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: 95

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: 3.4.0
GitHub: NA
Source code: https://github.com/cran/AlpsNMR
Date/Publication: 2021-10-26
Number of recursive dependencies: 164

Run revdep_details(, "AlpsNMR") for more info

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

aroma.core

Version: 3.2.2
GitHub: https://github.com/HenrikBengtsson/aroma.core
Source code: https://github.com/cran/aroma.core
Date/Publication: 2021-01-05 05:10:12 UTC
Number of recursive dependencies: 48

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

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

BAMBI

Version: 2.3.3
GitHub: https://github.com/c7rishi/BAMBI
Source code: https://github.com/cran/BAMBI
Date/Publication: 2021-10-02 13:40:23 UTC
Number of recursive dependencies: 49

Run revdep_details(, "BAMBI") for more info

checking installed package size ... NOTE installed size is 6.3Mb sub-directories of 1Mb or more: libs 5.8Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘stats4’ All declared Imports should be used.

BatchGetSymbols

Version: 2.6.1
GitHub: NA
Source code: https://github.com/cran/BatchGetSymbols
Date/Publication: 2020-11-28 15:10:21 UTC
Number of recursive dependencies: 85

Run revdep_details(, "BatchGetSymbols") for more info

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

bcmaps

Version: 1.0.2
GitHub: https://github.com/bcgov/bcmaps
Source code: https://github.com/cran/bcmaps
Date/Publication: 2021-03-09 23:40:03 UTC
Number of recursive dependencies: 126

Run revdep_details(, "bcmaps") for more info

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

BEKKs

Version: 1.0.1
GitHub: NA
Source code: https://github.com/cran/BEKKs
Date/Publication: 2022-02-01 16:00:29 UTC
Number of recursive dependencies: 81

Run revdep_details(, "BEKKs") for more info

checking installed package size ... NOTE installed size is 11.6Mb sub-directories of 1Mb or more: libs 10.9Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘expm’ ‘forecast’ ‘parallel’ All declared Imports should be used.

bigDM

Version: 0.4.1
GitHub: https://github.com/spatialstatisticsupna/bigDM
Source code: https://github.com/cran/bigDM
Date/Publication: 2022-02-08 15:40:10 UTC
Number of recursive dependencies: 121

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: 1.1.0
GitHub: https://github.com/alexander-pastukhov/bistablehistory
Source code: https://github.com/cran/bistablehistory
Date/Publication: 2022-01-13 23:12:41 UTC
Number of recursive dependencies: 85

Run revdep_details(, "bistablehistory") for more info

checking installed package size ... NOTE installed size is 43.3Mb sub-directories of 1Mb or more: libs 42.4Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘RcppParallel’ ‘magrittr’ All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

blavaan

Version: 0.4-1
GitHub: NA
Source code: https://github.com/cran/blavaan
Date/Publication: 2022-01-27 21:40:02 UTC
Number of recursive dependencies: 100

Run revdep_details(, "blavaan") for more info

checking installed package size ... NOTE installed size is 71.5Mb sub-directories of 1Mb or more: libs 68.9Mb testdata 1.5Mb
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

blockCV

Version: 2.1.4
GitHub: https://github.com/rvalavi/blockCV
Source code: https://github.com/cran/blockCV
Date/Publication: 2021-06-17 04:50:02 UTC
Number of recursive dependencies: 117

Run revdep_details(, "blockCV") for more info

checking installed package size ... NOTE installed size is 8.6Mb sub-directories of 1Mb or more: extdata 7.7Mb
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘biomod2’

brms

Version: 2.16.3
GitHub: https://github.com/paul-buerkner/brms
Source code: https://github.com/cran/brms
Date/Publication: 2021-11-22 19:50:02 UTC
Number of recursive dependencies: 216

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 7.5Mb sub-directories of 1Mb or more: R 4.1Mb doc 2.4Mb

cfbfastR

Version: 1.6.4
GitHub: https://github.com/saiemgilani/cfbfastR
Source code: https://github.com/cran/cfbfastR
Date/Publication: 2021-10-27 12:30:02 UTC
Number of recursive dependencies: 108

Run revdep_details(, "cfbfastR") for more info

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

ChromSCape

Version: 1.4.0
GitHub: https://github.com/vallotlab/ChromSCape
Source code: https://github.com/cran/ChromSCape
Date/Publication: 2021-10-26
Number of recursive dependencies: 272

Run revdep_details(, "ChromSCape") for more info

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 installed package size ... NOTE installed size is 7.9Mb sub-directories of 1Mb or more: data 1.3Mb doc 2.9Mb www 2.0Mb
checking R code for possible problems ... NOTE CompareWilcox: no visible binding for global variable ‘annot.’ bams_to_matrix_indexes: no visible binding for global variable ‘files_dir_list’ filter_correlated_cell_scExp: no visible binding for global variable ‘run_tsne’ generate_analysis: no visible binding for global variable ‘k’ generate_analysis: no visible binding for global variable ‘clusterConsensus’ get_most_variable_cyto: no visible binding for global variable ‘cytoBand’ ... plot_reduced_dim_scExp: no visible binding for global variable ‘V1’ plot_reduced_dim_scExp: no visible binding for global variable ‘V2’ plot_reduced_dim_scExp: no visible binding for global variable ‘cluster’ subset_bam_call_peaks: no visible binding for global variable ‘merged_bam’ Undefined global functions or variables: Fri_cyto Gain_or_Loss V1 V2 absolute_value annot. cluster clusterConsensus cytoBand files_dir_list genes k merged_bam ncells run_tsne sample_id total_counts
checking Rd files ... NOTE prepare_Rd: raw_counts_to_sparse_matrix.Rd:6-8: Dropping empty section \source
checking files in ‘vignettes’ ... NOTE Files named as vignettes but with no recognized vignette engine: ‘vignettes/PairedTag_Zhu_H3K4me1.Rmd’ ‘vignettes/scChIC_Ku_H3K4me3.Rmd’ (Is a VignetteBuilder field missing?)

civis

Version: 3.0.0
GitHub: https://github.com/civisanalytics/civis-r
Source code: https://github.com/cran/civis
Date/Publication: 2020-06-22 18:00:02 UTC
Number of recursive dependencies: 84

Run revdep_details(, "civis") for more info

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

codalm

Version: 0.1.2
GitHub: https://github.com/jfiksel/codalm
Source code: https://github.com/cran/codalm
Date/Publication: 2021-07-26 18:40:02 UTC
Number of recursive dependencies: 52

Run revdep_details(, "codalm") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(codalm) > > test_check("codalm") [ FAIL 1 | WARN 0 | SKIP 0 | PASS 24 ]

... ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure (test-codalm_ci.R:21:5): bootstrap CI works with sequential evaluation ── identical(plan("list"), oplan) is not TRUE

actual: FALSE expected: TRUE

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 24 ] Error: Test failures Execution halted ```

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: 154

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

cSEM

Version: 0.4.0
GitHub: https://github.com/M-E-Rademaker/cSEM
Source code: https://github.com/cran/cSEM
Date/Publication: 2021-04-19 22:00:18 UTC
Number of recursive dependencies: 122

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: 70

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.

datapackage.r

Version: 1.3.5
GitHub: https://github.com/frictionlessdata/datapackage-r
Source code: https://github.com/cran/datapackage.r
Date/Publication: 2022-01-11 10:22:47 UTC
Number of recursive dependencies: 116

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

checking tests ... `` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: ── Failure (test-profile.R:106:5): profile tabular-data-package should be up-to-date ── profile$jsonschema not equal toresponse.data`. Component "properties": Component "licenses": Component "items": Names: 2 string mismatches Component "properties": Component "licenses": Component "items": Length mismatch: comparison on first 5 components Component "properties": Component "licenses": Component "items": Component 4: names for target but not for current Component "properties": Component "licenses": Component "items": Component 4: Length mismatch: comparison on first 2 components ... Component "properties": Component "schema": Component "properties": Component "fields": Component "items": Component "anyOf": Component 1: Component 5: Component 4: Component 1: 1 string mismatch Component "properties": Component "schema": Component "properties": Component "fields": Component "items": Component "anyOf": Component 1: Component 5: Component 4: Component 2: Modes: list, character Component "properties": Component "schema": Component "properties": Component "fields": Component "items": Component "anyOf": Component 1: Component 5: Component 4: Component 2: Component 1: 1 string mismatch Component "properties": Component "schema": Component "properties": Component "fields": Component "items": Component "anyOf": Component 1: Component 5: Component 5: Names: 1 string mismatch Component "properties": Component "schema": Component "properties": Component "fields": Component "items": Component "anyOf": Component 1: Component 5: Component 5: Length mismatch: comparison on first 2 components ...

[ FAIL 5 | WARN 17 | SKIP 0 | PASS 248 ] Error: Test failures Execution halted ```
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘future’ ‘iterators’ ‘readr’ All declared Imports should be used.

DeclareDesign

Version: 0.30.0
GitHub: https://github.com/DeclareDesign/DeclareDesign
Source code: https://github.com/cran/DeclareDesign
Date/Publication: 2022-01-28 06:10:02 UTC
Number of recursive dependencies: 129

Run revdep_details(, "DeclareDesign") for more info

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

Name: declare_estimator

Title: Declare estimator

Aliases: declare_estimator declare_estimators label_estimator

model_handler

** Examples

... + model_summary = tidy_margins, + inquiry = "ATE", + term = "Z", + label = "logit" + )

run_design(two_estimators) Error: Error in step 6 (logit): Error in margins(x, data = x$data): could not find function "margins" Execution halted ```
checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: 9. ├─future::resolve(...)
1. └─future:::resolve.list(...)
2. └─future signalConditionsASAP(obj, resignal = FALSE, pos = ii)
3. └─future:::signalConditions(...) ── Failure (test-simulate-design.R:92:3): no estimates inquiries declared ────── simulate_design(my_design_noestmand, sims = 2) threw an error with unexpected message. ...
4. ├─future::value(fs)
5. └─future:::value.list(fs)
6. ├─future::resolve(...)
7. └─future:::resolve.list(...)
8. └─future signalConditionsASAP(obj, resignal = FALSE, pos = ii)
9. └─future:::signalConditions(...)
[ FAIL 36 | WARN 0 | SKIP 6 | PASS 416 ] Error: Test failures Execution halted ```

delayed

Version: 0.3.0
GitHub: https://github.com/tlverse/delayed
Source code: https://github.com/cran/delayed
Date/Publication: 2020-02-28 11:40:02 UTC
Number of recursive dependencies: 78

Run revdep_details(, "delayed") for more info

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

dipsaus

Version: 0.2.0
GitHub: https://github.com/dipterix/dipsaus
Source code: https://github.com/cran/dipsaus
Date/Publication: 2022-01-27 17:30:02 UTC
Number of recursive dependencies: 76

Run revdep_details(, "dipsaus") for more info

checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: doc 1.3Mb libs 3.5Mb

dispositionEffect

Version: 1.0.0
GitHub: https://github.com/marcozanotti/dispositionEffect
Source code: https://github.com/cran/dispositionEffect
Date/Publication: 2021-08-02 07:50:02 UTC
Number of recursive dependencies: 118

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 ```

doFuture

Version: 0.12.0
GitHub: https://github.com/HenrikBengtsson/doFuture
Source code: https://github.com/cran/doFuture
Date/Publication: 2021-01-04 21:20:19 UTC
Number of recursive dependencies: 18

Run revdep_details(, "doFuture") for more info

checking tests ... Running ‘cluster-missing-doFuture-pkg.R’ Running ‘doRNG,dopar.R’ Running ‘doRNG,dorng.R’ Running ‘foreach,errors.R’ Running ‘foreach,globals.R’ Running ‘foreach,nested.R’ Running ‘foreach,nested_dopar.R’ ERROR Running the tests in ‘tests/foreach,nested_dopar.R’ failed. Last 50 lines of output: ... [22:59:07.024] signalConditions() ... done [22:59:07.024] - accumulating results [22:59:07.025] - processing errors (handler = 'stop') [22:59:07.026] - extracting results [22:59:07.026] doFuture() ... DONE foreach() - level 1 ... DONE Error in (function() { : inherits(x_aa_bb$plan_b[[1]], getOption("future.plan", "sequential")) is not TRUE Calls: <Anonymous> -> stopifnot Execution halted

dragon

Version: 1.2.0
GitHub: https://github.com/sjspielman/dragon
Source code: https://github.com/cran/dragon
Date/Publication: 2021-07-07 17:30:10 UTC
Number of recursive dependencies: 138

Run revdep_details(, "dragon") for more info

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

drtmle

Version: 1.1.0
GitHub: https://github.com/benkeser/drtmle
Source code: https://github.com/cran/drtmle
Date/Publication: 2021-06-02 17:40:02 UTC
Number of recursive dependencies: 89

Run revdep_details(, "drtmle") for more info

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

Name: ci.adaptive_iptw

Title: Confidence intervals for adaptive_iptw objects

Aliases: ci.adaptive_iptw

** Examples

load super learner

... + W = W, A = A, Y = Y, a_0 = c(1, 0), + SL_g = c("SL.glm", "SL.mean", "SL.step"), + SL_Qr = "SL.glm" + ) Loading required package: nloptr Warning: UNRELIABLE VALUE: One of the ‘future.apply’ iterations (‘future_lapply-1’) unexpectedly generated random numbers without declaring so. There is a risk that those random numbers are not statistically sound and the overall results might be invalid. To fix this, specify 'future.seed=TRUE'. This ensures that proper, parallel-safe random numbers are produced via the L'Ecuyer-CMRG method. To disable this check, use 'future.seed = NULL', or set option 'future.rng.onMisuse' to "ignore". Error in get(library$library$predAlgorithm[s], envir = env) : object 'SL.glm' not found Calls: adaptive_iptw ... resolve.list -> signalConditionsASAP -> signalConditions Execution halted ```
checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: 9. └─future:::resolve.list(...)
1. └─future signalConditionsASAP(obj, resignal = FALSE, pos = ii)
2. └─future:::signalConditions(...) ── Error (test-confint.R:89:3): ci.adaptive_iptw works as expected ───────────── Error in get(library$library$predAlgorithm[s], envir = env): object 'SL.glm' not found Backtrace: ...
  1. ├─future::value(fs)
  2. └─future:::value.list(fs)
  3. ├─future::resolve(...)
  4. └─future:::resolve.list(...)
3. └─future signalConditionsASAP(obj, resignal = FALSE, pos = ii)
4. └─future:::signalConditions(...)
[ FAIL 4 | WARN 39 | SKIP 0 | PASS 1007 ] Error: Test failures Execution halted ```

easyalluvial

Version: 0.3.0
GitHub: https://github.com/erblast/easyalluvial
Source code: https://github.com/cran/easyalluvial
Date/Publication: 2021-01-13 10:40:09 UTC
Number of recursive dependencies: 146

Run revdep_details(, "easyalluvial") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(easyalluvial) > > test_check("easyalluvial") [ FAIL 1 | WARN 0 | SKIP 16 | PASS 47 ]

... 8. ├─future::value(futures) 9. └─future:::value.list(futures) 10. ├─future::resolve(...) 11. └─future:::resolve.list(...) 12. └─future signalConditionsASAP(obj, resignal = FALSE, pos = ii) 13. └─future:::signalConditions(...)

[ FAIL 1 | WARN 0 | SKIP 16 | PASS 47 ] Error: Test failures Execution halted ```
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘progress’ All declared Imports should be used.

EFAtools

Version: 0.3.1
GitHub: https://github.com/mdsteiner/EFAtools
Source code: https://github.com/cran/EFAtools
Date/Publication: 2021-03-27 08:40:42 UTC
Number of recursive dependencies: 86

Run revdep_details(, "EFAtools") for more info

checking installed package size ... NOTE installed size is 7.3Mb sub-directories of 1Mb or more: doc 1.0Mb libs 5.4Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘progress’ All declared Imports should be used.

envi

Version: 0.1.11
GitHub: https://github.com/Waller-SUSAN/envi
Source code: https://github.com/cran/envi
Date/Publication: 2022-02-05 00:30:20 UTC
Number of recursive dependencies: 124

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 ‘/c4/home/henrik/repositories/future/revdep/checks/envi/new/envi.Rcheck/00install.out’ for details.

EpiNow2

Version: 1.3.2
GitHub: https://github.com/epiforecasts/EpiNow2
Source code: https://github.com/cran/EpiNow2
Date/Publication: 2020-12-14 09:00:15 UTC
Number of recursive dependencies: 153

Run revdep_details(, "EpiNow2") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘EpiSoon’
checking installed package size ... NOTE installed size is 168.1Mb sub-directories of 1Mb or more: libs 166.5Mb

epitweetr

Version: 2.0.3
GitHub: https://github.com/EU-ECDC/epitweetr
Source code: https://github.com/cran/epitweetr
Date/Publication: 2022-01-05 10:00:08 UTC
Number of recursive dependencies: 143

Run revdep_details(, "epitweetr") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘taskscheduleR’
checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: doc 3.0Mb java 1.3Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘httpuv’ ‘knitr’ ‘plyr’ ‘tidyverse’ ‘tokenizers’ ‘xml2’ All declared Imports should be used.

fipe

Version: 0.0.1
GitHub: https://github.com/italocegatta/fipe
Source code: https://github.com/cran/fipe
Date/Publication: 2019-08-25 07:20:06 UTC
Number of recursive dependencies: 62

Run revdep_details(, "fipe") for more info

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

flowGraph

Version: 1.2.0
GitHub: https://github.com/aya49/flowGraph
Source code: https://github.com/cran/flowGraph
Date/Publication: 2021-10-26
Number of recursive dependencies: 83

Run revdep_details(, "flowGraph") for more info

checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘flowGraph.Rmd’ using rmarkdown
- 8 pops @ layer 1 23:20:10-23:20:10 > 16:00:00
- 24 pops @ layer 2 23:20:10-23:20:10 > 16:00:00
- 32 pops @ layer 3 23:20:10-23:20:10 > 16:00:00
- 16 pops @ layer 4 23:20:10-23:20:10 > 16:00:00 ... Quitting from lines 557-561 (flowGraph.Rmd) Error: processing vignette 'flowGraph.Rmd' failed with diagnostics: map_df() requires dplyr --- failed re-building ‘flowGraph.Rmd’
SUMMARY: processing the following file failed: ‘flowGraph.Rmd’

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

foieGras

Version: 0.7-6
GitHub: https://github.com/ianjonsen/foieGras
Source code: https://github.com/cran/foieGras
Date/Publication: 2021-04-26 22:10:07 UTC
Number of recursive dependencies: 135

Run revdep_details(, "foieGras") for more info

checking whether package ‘foieGras’ can be installed ... ERROR Installation failed. See ‘/c4/home/henrik/repositories/future/revdep/checks/foieGras/new/foieGras.Rcheck/00install.out’ for details.

* installing *source* package ‘foieGras’ ...
** package ‘foieGras’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++11 -I"/software/c4/cbi/software/R-4.1.2-gcc8/lib64/R/include" -DNDEBUG  -I'/c4/home/henrik/repositories/future/revdep/library/foieGras/TMB/include' -I'/c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include' -I/usr/local/include   -fpic  -g -O2  -c foieGras.cpp -o foieGras.o
In file included from /c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/Core:397,
                 from /c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/Dense:1,
                 from /c4/home/henrik/repositories/future/revdep/library/foieGras/TMB/include/TMB.hpp:58,
                 from foieGras.cpp:2:
/c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:60:39: warning: ignoring attributes on template argument ‘__m128’ {aka ‘__vector(4) float’} [-Wignored-attributes]
...
TMB was built with Matrix version 1.3.4
Current Matrix version is 1.4.0
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared object '/c4/home/henrik/repositories/future/revdep/library/foieGras/proj4/libs/proj4.so':
  libproj.so.12: cannot open shared object file: No such file or directory
Calls: <Anonymous> ... asNamespace -> loadNamespace -> library.dynam -> dyn.load
Execution halted
ERROR: lazy loading failed for package ‘foieGras’
* removing ‘/c4/home/henrik/repositories/future/revdep/checks/foieGras/new/foieGras.Rcheck/foieGras’

* installing *source* package ‘foieGras’ ...
** package ‘foieGras’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++11 -I"/software/c4/cbi/software/R-4.1.2-gcc8/lib64/R/include" -DNDEBUG  -I'/c4/home/henrik/repositories/future/revdep/library/foieGras/TMB/include' -I'/c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include' -I/usr/local/include   -fpic  -g -O2  -c foieGras.cpp -o foieGras.o
In file included from /c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/Core:397,
                 from /c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/Dense:1,
                 from /c4/home/henrik/repositories/future/revdep/library/foieGras/TMB/include/TMB.hpp:58,
                 from foieGras.cpp:2:
/c4/home/henrik/repositories/future/revdep/library/foieGras/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:60:39: warning: ignoring attributes on template argument ‘__m128’ {aka ‘__vector(4) float’} [-Wignored-attributes]
...
TMB was built with Matrix version 1.3.4
Current Matrix version is 1.4.0
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared object '/c4/home/henrik/repositories/future/revdep/library/foieGras/proj4/libs/proj4.so':
  libproj.so.12: cannot open shared object file: No such file or directory
Calls: <Anonymous> ... asNamespace -> loadNamespace -> library.dynam -> dyn.load
Execution halted
ERROR: lazy loading failed for package ‘foieGras’
* removing ‘/c4/home/henrik/repositories/future/revdep/checks/foieGras/old/foieGras.Rcheck/foieGras’

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: 96

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.tests

Version: 0.3.0
GitHub: https://github.com/HenrikBengtsson/future.tests
Source code: https://github.com/cran/future.tests
Date/Publication: 2021-10-10 04:30:05 UTC
Number of recursive dependencies: 13

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

checking tests ... Running ‘Test-class.R’ ERROR Running the tests in ‘tests/Test-class.R’ failed. Last 50 lines of output: 42 futureCa.... FALSE NA NA NA NA NA 43 futureCa.... TRUE NA NA NA NA NA 44 futureCa.... FALSE NA NA NA NA NA 45 futureCa.... TRUE NA NA NA NA NA 46 resolved.... NA NA NA NA NA NA 47 demo, ma.... FALSE NA NA NA NA NA ... 84 %<-%, stdout NA NA NA NA NA TRUE 85 value, v.... NA NA NA NA NA NA > > message("Run first three tests ...") Run first three tests ... > > library(future) > results <- run_tests(head(tests, 3L)) Error: 'identical(plan("list"), state$plan)' is not TRUE Execution halted

geocmeans

Version: 0.2.0
GitHub: https://github.com/JeremyGelb/geocmeans
Source code: https://github.com/cran/geocmeans
Date/Publication: 2021-08-23 07:11:35 UTC
Number of recursive dependencies: 203

Run revdep_details(, "geocmeans") for more info

checking installed package size ... NOTE installed size is 11.4Mb sub-directories of 1Mb or more: data 2.3Mb doc 1.9Mb libs 6.1Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘rgdal’ All declared Imports should be used.

GetBCBData

Version: 0.6
GitHub: https://github.com/msperlin/GetBCBData
Source code: https://github.com/cran/GetBCBData
Date/Publication: 2021-01-21 17:40:07 UTC
Number of recursive dependencies: 84

Run revdep_details(, "GetBCBData") for more info

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

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: 66

Run revdep_details(, "googleComputeEngineR") for more info

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

googleTagManageR

Version: 0.1.6
GitHub: NA
Source code: https://github.com/cran/googleTagManageR
Date/Publication: 2020-10-05 13:20:10 UTC
Number of recursive dependencies: 68

Run revdep_details(, "googleTagManageR") for more info

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

grattan

Version: 1.9.0.10
GitHub: https://github.com/HughParsonage/grattan
Source code: https://github.com/cran/grattan
Date/Publication: 2022-01-10 01:02:41 UTC
Number of recursive dependencies: 117

Run revdep_details(, "grattan") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'taxstats', 'taxstats1516'
checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: libs 4.1Mb

greed

Version: 0.5.1
GitHub: https://github.com/comeetie/greed
Source code: https://github.com/cran/greed
Date/Publication: 2021-05-10 06:50:03 UTC
Number of recursive dependencies: 115

Run revdep_details(, "greed") for more info

checking installed package size ... NOTE installed size is 30.1Mb sub-directories of 1Mb or more: libs 27.9Mb
checking data for non-ASCII characters ... NOTE Note: found 6693 marked UTF-8 strings

greta

Version: 0.3.1
GitHub: https://github.com/greta-dev/greta
Source code: https://github.com/cran/greta
Date/Publication: 2019-08-09 04:40:03 UTC
Number of recursive dependencies: 152

Run revdep_details(, "greta") for more info

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

gtfs2gps

Version: 1.5-4
GitHub: https://github.com/ipeaGIT/gtfs2gps
Source code: https://github.com/cran/gtfs2gps
Date/Publication: 2021-09-06 08:00:07 UTC
Number of recursive dependencies: 91

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) > > test_check("gtfs2gps") [ FAIL 2 | WARN 6 | SKIP 0 | PASS 152 ]

... Error in eval_bare(expr, quo_get_env(quo)): object '.N' not found Backtrace: ▆ 1. └─testthat::expect_true(all(poa_gps$trip_number[.N] == 3)) at test_gtfs2gps.R:22:4 2. └─testthat::quasi_label(enquo(object), label, arg = "object") 3. └─rlang::eval_bare(expr, quo_get_env(quo))

[ FAIL 2 | WARN 6 | SKIP 0 | PASS 152 ] Error: Test failures Execution halted ```

gWQS

Version: 3.0.4
GitHub: NA
Source code: https://github.com/cran/gWQS
Date/Publication: 2021-05-20 09:30:02 UTC
Number of recursive dependencies: 102

Run revdep_details(, "gWQS") for more info

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

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: 64

Run revdep_details(, "hackeRnews") 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: Component 2: Component 4: Numeric: lengths (30, 2) differ ── Failure (test-api.R:127:5): Retrieve top stories function is working correctly ──resultnot equal toexpected. Component 1: Component 4: Numeric: lengths (13, 2) differ Component 1: Component 5: Mean relative difference: 0.005555556 ...result <- get_comments(get_item_by_id(1000))` did not produce any warnings. ── Failure (test-api.R:346:5): Empty responses are handled correctly when retrieving comments ── all.equal(result, expected) is not TRUE

actual is a character vector ('Component "by": 1 string mismatch', 'Component "time": Mean absolute difference: 400488278', 'Component "text": 1 string mismatch', 'Component "parent": Mean relative difference: 0.4845361') expected is a logical vector (TRUE)

[ FAIL 11 | WARN 1 | SKIP 0 | PASS 16 ] Error: Test failures Execution halted ```
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

hal9001

Version: 0.4.3
GitHub: https://github.com/tlverse/hal9001
Source code: https://github.com/cran/hal9001
Date/Publication: 2022-02-09 22:50:02 UTC
Number of recursive dependencies: 92

Run revdep_details(, "hal9001") for more info

checking installed package size ... NOTE installed size is 6.1Mb sub-directories of 1Mb or more: libs 5.7Mb

hwep

Version: 0.0.1
GitHub: NA
Source code: https://github.com/cran/hwep
Date/Publication: 2021-09-28 10:30:02 UTC
Number of recursive dependencies: 65

Run revdep_details(, "hwep") for more info

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

iml

Version: 0.10.1
GitHub: https://github.com/christophM/iml
Source code: https://github.com/cran/iml
Date/Publication: 2020-09-24 12:30:14 UTC
Number of recursive dependencies: 165

Run revdep_details(, "iml") for more info

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

infercnv

Version: 1.10.1
GitHub: https://github.com/broadinstitute/inferCNV
Source code: https://github.com/cran/infercnv
Date/Publication: 2021-11-08
Number of recursive dependencies: 132

Run revdep_details(, "infercnv") for more info

checking installed package size ... NOTE installed size is 5.0Mb sub-directories of 1Mb or more: extdata 3.1Mb
checking dependencies in R code ... NOTE Unexported object imported by a ':::' call: ‘HiddenMarkov:::makedensity’ See the note in ?`:::` about the use of this operator.

inlinedocs

Version: 2019.12.5
GitHub: https://github.com/tdhock/inlinedocs
Source code: https://github.com/cran/inlinedocs
Date/Publication: 2019-12-05 23:30:07 UTC
Number of recursive dependencies: 7

Run revdep_details(, "inlinedocs") for more info

checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘R.methodsS3’

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: 106

Run revdep_details(, "interflex") for more info

checking installed package size ... NOTE installed size is 5.2Mb sub-directories of 1Mb or more: libs 4.5Mb

ipc

Version: 0.1.3
GitHub: https://github.com/fellstat/ipc
Source code: https://github.com/cran/ipc
Date/Publication: 2019-06-23 06:00:03 UTC
Number of recursive dependencies: 69

Run revdep_details(, "ipc") for more info

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

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: 107

Run revdep_details(, "ivmte") for more info

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

JointAI

Version: 1.0.3
GitHub: https://github.com/nerler/JointAI
Source code: https://github.com/cran/JointAI
Date/Publication: 2021-11-28 15:20:14 UTC
Number of recursive dependencies: 119

Run revdep_details(, "JointAI") for more info

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

Name: default_hyperpars

Title: Get the default values for hyper-parameters

Aliases: default_hyperpars

** Examples

default_hyperpars() ...

To change the hyper-parameters:

hyp <- default_hyperpars() hyp$norm['rate_tau_norm'] <- 1e-3 mod <- lm_imp(y ~ C1 + C2 + B1, data = wideDF, hyperpars = hyp, mess = FALSE) Error in run_jags(inits[[i]], data_list = data_list, modelfile = modelfile, : task 1 failed - "n.iter must be a positive integer" Calls: lm_imp ... -> run_jags -> -> Execution halted ```
checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘AfterFitting.Rmd’ using rmarkdown --- finished re-building ‘AfterFitting.Rmd’

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

Parallel sampling with 2 workers started (2022-02-18 23:29:50).

Parallel sampling with 2 workers started (2022-02-18 23:29:51).

... --- finished re-building ‘ModelSpecification.Rmd’

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

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

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

kernelboot

Version: 0.1.7
GitHub: https://github.com/twolodzko/kernelboot
Source code: https://github.com/cran/kernelboot
Date/Publication: 2020-02-13 23:10:03 UTC
Number of recursive dependencies: 64

Run revdep_details(, "kernelboot") for more info

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

keyATM

Version: 0.4.0
GitHub: https://github.com/keyATM/keyATM
Source code: https://github.com/cran/keyATM
Date/Publication: 2021-02-14 17:40:02 UTC
Number of recursive dependencies: 107

Run revdep_details(, "keyATM") for more info

checking installed package size ... NOTE installed size is 18.9Mb sub-directories of 1Mb or more: libs 18.5Mb

lava

Version: 1.6.10
GitHub: https://github.com/kkholst/lava
Source code: https://github.com/cran/lava
Date/Publication: 2021-09-02 14:50:18 UTC
Number of recursive dependencies: 127

Run revdep_details(, "lava") for more info

checking package dependencies ... NOTE Packages suggested but not available for checking: 'gof', 'lava.tobit'

lidR

Version: 4.0.0
GitHub: https://github.com/r-lidar/lidR
Source code: https://github.com/cran/lidR
Date/Publication: 2022-02-18 16:10:03 UTC
Number of recursive dependencies: 158

Run revdep_details(, "lidR") for more info

checking installed package size ... NOTE installed size is 15.8Mb sub-directories of 1Mb or more: R 1.1Mb doc 1.0Mb extdata 1.1Mb libs 12.0Mb

lmtp

Version: 1.0.0
GitHub: https://github.com/nt-williams/lmtp
Source code: https://github.com/cran/lmtp
Date/Publication: 2021-09-29 07:10:07 UTC
Number of recursive dependencies: 109

Run revdep_details(, "lmtp") for more info

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

MAI

Version: 1.0.0
GitHub: https://github.com/KechrisLab/MAI
Source code: https://github.com/cran/MAI
Date/Publication: 2021-10-26
Number of recursive dependencies: 160

Run revdep_details(, "MAI") for more info

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

microservices

Version: 0.1.2
GitHub: https://github.com/tidylab/microservices
Source code: https://github.com/cran/microservices
Date/Publication: 2021-06-12 06:10:02 UTC
Number of recursive dependencies: 69

Run revdep_details(, "microservices") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(microservices) > test_check("microservices") [ FAIL 1 | WARN 0 | SKIP 0 | PASS 12 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... Backtrace: ▆ 1. ├─config::get(...) at test-endpoint-plumber-{route_name}.R:2:0 2. │ └─base::normalizePath(file, mustWork = FALSE) 3. │ └─base::path.expand(path) 4. └─base::system.file(...)

[ FAIL 1 | WARN 0 | SKIP 0 | PASS 12 ] Error: Test failures Execution halted ```
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘config’ ‘desc’ ‘dplyr’ ‘glue’ ‘withr’ All declared Imports should be used.

MineICA

Version: 1.34.0
GitHub: NA
Source code: https://github.com/cran/MineICA
Date/Publication: 2021-10-26
Number of recursive dependencies: 208

Run revdep_details(, "MineICA") for more info

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 dependencies in R code ... NOTE 'library' or 'require' call to ‘GOstats’ which was already attached by Depends. Please remove these calls from your code. 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. ':::' 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 R code for possible problems ... NOTE addGenesToGoReport: no visible global function definition for ‘geneIdsByCategory’ addGenesToGoReport: no visible global function definition for ‘geneIdUniverse’ 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’ ... 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: 1.0.2
GitHub: https://github.com/grossSBM/missSBM
Source code: https://github.com/cran/missSBM
Date/Publication: 2022-02-01 16:00:20 UTC
Number of recursive dependencies: 104

Run revdep_details(, "missSBM") for more info

checking installed package size ... NOTE installed size is 8.4Mb sub-directories of 1Mb or more: libs 6.5Mb

mistyR

Version: 1.2.1
GitHub: https://github.com/saezlab/mistyR
Source code: https://github.com/cran/mistyR
Date/Publication: 2021-10-29
Number of recursive dependencies: 185

Run revdep_details(, "mistyR") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: Progress: ──────────────────────────────────────────────────────────────── 100% Progress: ──────────────────────────────────────────────────────────────── 100% Progress: ──────────────────────────────────────────────────────────────── 100% Generating paraview

Progress: ──────────────────────────────── 100% ... })`: could not find function "walk" Backtrace: ▆ 1. ├─base::suppressWarnings(...) at test-utils.R:60:2 2. │ └─base::withCallingHandlers(...) 3. └─seq_len(samples) %>% ... at test-utils.R:61:4

[ FAIL 4 | WARN 0 | SKIP 0 | PASS 75 ] Error: Test failures Execution halted ```

momentuHMM

Version: 1.5.4
GitHub: https://github.com/bmcclintock/momentuHMM
Source code: https://github.com/cran/momentuHMM
Date/Publication: 2021-09-03 04:30:02 UTC
Number of recursive dependencies: 195

Run revdep_details(, "momentuHMM") for more info

checking installed package size ... NOTE installed size is 9.2Mb sub-directories of 1Mb or more: R 1.2Mb doc 1.7Mb libs 5.7Mb

onemapsgapi

Version: 1.0.0
GitHub: NA
Source code: https://github.com/cran/onemapsgapi
Date/Publication: 2020-02-06 11:00:02 UTC
Number of recursive dependencies: 62

Run revdep_details(, "onemapsgapi") for more info

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

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: 127

Run revdep_details(, "OOS") for more info

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

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: 87

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: 2.7.1
GitHub: https://github.com/rmaia/pavo
Source code: https://github.com/cran/pavo
Date/Publication: 2021-09-21 13:10:21 UTC
Number of recursive dependencies: 83

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/revdep/checks/pavo/new/pavo.Rcheck/00install.out’ for details.

photosynthesis

Version: 2.0.1
GitHub: https://github.com/cdmuir/photosynthesis
Source code: https://github.com/cran/photosynthesis
Date/Publication: 2021-07-01 04:30:02 UTC
Number of recursive dependencies: 100

Run revdep_details(, "photosynthesis") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: | |=================================== | 50% | |======================================================================| 100%[ FAIL 6 | WARN 0 | SKIP 0 | PASS 149 ]

══ Failed tests ════════════════════════════════════════════════════════════════ ... Wt1 not equal to Wt2. Attributes: < Modes: list, NULL > Attributes: < Lengths: 2, 0 > Attributes: < names for target but not for current > Attributes: < current is not list-like > target is units, current is numeric

[ FAIL 6 | WARN 0 | SKIP 0 | PASS 149 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: doc 3.4Mb help 1.1Mb
checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘future’ All declared Imports should be used.

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 Rd cross-references ... NOTE Packages unavailable to check Rd xrefs: ‘geiger’, ‘caper’

PLNmodels

Version: 0.11.6
GitHub: https://github.com/pln-team/PLNmodels
Source code: https://github.com/cran/PLNmodels
Date/Publication: 2022-02-01 16:00:24 UTC
Number of recursive dependencies: 173

Run revdep_details(, "PLNmodels") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: 4. └─future::future(...) 5. ├─future::run(future) 6. └─future:::run.Future(future) 7. ├─future::run(future) 8. └─future:::run.ClusterFuture(future) 9. └─future:::cluster_call(cl, fun = grmall, future = future, when = "call grmall() on") ... 9. └─future:::run.ClusterFuture(future)
1. └─future:::cluster_call(cl, fun = grmall, future = future, when = "call grmall() on")
2. └─base::tryCatch(...)
3. └─base tryCatchList(expr, classes, parentenv, handlers)
4. └─base tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. └─value[3L]
[ FAIL 6 | WARN 0 | SKIP 0 | PASS 465 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE installed size is 16.9Mb sub-directories of 1Mb or more: doc 2.0Mb libs 13.8Mb

plumber

Version: 1.1.0
GitHub: https://github.com/rstudio/plumber
Source code: https://github.com/cran/plumber
Date/Publication: 2021-03-24 05:10:02 UTC
Number of recursive dependencies: 77

Run revdep_details(, "plumber") for more info

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

ppcseq

Version: 1.2.0
GitHub: https://github.com/stemangiola/ppcseq
Source code: https://github.com/cran/ppcseq
Date/Publication: 2021-10-26
Number of recursive dependencies: 113

Run revdep_details(, "ppcseq") for more info

checking installed package size ... NOTE installed size is 45.6Mb sub-directories of 1Mb or more: data 1.5Mb libs 42.8Mb
checking R code for possible problems ... NOTE .identify_abundant: no visible binding for global variable ‘.’ .identify_abundant: no visible binding for global variable ‘.abundant’ add_exposure_rate: no visible binding for global variable ‘.variable’ add_exposure_rate: no visible binding for global variable ‘S’ add_exposure_rate: no visible binding for global variable ‘exposure rate’ add_partition: no visible binding for global variable ‘.’ add_scaled_counts_bulk.calcNormFactor: no visible binding for global variable ‘transcript’ add_scaled_counts_bulk.get_low_expressed: no visible binding for global ... . .abundant .chain .draw .iteration .lower .upper .upper_2 .value .variable CI G S TMM cc chains dummy exposure rate idx_MPI init l l %>% sd med multiplier nf ppc read count MPI row res_discovery rowid s sample wise data scale_abundance slope symbol MPI row tot tot_filt transcript write_on_disk Consider adding importFrom("base", "row", "sample") importFrom("stats", "sd") importFrom("utils", "data") to your NAMESPACE file.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

ppseq

Version: 0.1.1
GitHub: NA
Source code: https://github.com/cran/ppseq
Date/Publication: 2021-09-09 09:00:02 UTC
Number of recursive dependencies: 99

Run revdep_details(, "ppseq") for more info

checking installed package size ... NOTE installed size is 5.3Mb sub-directories of 1Mb or more: doc 5.2Mb

prewas

Version: 1.1.1
GitHub: https://github.com/Snitkin-Lab-Umich/prewas
Source code: https://github.com/cran/prewas
Date/Publication: 2021-04-02 12:20:05 UTC
Number of recursive dependencies: 71

Run revdep_details(, "prewas") for more info

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

promises

Version: 1.2.0.1
GitHub: https://github.com/rstudio/promises
Source code: https://github.com/cran/promises
Date/Publication: 2021-02-11 19:00:02 UTC
Number of recursive dependencies: 63

Run revdep_details(, "promises") for more info

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

Prostar

Version: 1.26.3
GitHub: https://github.com/samWieczorek/Prostar
Source code: https://github.com/cran/Prostar
Date/Publication: 2022-01-06
Number of recursive dependencies: 318

Run revdep_details(, "Prostar") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘BiocManager’ ‘DAPAR’ ‘DAPARdata’ ‘DT’ ‘R.utils’ ‘XML’ ‘colourpicker’ ‘data.table’ ‘future’ ‘highcharter’ ‘htmlwidgets’ ‘later’ ‘promises’ ‘rclipboard’ ‘rhandsontable’ ‘sass’ ‘shinyAce’ ‘shinyBS’ ‘shinyTree’ ‘shinyWidgets’ ‘shinycssloaders’ ‘shinyjqui’ ‘shinyjs’ ‘shinythemes’ ‘tibble’ ‘webshot’ All declared Imports should be used.
checking re-building of vignette outputs ... NOTE `` Error(s) in re-building vignettes: ... --- re-building ‘Prostar_UserManual.Rnw’ using Sweave Error: processing vignette 'Prostar_UserManual.Rnw' failed with diagnostics: Running 'texi2dvi' on 'Prostar_UserManual.tex' failed. LaTeX errors: ! LaTeX Error: Filenowidow.sty' not found.

Type X to quit or to proceed, or enter new name. (Default extension: sty) ... l.189 \RequirePackage {parnotes}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘Prostar_UserManual.Rnw’

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

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

PUMP

Version: 1.0.0
GitHub: https://github.com/MDRCNY/PUMP
Source code: https://github.com/cran/PUMP
Date/Publication: 2022-02-09 09:50:05 UTC
Number of recursive dependencies: 125

Run revdep_details(, "PUMP") for more info

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

QDNAseq

Version: 1.30.0
GitHub: https://github.com/ccagc/QDNAseq
Source code: https://github.com/cran/QDNAseq
Date/Publication: 2021-10-26
Number of recursive dependencies: 75

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 Calculating fit for sample LGG150 (1 of 1) ... Segmenting: LGG150 (1 of 1) ... EM algorithm started ...

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

... l.189 \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 ```

RAINBOWR

Version: 0.1.29
GitHub: NA
Source code: https://github.com/cran/RAINBOWR
Date/Publication: 2022-01-07 13:53:11 UTC
Number of recursive dependencies: 147

Run revdep_details(, "RAINBOWR") for more info

checking installed package size ... NOTE installed size is 32.6Mb sub-directories of 1Mb or more: libs 31.4Mb

regmedint

Version: 0.2.1
GitHub: https://github.com/kaz-yos/regmedint
Source code: https://github.com/cran/regmedint
Date/Publication: 2021-05-12 04:30:02 UTC
Number of recursive dependencies: 121

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.

rgee

Version: 1.1.2
GitHub: https://github.com/r-spatial/rgee
Source code: https://github.com/cran/rgee
Date/Publication: 2021-12-15 22:00:02 UTC
Number of recursive dependencies: 148

Run revdep_details(, "rgee") for more info

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

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: 64

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

sapfluxnetr

Version: 0.1.3
GitHub: https://github.com/sapfluxnet/sapfluxnetr
Source code: https://github.com/cran/sapfluxnetr
Date/Publication: 2021-11-19 15:10:02 UTC
Number of recursive dependencies: 74

Run revdep_details(, "sapfluxnetr") for more info

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

scDiffCom

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/scDiffCom
Date/Publication: 2021-08-17 07:20:05 UTC
Number of recursive dependencies: 245

Run revdep_details(, "scDiffCom") for more info

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

sctransform

Version: 0.3.3
GitHub: https://github.com/satijalab/sctransform
Source code: https://github.com/cran/sctransform
Date/Publication: 2022-01-13 08:20:02 UTC
Number of recursive dependencies: 69

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: 165

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.

seer

Version: 1.1.7
GitHub: https://github.com/thiyangt/seer
Source code: https://github.com/cran/seer
Date/Publication: 2021-12-08 05:20:02 UTC
Number of recursive dependencies: 111

Run revdep_details(, "seer") for more info

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

Seurat

Version: 4.1.0
GitHub: https://github.com/satijalab/seurat
Source code: https://github.com/cran/Seurat
Date/Publication: 2022-01-14 18:32:42 UTC
Number of recursive dependencies: 257

Run revdep_details(, "Seurat") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(Seurat) Attaching SeuratObject > > test_check("Seurat") [ FAIL 1 | WARN 4 | SKIP 19 | PASS 594 ] ...

══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure (test_integratedata.R:89:3): IntegrateData with three objects default work ── sum(GetAssayData(int3[["integrated"]])[1, ]) not equal to 372.829. 1/1 mismatches [1] 373 - 373 == -0.106

[ FAIL 1 | WARN 4 | SKIP 19 | PASS 594 ] Error: Test failures Execution halted ```
checking installed package size ... NOTE installed size is 12.0Mb sub-directories of 1Mb or more: R 1.3Mb libs 10.1Mb
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘Signac’

shar

Version: 1.3.1
GitHub: https://github.com/r-spatialecology/shar
Source code: https://github.com/cran/shar
Date/Publication: 2022-01-04 15:30:05 UTC
Number of recursive dependencies: 88

Run revdep_details(, "shar") for more info

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

Name: calculate_energy

Title: calculate_energy

Aliases: calculate_energy

** Examples

pattern_random <- fit_point_process(species_a, n_random = 19) Warning: Unmarked provided input pattern. Error: 'runifpoint' is not an exported object from 'namespace:spatstat.core' Execution halted ```
checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: Backtrace: ▆
1. └─shar::fit_point_process(species_a, n_random = 3, verbose = FALSE) at test-plot_rd_pat.R:3:0
2. └─base::lapply(...)
3. └─shar FUN(X[[i]], ...) ── Error (test-print.R:3:1): (code run outside of test_that()) ─────────────── ... Error: 'runifpoint' is not an exported object from 'namespace:spatstat.core' Backtrace: ▆
4. └─shar::fit_point_process(species_a, n_random = 9, verbose = FALSE) at test-sample_randomized.R:3:0
5. └─base::lapply(...)
6. └─shar FUN(X[[i]], ...)
[ FAIL 13 | WARN 0 | SKIP 0 | PASS 36 ] Error: Test failures Execution halted ```
checking dependencies in R code ... WARNING Missing or unexported objects: ‘spatstat.core::rpoint’ ‘spatstat.core::runifpoint’

shiny

Version: 1.7.1
GitHub: https://github.com/rstudio/shiny
Source code: https://github.com/cran/shiny
Date/Publication: 2021-10-02 04:30:02 UTC
Number of recursive dependencies: 105

Run revdep_details(, "shiny") for more info

checking installed package size ... NOTE installed size is 9.3Mb sub-directories of 1Mb or more: R 1.6Mb www 6.6Mb

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: 64

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

shinyrecap

Version: 0.1.0
GitHub: NA
Source code: https://github.com/cran/shinyrecap
Date/Publication: 2019-01-19 23:40:03 UTC
Number of recursive dependencies: 96

Run revdep_details(, "shinyrecap") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘CARE1’ ‘LCMCR’ ‘coda’ ‘conting’ ‘dga’ ‘future’ ‘ggplot2’ ‘ipc’ ‘promises’ ‘reshape’ ‘shinycssloaders’ ‘testthat’ All declared Imports should be used.
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

sigminer

Version: 2.1.2
GitHub: https://github.com/ShixiangWang/sigminer
Source code: https://github.com/cran/sigminer
Date/Publication: 2021-12-15 07:50:02 UTC
Number of recursive dependencies: 201

Run revdep_details(, "sigminer") for more info

checking installed package size ... NOTE installed size is 6.4Mb sub-directories of 1Mb or more: extdata 2.6Mb libs 1.2Mb

simhelpers

Version: 0.1.1
GitHub: https://github.com/meghapsimatrix/simhelpers
Source code: https://github.com/cran/simhelpers
Date/Publication: 2021-02-14 17:50:02 UTC
Number of recursive dependencies: 103

Run revdep_details(, "simhelpers") for more info

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

skpr

Version: 1.0.0
GitHub: https://github.com/tylermorganwall/skpr
Source code: https://github.com/cran/skpr
Date/Publication: 2021-08-17 16:30:18 UTC
Number of recursive dependencies: 120

Run revdep_details(, "skpr") for more info

checking installed package size ... NOTE installed size is 49.7Mb sub-directories of 1Mb or more: libs 48.2Mb

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: 123

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.

spacey

Version: 0.1.1
GitHub: https://github.com/mikemahoney218/spacey
Source code: https://github.com/cran/spacey
Date/Publication: 2020-03-14 18:50:02 UTC
Number of recursive dependencies: 84

Run revdep_details(, "spacey") for more info

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

spaMM

Version: 3.10.0
GitHub: NA
Source code: https://github.com/cran/spaMM
Date/Publication: 2022-02-07 03:30:04 UTC
Number of recursive dependencies: 100

Run revdep_details(, "spaMM") for more info

checking package dependencies ... NOTE Packages which this enhances but not available for checking: 'multcomp', 'RLRsim'
checking installed package size ... NOTE installed size is 46.8Mb sub-directories of 1Mb or more: R 2.1Mb libs 43.6Mb

sparrpowR

Version: 0.2.5
GitHub: https://github.com/machiela-lab/sparrpowR
Source code: https://github.com/cran/sparrpowR
Date/Publication: 2022-02-05 00:30:02 UTC
Number of recursive dependencies: 98

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 ‘/c4/home/henrik/repositories/future/revdep/checks/sparrpowR/new/sparrpowR.Rcheck/00install.out’ for details.

SPARSEMODr

Version: 1.1.0
GitHub: https://github.com/NAU-CCL/SPARSEMODr
Source code: https://github.com/cran/SPARSEMODr
Date/Publication: 2021-07-01 17:50:02 UTC
Number of recursive dependencies: 117

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.

spatialTIME

Version: 1.2.0
GitHub: https://github.com/FridleyLab/spatialTIME
Source code: https://github.com/cran/spatialTIME
Date/Publication: 2021-09-11 04:10:02 UTC
Number of recursive dependencies: 116

Run revdep_details(, "spatialTIME") for more info

checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘ggpubr’ ‘pheatmap’ ‘rlist’ ‘stats’ ‘viridis’ All declared Imports should be used.

spatialwarnings

Version: 3.0.2
GitHub: https://github.com/spatial-ews/spatialwarnings
Source code: https://github.com/cran/spatialwarnings
Date/Publication: 2021-12-16 10:00:02 UTC
Number of recursive dependencies: 84

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. ```
checking installed package size ... NOTE installed size is 6.4Mb sub-directories of 1Mb or more: libs 5.4Mb

sphunif

Version: 1.0.1
GitHub: https://github.com/egarpor/sphunif
Source code: https://github.com/cran/sphunif
Date/Publication: 2021-09-02 07:40:02 UTC
Number of recursive dependencies: 68

Run revdep_details(, "sphunif") for more info

checking installed package size ... NOTE installed size is 20.5Mb sub-directories of 1Mb or more: libs 19.6Mb
checking data for non-ASCII characters ... NOTE Note: found 189 marked UTF-8 strings

spNetwork

Version: 0.2.1
GitHub: https://github.com/JeremyGelb/spNetwork
Source code: https://github.com/cran/spNetwork
Date/Publication: 2021-10-30 09:50:02 UTC
Number of recursive dependencies: 147

Run revdep_details(, "spNetwork") for more info

checking installed package size ... NOTE installed size is 22.1Mb sub-directories of 1Mb or more: doc 1.9Mb extdata 4.1Mb libs 15.4Mb

stars

Version: 0.5-5
GitHub: https://github.com/r-spatial/stars
Source code: https://github.com/cran/stars
Date/Publication: 2021-12-19 03:20:02 UTC
Number of recursive dependencies: 144

Run revdep_details(, "stars") for more info

checking package dependencies ... NOTE Package suggested but not available for checking: ‘starsdata’
checking installed package size ... NOTE installed size is 8.6Mb sub-directories of 1Mb or more: doc 2.3Mb nc 4.5Mb

steps

Version: 1.2.1
GitHub: NA
Source code: https://github.com/cran/steps
Date/Publication: 2021-03-03 09:20:10 UTC
Number of recursive dependencies: 83

Run revdep_details(, "steps") for more info

checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(raster) Loading required package: sp > library(steps) > > test_check("steps") ...
1. ├─base::inherits(...)
2. └─steps::simulation(...)
3. └─base::tryCatch(...)
4. └─base tryCatchList(expr, classes, parentenv, handlers)
5. └─base tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. └─value[3L]
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 15 ] Error: Test failures Execution halted ```
checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘custom_function_example.Rmd’ using rmarkdown Loading required package: sp

Attaching package: 'future'

The following object is masked from 'package:raster':
```
values
```
...
```
values
```
--- finished re-building ‘kangaroo_model_example.Rmd’

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

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

synergyfinder

Version: 3.2.4
GitHub: NA
Source code: https://github.com/cran/synergyfinder
Date/Publication: 2022-01-16
Number of recursive dependencies: 179

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 for code/documentation mismatches ... WARNING Codoc mismatches from documentation object 'PlotDoseResponseCurve': PlotDoseResponseCurve Code: function(data, plot_block = 1, drug_index = 1, adjusted = TRUE, Emin = NA, Emax = NA, grid = TRUE, point_color = "#C24B40", curve_color = "black", text_size_scale = 1, plot_title = NULL, plot_subtitle = NULL, plot_setting = list(cex.lab = 1 * text_size_scale, mgp = c(2, 0.5, 0), font.main = 2, font.lab = 1, cex.main = 14/12 * text_size_scale, bty = "l", lwd = 1.5), ylim = NULL, plot_new = TRUE, record_plot = TRUE) ... text_size_scale, bty = "l", lwd = 1.5), ylim = NULL, plot_new = TRUE, record_plot = TRUE) Mismatches in argument default values: Name: 'plot_setting' Code: list(cex.lab = 1 * text_size_scale, mgp = c(2, 0.5, 0), font.main = 2, font.lab = 1, cex.main = 14/12 * text_size_scale, bty = "l", lwd = 1.5) Docs: list(cex.lab = 1 * text_size_scale, mgp = c(2, 0.5, 0), font.main = 2, font.lab = 3, cex.main = 14/12 * text_size_scale, bty = "l", lwd = 1.5)
checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: doc 5.7Mb
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’ ... block_id color conc1 conc2 css data end head id input_type label left maxn metric n nn pred r response response_CI95 response_mean response_origin response_origin_CI95 response_origin_mean response_origin_sd response_origin_sem response_sd response_sem right start synergy text theta value x y Consider adding importFrom("graphics", "text") importFrom("stats", "end", "start") importFrom("utils", "data", "head") to your NAMESPACE file.

tableschema.r

Version: 1.1.1
GitHub: https://github.com/frictionlessdata/tableschema-r
Source code: https://github.com/cran/tableschema.r
Date/Publication: 2020-03-12 12:40:02 UTC
Number of recursive dependencies: 65

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

checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘iterators’ All declared Imports should be used.
checking Rd cross-references ... NOTE Package unavailable to check Rd xrefs: ‘parsedate’
checking LazyData ... NOTE 'LazyData' is specified without a 'data' directory

targeted

Version: 0.2.0
GitHub: https://github.com/kkholst/targeted
Source code: https://github.com/cran/targeted
Date/Publication: 2021-10-26 14:40:02 UTC
Number of recursive dependencies: 72

Run revdep_details(, "targeted") for more info

checking installed package size ... NOTE installed size is 13.6Mb sub-directories of 1Mb or more: libs 12.7Mb

text

Version: 0.9.50
GitHub: https://github.com/OscarKjell/text
Source code: https://github.com/cran/text
Date/Publication: 2022-02-12 23:10:02 UTC
Number of recursive dependencies: 145

Run revdep_details(, "text") for more info

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

TreeSearch

Version: 1.1.0
GitHub: https://github.com/ms609/TreeSearch
Source code: https://github.com/cran/TreeSearch
Date/Publication: 2022-01-17 17:12:49 UTC
Number of recursive dependencies: 100

Run revdep_details(, "TreeSearch") for more info

checking installed package size ... NOTE installed size is 5.8Mb sub-directories of 1Mb or more: datasets 1.6Mb libs 2.2Mb

TriDimRegression

Version: 1.0.1
GitHub: https://github.com/alexander-pastukhov/tridim-regression
Source code: https://github.com/cran/TriDimRegression
Date/Publication: 2021-10-05 08:30:08 UTC
Number of recursive dependencies: 89

Run revdep_details(, "TriDimRegression") for more info

checking installed package size ... NOTE installed size is 41.3Mb sub-directories of 1Mb or more: libs 40.7Mb
checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘RcppParallel’ ‘rstantools’ All declared Imports should be used.
checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

tsfeatures

Version: 1.0.2
GitHub: https://github.com/robjhyndman/tsfeatures
Source code: https://github.com/cran/tsfeatures
Date/Publication: 2020-06-07 16:10:02 UTC
Number of recursive dependencies: 94

Run revdep_details(, "tsfeatures") for more info

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

TSstudio

Version: 0.1.6
GitHub: https://github.com/RamiKrispin/TSstudio
Source code: https://github.com/cran/TSstudio
Date/Publication: 2020-01-21 05:30:02 UTC
Number of recursive dependencies: 140

Run revdep_details(, "TSstudio") for more info

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

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: 106

Run revdep_details(, "txshift") for more info

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

UCSCXenaShiny

Version: 1.1.5
GitHub: https://github.com/openbiox/UCSCXenaShiny
Source code: https://github.com/cran/UCSCXenaShiny
Date/Publication: 2022-01-15 11:32:42 UTC
Number of recursive dependencies: 187

Run revdep_details(, "UCSCXenaShiny") for more info

checking installed package size ... NOTE installed size is 6.8Mb sub-directories of 1Mb or more: doc 1.5Mb shinyapp 3.3Mb

updog

Version: 2.1.2
GitHub: https://github.com/dcgerard/updog
Source code: https://github.com/cran/updog
Date/Publication: 2022-01-24 21:50:02 UTC
Number of recursive dependencies: 142

Run revdep_details(, "updog") for more info

checking installed package size ... NOTE installed size is 6.7Mb sub-directories of 1Mb or more: libs 6.0Mb

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: 122

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 ‘/c4/home/henrik/repositories/future/revdep/checks/vmeasur/new/vmeasur.Rcheck/00install.out’ for details.

XNAString

Version: 1.2.2
GitHub: NA
Source code: https://github.com/cran/XNAString
Date/Publication: 2021-11-30
Number of recursive dependencies: 94

Run revdep_details(, "XNAString") for more info

checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: ... --- re-building ‘XNAString_vignette.Rmd’ using knitr Quitting from lines 499-513 (XNAString_vignette.Rmd) Error: processing vignette 'XNAString_vignette.Rmd' failed with diagnostics: object 'compl_dict' not found --- failed re-building ‘XNAString_vignette.Rmd’

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

Error: Vignette re-building failed. Execution halted ```
checking installed package size ... NOTE installed size is 10.8Mb sub-directories of 1Mb or more: libs 9.7Mb
checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file.
checking compiled code ... NOTE ``` File ‘XNAString/libs/XNAString.so’: Found ‘rand’, possibly from ‘rand’ (C) Object: ‘./ViennaRNA/utils/utils.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.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. ```

HenrikBengtsson/future documentation built on June 1, 2024, 6:46 a.m.

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

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

AIPW

In both

AlpsNMR

In both

aroma.core

In both

BAMBI

In both

BatchGetSymbols

In both

bcmaps

In both

BEKKs

In both

bigDM

In both

bistablehistory

In both

blavaan

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blockCV

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brms

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cfbfastR

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ChromSCape

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civis

In both

codalm

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codebook

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cSEM

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CSGo

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datapackage.r

In both

DeclareDesign

In both

Name: declare_estimator

Title: Declare estimator

Aliases: declare_estimator declare_estimators label_estimator

model_handler

** Examples

delayed

In both

dipsaus

In both

dispositionEffect

In both

doFuture

In both

dragon

In both

drtmle

In both

Name: ci.adaptive_iptw

Title: Confidence intervals for adaptive_iptw objects

Aliases: ci.adaptive_iptw

** Examples

load super learner

easyalluvial

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EFAtools

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envi

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EpiNow2

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epitweetr

In both

fipe

In both

flowGraph

In both

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

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