############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data pareg ### ############################################################################## ############################################################################## * checking for file ‘pareg/DESCRIPTION’ ... OK * preparing ‘pareg’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘pareg.Rmd’ using rmarkdown Loading required package: ggplot2 ── Attaching packages ─────────────────────────────────────── tidyverse 1.3.1 ── ✔ tibble 3.1.7 ✔ dplyr 1.0.9 ✔ tidyr 1.2.0 ✔ stringr 1.4.0 ✔ readr 2.1.2 ✔ forcats 0.5.1 ✔ purrr 0.3.4 ── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ── ✖ dplyr::filter() masks stats::filter() ✖ dplyr::lag() masks stats::lag() Loading required package: grid ======================================== ComplexHeatmap version 2.13.0 Bioconductor page: http://bioconductor.org/packages/ComplexHeatmap/ Github page: https://github.com/jokergoo/ComplexHeatmap Documentation: http://jokergoo.github.io/ComplexHeatmap-reference If you use it in published research, please cite: Gu, Z. Complex heatmaps reveal patterns and correlations in multidimensional genomic data. Bioinformatics 2016. The new InteractiveComplexHeatmap package can directly export static complex heatmaps into an interactive Shiny app with zero effort. Have a try! This message can be suppressed by: suppressPackageStartupMessages(library(ComplexHeatmap)) ======================================== Loading required package: tensorflow Loading required package: tfprobability Attaching package: 'pareg' The following objects are masked from 'package:stats': family, gaussian The following object is masked from 'package:base': beta Quitting from lines 145-150 (pareg.Rmd) Error: processing vignette 'pareg.Rmd' failed with diagnostics: Valid installation of TensorFlow not found. Python environments searched for 'tensorflow' package: /opt/homebrew/Cellar/python@3.9/3.9.13_1/Frameworks/Python.framework/Versions/3.9/bin/python3.9 /usr/bin/python3 Python exception encountered: Traceback (most recent call last): File "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/reticulate/python/rpytools/loader.py", line 39, in _import_hook module = _import( ModuleNotFoundError: No module named 'tensorflow' You can install TensorFlow using the install_tensorflow() function. --- failed re-building ‘pareg.Rmd’ --- re-building ‘pathway_similarities.Rmd’ using rmarkdown ======================================== circlize version 0.4.15 CRAN page: https://cran.r-project.org/package=circlize Github page: https://github.com/jokergoo/circlize Documentation: https://jokergoo.github.io/circlize_book/book/ If you use it in published research, please cite: Gu, Z. circlize implements and enhances circular visualization in R. Bioinformatics 2014. This message can be suppressed by: suppressPackageStartupMessages(library(circlize)) ======================================== Registered S3 method overwritten by 'GGally': method from +.gg ggplot2 Attaching package: 'GGally' The following object is masked from 'package:enrichplot': ggtable --- finished re-building ‘pathway_similarities.Rmd’ SUMMARY: processing the following file failed: ‘pareg.Rmd’ Error: Vignette re-building failed. Execution halted