmeasur

Version: 0.1.4
GitHub: NA
Source code: https://github.com/cran/vmeasur
Date/Publication: 2021-11-11 19:00:02 UTC
Number of recursive dependencies: 119

Run revdep_details(, "vmeasur") for more info

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

WeightedCluster

Version: 1.6-4
GitHub: NA
Source code: https://github.com/cran/WeightedCluster
Date/Publication: 2023-07-07 07:50:02 UTC
Number of recursive dependencies: 43

Run revdep_details(, "WeightedCluster") for more info

checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘WeightedCluster.Rnw’ using knitr --- finished re-building ‘WeightedCluster.Rnw’

--- re-building ‘WeightedClusterFR.Rnw’ using knitr Error: processing vignette 'WeightedClusterFR.Rnw' failed with diagnostics: Running 'texi2dvi' on 'WeightedClusterFR.tex' failed. LaTeX errors: ! Package babel Error: Unknown option `frenchb'. Either you misspelled it (babel) or the language definition file frenchb.ldf was not foun ... l.85 \usepackage {tikz}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘WeightedClusterPreview.Rnw’

SUMMARY: processing the following files failed: ‘WeightedClusterFR.Rnw’ ‘WeightedClusterPreview.Rnw’

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

wru

Version: 1.0.1
GitHub: https://github.com/kosukeimai/wru
Source code: https://github.com/cran/wru
Date/Publication: 2022-10-21 17:30:02 UTC
Number of recursive dependencies: 89

Run revdep_details(, "wru") for more info

checking C++ specification ... NOTE Specified C++11: please drop specification unless essential
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘future’ All declared Imports should be used.

XNAString

Version: 1.10.0
GitHub: NA
Source code: https://github.com/cran/XNAString
Date/Publication: 2023-10-24
Number of recursive dependencies: 106

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

HenrikBengtsson/future documentation built on April 1, 2024, 3:19 a.m.

rdrr.io home R language documentation Run R code online

CRAN packages Bioconductor packages R-Forge packages GitHub packages

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

HenrikBengtsson/future Unified Parallel and Distributed Processing in R for Everyone

revdep/problems.md In HenrikBengtsson/future: Unified Parallel and Distributed Processing in R for Everyone

AIPW

In both

AlpsNMR

In both

aroma.core

In both

bamm

In both

batchtools

In both

BEKKs

In both

bigDM

In both

bistablehistory

In both

blavaan

In both

brms

In both

brpop

In both

campsis

In both

ceRNAnetsim

In both

ChromSCape

In both

clickR

In both

codebook

In both

collinear

In both

cSEM

In both

CSGo

In both

dispositionEffect

In both

dragon

In both

drake

In both

EFAtools

In both

EGAnet

In both

Name: community.detection

Title: Apply a Community Detection Algorithm

Aliases: community.detection

** Examples

Load data

Compute Optimal (identifies maximum modularity solution)

envi

In both

EpiNow2

In both

epitweetr

In both

fastRhockey

In both

fdacluster

In both

fect

In both

FLAMES

In both

Name: sc_heatmap_expression

Title: FLAMES heetmap plots

Aliases: sc_heatmap_expression

** Examples

flowGraph

In both

forecastML

In both

future.batchtools

In both

HenrikBengtsson/future
Unified Parallel and Distributed Processing in R for Everyone

revdep/problems.md
In HenrikBengtsson/future: Unified Parallel and Distributed Processing in R for Everyone