Last updated on 2021-02-13 04:47:46 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.17 | 26.23 | 222.18 | 248.41 | WARN | |
| r-devel-linux-x86_64-debian-gcc | 0.1.17 | 23.53 | 163.97 | 187.50 | WARN | |
| r-devel-linux-x86_64-fedora-clang | 0.1.17 | 302.89 | WARN | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.17 | 273.72 | WARN | |||
| r-devel-windows-ix86+x86_64 | 0.1.17 | 65.00 | 200.00 | 265.00 | WARN | |
| r-patched-linux-x86_64 | 0.1.17 | 18.17 | 209.16 | 227.33 | WARN | |
| r-patched-solaris-x86 | 0.1.17 | 429.30 | WARN | |||
| r-release-linux-x86_64 | 0.1.17 | 17.39 | 212.42 | 229.81 | WARN | |
| r-release-macos-x86_64 | 0.1.17 | OK | ||||
| r-release-windows-ix86+x86_64 | 0.1.17 | 64.00 | 274.00 | 338.00 | WARN | |
| r-oldrel-macos-x86_64 | 0.1.17 | ERROR |
Version: 0.1.17
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building 'figures_article.Rmd' using knitr
--- finished re-building 'figures_article.Rmd'
--- re-building 'introduction.Rmd' using knitr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'magrittr'
The following object is masked from 'package:purrr':
set_names
The following object is masked from 'package:tidyr':
extract
Attaching SeuratObject
Attaching package: 'tidyseurat'
The following object is masked from 'package:SeuratObject':
pbmc_small
The following object is masked from 'package:magrittr':
extract
The following objects are masked from 'package:dplyr':
bind_cols, bind_rows, count
The following object is masked from 'package:stats':
filter
`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
tidyseurat says: A data frame is returned for independent data analysis.
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
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Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
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Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in irlba(A = t(x = object), nv = npcs, ...) :
You're computing too large a percentage of total singular values, use a standard svd instead.
tidyseurat says: A data frame is returned for independent data analysis.
Calculating cluster 0
For a more efficient implementation of the Wilcoxon Rank Sum Test,
(default method for FindMarkers) please install the limma package
--------------------------------------------
install.packages('BiocManager')
BiocManager::install('limma')
--------------------------------------------
After installation of limma, Seurat will automatically use the more
efficient implementation (no further action necessary).
This message will be shown once per session
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Quitting from lines 219-232 (./../man/fragments/intro.Rmd)
Quitting from lines 50-51 (./../man/fragments/intro.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Problem with `filter()` input `..1`.
x object 'avg_logFC' not found
i Input `..1` is `top_n_rank(10, avg_logFC)`.
i The error occurred in group 1: cluster = "0".
--- failed re-building 'introduction.Rmd'
SUMMARY: processing the following file failed:
'introduction.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.17
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘figures_article.Rmd’ using knitr
--- finished re-building ‘figures_article.Rmd’
--- re-building ‘introduction.Rmd’ using knitr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'magrittr'
The following object is masked from 'package:purrr':
set_names
The following object is masked from 'package:tidyr':
extract
Attaching SeuratObject
Attaching package: 'tidyseurat'
The following object is masked from 'package:SeuratObject':
pbmc_small
The following object is masked from 'package:magrittr':
extract
The following objects are masked from 'package:dplyr':
bind_cols, bind_rows, count
The following object is masked from 'package:stats':
filter
`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
tidyseurat says: A data frame is returned for independent data analysis.
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
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Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in irlba(A = t(x = object), nv = npcs, ...) :
You're computing too large a percentage of total singular values, use a standard svd instead.
tidyseurat says: A data frame is returned for independent data analysis.
Calculating cluster 0
For a more efficient implementation of the Wilcoxon Rank Sum Test,
(default method for FindMarkers) please install the limma package
--------------------------------------------
install.packages('BiocManager')
BiocManager::install('limma')
--------------------------------------------
After installation of limma, Seurat will automatically use the more
efficient implementation (no further action necessary).
This message will be shown once per session
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Quitting from lines 219-232 (./../man/fragments/intro.Rmd)
Quitting from lines 50-51 (./../man/fragments/intro.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Problem with `filter()` input `..1`.
✖ object ‘avg_logFC’ not found
ℹ Input `..1` is `top_n_rank(10, avg_logFC)`.
ℹ The error occurred in group 1: cluster = "0".
--- failed re-building ‘introduction.Rmd’
SUMMARY: processing the following file failed:
‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64
Version: 0.1.17
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘figures_article.Rmd’ using knitr
--- finished re-building ‘figures_article.Rmd’
--- re-building ‘introduction.Rmd’ using knitr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'magrittr'
The following object is masked from 'package:purrr':
set_names
The following object is masked from 'package:tidyr':
extract
Attaching SeuratObject
Attaching package: 'tidyseurat'
The following object is masked from 'package:SeuratObject':
pbmc_small
The following object is masked from 'package:magrittr':
extract
The following objects are masked from 'package:dplyr':
bind_cols, bind_rows, count
The following object is masked from 'package:stats':
filter
`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
tidyseurat says: A data frame is returned for independent data analysis.
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
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Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in sqrt(1/i) : NaNs produced
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in irlba(A = t(x = object), nv = npcs, ...) :
You're computing too large a percentage of total singular values, use a standard svd instead.
tidyseurat says: A data frame is returned for independent data analysis.
Calculating cluster 0
For a more efficient implementation of the Wilcoxon Rank Sum Test,
(default method for FindMarkers) please install the limma package
--------------------------------------------
install.packages('BiocManager')
BiocManager::install('limma')
--------------------------------------------
After installation of limma, Seurat will automatically use the more
efficient implementation (no further action necessary).
This message will be shown once per session
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Quitting from lines 219-232 (./../man/fragments/intro.Rmd)
Quitting from lines 50-51 (./../man/fragments/intro.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Problem with `filter()` input `..1`.
✖ object 'avg_logFC' not found
ℹ Input `..1` is `top_n_rank(10, avg_logFC)`.
ℹ The error occurred in group 1: cluster = "0".
--- failed re-building ‘introduction.Rmd’
SUMMARY: processing the following file failed:
‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.17
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘figures_article.Rmd’ using knitr
--- finished re-building ‘figures_article.Rmd’
--- re-building ‘introduction.Rmd’ using knitr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'magrittr'
The following object is masked from 'package:purrr':
set_names
The following object is masked from 'package:tidyr':
extract
Attaching SeuratObject
Attaching package: 'tidyseurat'
The following object is masked from 'package:SeuratObject':
pbmc_small
The following object is masked from 'package:magrittr':
extract
The following objects are masked from 'package:dplyr':
bind_cols, bind_rows, count
The following object is masked from 'package:stats':
filter
`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
tidyseurat says: A data frame is returned for independent data analysis.
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
Warning in theta.ml(y = y, mu = fit$fitted) : iteration limit reached
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Warning in irlba(A = t(x = object), nv = npcs, ...) :
You're computing too large a percentage of total singular values, use a standard svd instead.
tidyseurat says: A data frame is returned for independent data analysis.
Calculating cluster 0
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Quitting from lines 219-232 (./../man/fragments/intro.Rmd)
Quitting from lines 50-51 (./../man/fragments/intro.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Problem with `filter()` input `..1`.
✖ object 'avg_logFC' not found
ℹ Input `..1` is `top_n_rank(10, avg_logFC)`.
ℹ The error occurred in group 1: cluster = "0".
--- failed re-building ‘introduction.Rmd’
SUMMARY: processing the following file failed:
‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.17
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building 'figures_article.Rmd' using knitr
--- finished re-building 'figures_article.Rmd'
--- re-building 'introduction.Rmd' using knitr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'magrittr'
The following object is masked from 'package:purrr':
set_names
The following object is masked from 'package:tidyr':
extract
Attaching SeuratObject
Attaching package: 'tidyseurat'
The following object is masked from 'package:SeuratObject':
pbmc_small
The following object is masked from 'package:magrittr':
extract
The following objects are masked from 'package:dplyr':
bind_cols, bind_rows, count
The following object is masked from 'package:stats':
filter
`stat_bin()` using `bins = 30`. Pick better value with `binwidth`.
tidyseurat says: A data frame is returned for independent data analysis.
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Warning in irlba(A = t(x = object), nv = npcs, ...) :
You're computing too large a percentage of total singular values, use a standard svd instead.
tidyseurat says: A data frame is returned for independent data analysis.
Calculating cluster 0
For a more efficient implementation of the Wilcoxon Rank Sum Test,
(default method for FindMarkers) please install the limma package
--------------------------------------------
install.packages('BiocManager')
BiocManager::install('limma')
--------------------------------------------
After installation of limma, Seurat will automatically use the more
efficient implementation (no further action necessary).
This message will be shown once per session
Calculating cluster 1
Calculating cluster 2
Calculating cluster 3
Quitting from lines 219-232 (./../man/fragments/intro.Rmd)
Quitting from lines 50-51 (./../man/fragments/intro.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
Problem with `filter()` input `..1`.
x object 'avg_logFC' not found
i Input `..1` is `top_n_rank(10, avg_logFC)`.
i The error occurred in group 1: cluster = "0".
--- failed re-building 'introduction.Rmd'
SUMMARY: processing the following file failed:
'introduction.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64
Version: 0.1.17
Check: whether package can be installed
Result: ERROR
Installation failed.
Flavor: r-oldrel-macos-x86_64