CRAN Package Check Results for Maintainer ‘Antoine Bichat <a.bichat at yahoo.fr>’

Last updated on 2021-09-19 03:51:46 CEST.

Package ERROR WARN NOTE OK
evabic 1 11 2
yatah 1 3 10

Package evabic

Current CRAN status: ERROR: 1, NOTE: 11, OK: 2

Version: 0.0.3
Check: LazyData
Result: NOTE
     'LazyData' is specified without a 'data' directory
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-devel-windows-x86_64-gcc10-UCRT, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-ix86+x86_64

Version: 0.0.3
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     WARNING: installation-time patches will not be applied, could not get the patches index
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 0.0.3
Check: PDF version of manual
Result: WARN
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 0.0.3
Check: PDF version of manual without hyperrefs or index
Result: ERROR
    Re-running with no redirection of stdout/stderr.
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Package yatah

Current CRAN status: ERROR: 1, WARN: 3, OK: 10

Version: 0.1.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     WARNING: installation-time patches will not be applied, could not get the patches index
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 0.1.0
Check: PDF version of manual
Result: WARN
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 0.1.0
Check: PDF version of manual without hyperrefs or index
Result: ERROR
    Re-running with no redirection of stdout/stderr.
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 0.1.0
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘ggtree’
Flavors: r-release-macos-x86_64, r-oldrel-macos-x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘gammaproteobacteria.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
    Quitting from lines 24-27 (gammaproteobacteria.Rmd)
    Error: processing vignette 'gammaproteobacteria.Rmd' failed with diagnostics:
    there is no package called 'ggtree'
    --- failed re-building ‘gammaproteobacteria.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘gammaproteobacteria.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-macos-x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘gammaproteobacteria.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Quitting from lines 24-27 (gammaproteobacteria.Rmd)
    Error: processing vignette 'gammaproteobacteria.Rmd' failed with diagnostics:
    there is no package called 'ggtree'
    --- failed re-building ‘gammaproteobacteria.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘gammaproteobacteria.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-oldrel-macos-x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'gammaproteobacteria.Rmd' using rmarkdown
    ggtree v2.4.2 For help: https://yulab-smu.top/treedata-book/
    
    If you use ggtree in published research, please cite the most appropriate paper(s):
    
    1. Guangchuang Yu. Using ggtree to visualize data on tree-like structures. Current Protocols in Bioinformatics, 2020, 69:e96. doi:10.1002/cpbi.96
    2. Guangchuang Yu, Tommy Tsan-Yuk Lam, Huachen Zhu, Yi Guan. Two methods for mapping and visualizing associated data on phylogeny using ggtree. Molecular Biology and Evolution 2018, 35(12):3041-3043. doi:10.1093/molbev/msy194
    3. Guangchuang Yu, David Smith, Huachen Zhu, Yi Guan, Tommy Tsan-Yuk Lam. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. Methods in Ecology and Evolution 2017, 8(1):28-36. doi:10.1111/2041-210X.12628
    
    
    
    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
    
    Quitting from lines 80-83 (gammaproteobacteria.Rmd)
    Error: processing vignette 'gammaproteobacteria.Rmd' failed with diagnostics:
    argument "caller_env" is missing, with no default
    --- failed re-building 'gammaproteobacteria.Rmd'
    
    SUMMARY: processing the following file failed:
     'gammaproteobacteria.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64