cytomining / matric Goto Github PK
View Code? Open in Web Editor NEWCalculate quality metrics for readouts from high-throughput profiling experiments
Home Page: https://cytomining.github.io/matric/
License: Other
Calculate quality metrics for readouts from high-throughput profiling experiments
Home Page: https://cytomining.github.io/matric/
License: Other
Hello and congrats to the CRAN release.
I'm tracking reverse dependencies of the 'future' package and looking in how it's being used. While doing this I noticed that 'matric' imports from 'foreach', but from a code search it looks like its not used. Is that a leftover from the past?
e.g. a compound can have multiple targets
allow reporting metrics per target class
Something broke when going from knitr 1.33 -> 1.34
Logs:
Look out for updates in yihui/knitr#1864 and figure out what to do
I already have markdown
and rmarkdown
in Suggests
https://github.com/shntnu/matric/blob/16b8ad51e9dbd6d600ffd4e62bc839a74c3511cc/DESCRIPTION#L36-L37
so I'm not sure what to do here.
First release:
usethis::use_cran_comments()
Title:
and Description:
@return
and @examples
Authors@R:
includes a copyright holder (role 'cph')Prepare for release:
git pull
devtools::build_readme()
urlchecker::url_check()
devtools::check(remote = TRUE, manual = TRUE)
devtools::check_win_devel()
rhub::check_for_cran()
--> Skipped because they took forever (will try later)git push
Submit to CRAN:
usethis::use_version('minor')
devtools::submit_cran()
Wait for CRAN...
git push
usethis::use_github_release()
usethis::use_dev_version()
usethis::use_news_md()
git push
---> Configuring R-matric
Executing: cd "/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-matric/R-matric/work/matric-0.2.0" && /opt/local/bin/R CMD build . --no-manual --no-build-vignettes
# Bootstrapping renv 0.16.0 --------------------------------------------------
* Downloading renv 0.16.0 ... OK
* Installing renv 0.16.0 ... Done!
* Successfully installed and loaded renv 0.16.0.
ℹ Using R 4.3.1 (lockfile was generated with R 4.1.2)
* checking for file ‘./DESCRIPTION’ ... OK
* preparing ‘matric’:
* checking DESCRIPTION meta-information ... OK
* checking for LF line-endings in source and make files and shell scripts
* checking for empty or unneeded directories
* building ‘matric_0.2.0.tar.gz’
---> Building R-matric
---> Testing R-matric
ℹ Using R 4.3.1 (lockfile was generated with R 4.1.2)
* using log directory ‘/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-matric/R-matric/work/matric-0.2.0/matric.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: powerpc-apple-darwin10.0.0d2 (32-bit)
* R was compiled by
gcc-mp-12 (MacPorts gcc12 12.3.0_0) 12.3.0
GNU Fortran (MacPorts gcc12 12.3.0_0) 12.3.0
* running under: OS X Snow Leopard 10.6
* using session charset: UTF-8
* checking for file ‘matric/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘matric’ version ‘0.2.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Packages required but not available:
'arrow', 'dplyr', 'magrittr', 'tibble', 'tidyr', 'readr', 'jsonlite',
'glue', 'purrr', 'ggplot2', 'stringr', 'rlang', 'yardstick',
'foreach', 'logger', 'furrr', 'future'
Packages suggested but not available:
'testthat', 'covr', 'knitr', 'markdown', 'rmarkdown', 'roxygen2'
VignetteBuilder package required for checking but not installed: ‘knitr’
The suggested packages are required for a complete check.
Checking can be attempted without them by setting the environment
variable _R_CHECK_FORCE_SUGGESTS_ to a false value.
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
* DONE
Status: 1 ERROR
See
‘/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-matric/R-matric/work/matric-0.2.0/matric.Rcheck/00check.log’
for details.
Command failed: /opt/local/bin/R CMD check ./matric_0.2.0.tar.gz
Exit code: 1
In reality all these packages are installed, in latest versions, and their dependencies work fine. That is, only matric
do not find them.
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