CRAN Package Check Results for Package diceR

Last updated on 2020-01-27 00:48:01 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.6.0 30.17 239.26 269.43 OK
r-devel-linux-x86_64-debian-gcc 0.6.0 17.91 150.08 167.99 OK
r-devel-linux-x86_64-fedora-clang 0.6.0 323.58 WARN
r-devel-linux-x86_64-fedora-gcc 0.6.0 294.21 OK
r-devel-windows-ix86+x86_64 0.6.0 93.00 502.00 595.00 ERROR
r-devel-windows-ix86+x86_64-gcc8 0.6.0 101.00 426.00 527.00 ERROR
r-patched-linux-x86_64 0.6.0 20.00 184.76 204.76 OK
r-patched-solaris-x86 0.6.0 422.60 OK
r-release-linux-x86_64 0.6.0 21.29 183.52 204.81 OK
r-release-windows-ix86+x86_64 0.6.0 57.00 379.00 436.00 OK
r-release-osx-x86_64 0.6.0 OK
r-oldrel-windows-ix86+x86_64 0.6.0 40.00 338.00 378.00 OK
r-oldrel-osx-x86_64 0.6.0 OK

Check Details

Version: 0.6.0
Check: package dependencies
Result: WARN
    Imports includes 37 non-default packages.
    Importing from so many packages makes the package vulnerable to any of
    them becoming unavailable. Move as many as possible to Suggests and
    use conditionally.
    
    Requires orphaned packages:
     ‘clValid’ ‘gplots’
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.6.0
Check: running tests for arch ‘i386’
Result: ERROR
     Running 'testthat.R' [139s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(diceR)
     >
     > test_check("diceR")
     -- 1. Error: No algorithms means all algorithms, output is an array (@test-conse
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(hgsc, nk = 4, reps = 1, progress = FALSE)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 2. Error: Progress bar increments across entire function call (@test-consensu
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 3. Error: Data preparation on bootstrap samples works (@test-consensus_cluste
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 4. Error: (unknown) (@test-consensus_funs.R#6) -----------------------------
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     == testthat results ===========================================================
     [ OK: 94 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 4 ]
     1. Error: No algorithms means all algorithms, output is an array (@test-consensus_cluster.R#7)
     2. Error: Progress bar increments across entire function call (@test-consensus_cluster.R#24)
     3. Error: Data preparation on bootstrap samples works (@test-consensus_cluster.R#38)
     4. Error: (unknown) (@test-consensus_funs.R#6)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 0.6.0
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [150s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(diceR)
     >
     > test_check("diceR")
     -- 1. Error: No algorithms means all algorithms, output is an array (@test-conse
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(hgsc, nk = 4, reps = 1, progress = FALSE)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 2. Error: Progress bar increments across entire function call (@test-consensu
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 3. Error: Data preparation on bootstrap samples works (@test-consensus_cluste
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 4. Error: (unknown) (@test-consensus_funs.R#6) -----------------------------
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     == testthat results ===========================================================
     [ OK: 94 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 4 ]
     1. Error: No algorithms means all algorithms, output is an array (@test-consensus_cluster.R#7)
     2. Error: Progress bar increments across entire function call (@test-consensus_cluster.R#24)
     3. Error: Data preparation on bootstrap samples works (@test-consensus_cluster.R#38)
     4. Error: (unknown) (@test-consensus_funs.R#6)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 0.6.0
Check: running tests for arch ‘i386’
Result: ERROR
     Running 'testthat.R' [114s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(diceR)
     >
     > test_check("diceR")
     -- 1. Error: No algorithms means all algorithms, output is an array (@test-conse
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(hgsc, nk = 4, reps = 1, progress = FALSE)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 2. Error: Progress bar increments across entire function call (@test-consensu
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 3. Error: Data preparation on bootstrap samples works (@test-consensus_cluste
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 4. Error: (unknown) (@test-consensus_funs.R#6) -----------------------------
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     == testthat results ===========================================================
     [ OK: 94 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 4 ]
     1. Error: No algorithms means all algorithms, output is an array (@test-consensus_cluster.R#7)
     2. Error: Progress bar increments across entire function call (@test-consensus_cluster.R#24)
     3. Error: Data preparation on bootstrap samples works (@test-consensus_cluster.R#38)
     4. Error: (unknown) (@test-consensus_funs.R#6)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64-gcc8

Version: 0.6.0
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'testthat.R' [115s]
    Running the tests in 'tests/testthat.R' failed.
    Complete output:
     > library(testthat)
     > library(diceR)
     >
     > test_check("diceR")
     -- 1. Error: No algorithms means all algorithms, output is an array (@test-conse
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(hgsc, nk = 4, reps = 1, progress = FALSE)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 2. Error: Progress bar increments across entire function call (@test-consensu
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 3. Error: Data preparation on bootstrap samples works (@test-consensus_cluste
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     -- 4. Error: (unknown) (@test-consensus_funs.R#6) -----------------------------
     trying to get slot "className" from an object of a basic class ("character") with no slots
     Backtrace:
     1. diceR::consensus_cluster(...)
     5. purrr::pmap(list(fun, args), cc)
     6. diceR:::.f(.l[[1L]][[i]], .l[[2L]][[i]], ...)
     7. base::length(args$algs)
     15. purrr::when(., . > 0 ~ purrr::invoke(fun, args), ~NULL)
     16. [ base::eval(...) ] with 1 more call
     21. diceR:::nmf(x, nk[k], nmf.method[j], seed.nmf)
     24. NMF::nmf(t(x), rank = k, method = method, seed = seed)
     26. NMF::nmf(x, rank, method = strategy, ...)
     27. NMF:::.local(x, rank, method, ...)
     28. NMF::is.nmf(seed)
     29. methods::is(x, clref)
    
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Evaluating output with consensus function results
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     Selecting k and imputing non-clustered cases
     Computing consensus functions
     Diverse Cluster Ensemble Completed
     == testthat results ===========================================================
     [ OK: 94 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 4 ]
     1. Error: No algorithms means all algorithms, output is an array (@test-consensus_cluster.R#7)
     2. Error: Progress bar increments across entire function call (@test-consensus_cluster.R#24)
     3. Error: Data preparation on bootstrap samples works (@test-consensus_cluster.R#38)
     4. Error: (unknown) (@test-consensus_funs.R#6)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-windows-ix86+x86_64-gcc8