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doccstat / fastcpd

FAST Change Point Detection in R
https://fastcpd.xingchi.li/
GNU General Public License v3.0
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r-devel-linux-x86_64-fedora ERROR on CRAN #5

Closed doccstat closed 8 months ago

doccstat commented 10 months ago

Error message:

using R Under development (unstable) (2024-01-12 r85803)
using platform: x86_64-pc-linux-gnu
R was compiled by
    clang version 17.0.6
    flang-new version 17.0.6
running under: Fedora Linux 36 (Workstation Edition)
using session charset: UTF-8
using option ‘--no-stop-on-test-error’
checking for file ‘fastcpd/DESCRIPTION’ ... OK
checking extension type ... Package
this is package ‘fastcpd’ version ‘0.10.1’
package encoding: UTF-8
checking package namespace information ... OK
checking package dependencies ... NOTE
Package suggested but not available for checking: ‘bcp’
checking if this is a source package ... OK
checking if there is a namespace ... OK
checking for executable files ... OK
checking for hidden files and directories ... OK
checking for portable file names ... OK
checking for sufficient/correct file permissions ... OK
checking whether package ‘fastcpd’ can be installed ... [231s/122s] OK
See the [install log](https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/fastcpd-00install.html) for details.
used C++ compiler: ‘clang version 17.0.6’
checking installed package size ... NOTE
  installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc    1.3Mb
    help   1.7Mb
    libs   1.4Mb
checking package directory ... OK
checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
checking top-level files ... OK
checking for left-over files ... OK
checking index information ... OK
checking package subdirectories ... OK
checking R files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... OK
checking whether the package can be loaded with stated dependencies ... OK
checking whether the package can be unloaded cleanly ... OK
checking whether the namespace can be loaded with stated dependencies ... OK
checking whether the namespace can be unloaded cleanly ... OK
checking loading without being on the library search path ... OK
checking use of S3 registration ... OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [20s/23s] OK
checking Rd files ... OK
checking Rd metadata ... OK
checking Rd line widths ... OK
checking Rd cross-references ... OK
checking for missing documentation entries ... OK
checking for code/documentation mismatches ... OK
checking Rd \usage sections ... OK
checking Rd contents ... OK
checking for unstated dependencies in examples ... OK
checking contents of ‘data’ directory ... OK
checking data for non-ASCII characters ... OK
checking LazyData ... OK
checking data for ASCII and uncompressed saves ... OK
checking line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking compilation flags in Makevars ... OK
checking for GNU extensions in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking use of PKG_*FLAGS in Makefiles ... OK
checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
checking pragmas in C/C++ headers and code ... OK
checking compilation flags used ... OK
checking compiled code ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [23s/27s] OK
checking for unstated dependencies in ‘tests’ ... OK
checking tests ... [523s/274s] OK
  Running ‘testthat.R’ [522s/274s]
checking for unstated dependencies in vignettes ... OK
checking package vignettes ... OK
checking re-building of vignette outputs ... [94s/97s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘comparison-packages.Rmd’ using rmarkdown

Quitting from lines 261-262 [univariate-mean-change-bcp] (comparison-packages.Rmd)
Error: processing vignette 'comparison-packages.Rmd' failed with diagnostics:
there is no package called 'bcp'
--- failed re-building ‘comparison-packages.Rmd’

--- re-building ‘comparison-pelt.Rmd’ using rmarkdown
--- finished re-building ‘comparison-pelt.Rmd’

--- re-building ‘examples-advanced.Rmd’ using rmarkdown
--- finished re-building ‘examples-advanced.Rmd’

--- re-building ‘examples-introductory.Rmd’ using rmarkdown
--- finished re-building ‘examples-introductory.Rmd’

SUMMARY: processing the following file failed:
  ‘comparison-packages.Rmd’

Error: Vignette re-building failed.
Execution halted
checking PDF version of manual ... OK
checking HTML version of manual ... OK
checking for non-standard things in the check directory ... OK
checking for detritus in the temp directory ... OK
DONE
Status: 1 ERROR, 2 NOTEs
using R Under development (unstable) (2024-01-12 r85803)
using platform: x86_64-pc-linux-gnu
R was compiled by
    gcc-13 (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
running under: Fedora Linux 36 (Workstation Edition)
using session charset: UTF-8
using option ‘--no-stop-on-test-error’
checking for file ‘fastcpd/DESCRIPTION’ ... OK
checking extension type ... Package
this is package ‘fastcpd’ version ‘0.10.1’
package encoding: UTF-8
checking package namespace information ... OK
checking package dependencies ... NOTE
Package suggested but not available for checking: ‘bcp’
checking if this is a source package ... OK
checking if there is a namespace ... OK
checking for executable files ... OK
checking for hidden files and directories ... OK
checking for portable file names ... OK
checking for sufficient/correct file permissions ... OK
checking whether package ‘fastcpd’ can be installed ... [248s/109s] OK
See the [install log](https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/fastcpd-00install.html) for details.
used C++ compiler: ‘g++-13 (GCC) 13.2.0’
checking package directory ... OK
checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
checking top-level files ... OK
checking for left-over files ... OK
checking index information ... OK
checking package subdirectories ... OK
checking R files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... OK
checking whether the package can be loaded with stated dependencies ... OK
checking whether the package can be unloaded cleanly ... OK
checking whether the namespace can be loaded with stated dependencies ... OK
checking whether the namespace can be unloaded cleanly ... OK
checking loading without being on the library search path ... OK
checking use of S3 registration ... OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [18s/18s] OK
checking Rd files ... OK
checking Rd metadata ... OK
checking Rd line widths ... OK
checking Rd cross-references ... OK
checking for missing documentation entries ... OK
checking for code/documentation mismatches ... OK
checking Rd \usage sections ... OK
checking Rd contents ... OK
checking for unstated dependencies in examples ... OK
checking contents of ‘data’ directory ... OK
checking data for non-ASCII characters ... OK
checking LazyData ... OK
checking data for ASCII and uncompressed saves ... OK
checking line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking compilation flags in Makevars ... OK
checking for GNU extensions in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking use of PKG_*FLAGS in Makefiles ... OK
checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
checking pragmas in C/C++ headers and code ... OK
checking compilation flags used ... OK
checking compiled code ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [18s/18s] OK
checking for unstated dependencies in ‘tests’ ... OK
checking tests ... [371s/191s] OK
  Running ‘testthat.R’ [371s/191s]
checking for unstated dependencies in vignettes ... OK
checking package vignettes ... OK
checking re-building of vignette outputs ... [66s/66s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘comparison-packages.Rmd’ using rmarkdown

Quitting from lines 261-262 [univariate-mean-change-bcp] (comparison-packages.Rmd)
Error: processing vignette 'comparison-packages.Rmd' failed with diagnostics:
there is no package called 'bcp'
--- failed re-building ‘comparison-packages.Rmd’

--- re-building ‘comparison-pelt.Rmd’ using rmarkdown
--- finished re-building ‘comparison-pelt.Rmd’

--- re-building ‘examples-advanced.Rmd’ using rmarkdown
--- finished re-building ‘examples-advanced.Rmd’

--- re-building ‘examples-introductory.Rmd’ using rmarkdown
--- finished re-building ‘examples-introductory.Rmd’

SUMMARY: processing the following file failed:
  ‘comparison-packages.Rmd’

Error: Vignette re-building failed.
Execution halted
checking PDF version of manual ... OK
checking HTML version of manual ... OK
checking for non-standard things in the check directory ... OK
checking for detritus in the temp directory ... OK
DONE
Status: 1 ERROR, 1 NOTE
doccstat commented 10 months ago 
Package ‘bcp’ was removed from the CRAN repository.

Formerly available versions can be obtained from the [archive](https://cran.r-project.org/src/contrib/Archive/bcp).

Archived on 2024-01-12 as email to the maintainer is undeliverable.

A summary of the most recent check results can be obtained from the [check results archive](https://cran-archive.r-project.org/web/checks/2024/2024-01-12_check_results_bcp.html).

Please use the canonical form https://cran.r-project.org/package=bcp to link to this page.

We have three options for now:

  1. Remove the related code in package comparison
  2. Comment out the code
  3. Add interactive() switch.

The third option leaves the bcp in suggests. So I will pursue the second option for now.