Use Newton's method to find the sigma for computing neighbor similari… #103
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| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| name: uwot comparison | |
| jobs: | |
| build: | |
| name: Compare to uwot reference | |
| runs-on: ubuntu-latest | |
| container: bioconductor/bioconductor_docker:devel | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Get latest CMake | |
| uses: lukka/get-cmake@latest | |
| - name: Configure the build | |
| run: cmake -S . -B build -DBUILD_TESTING=OFF | |
| - name: Set the package directory | |
| run: echo "R_PKG_DIR=${R_HOME}/site-library" >> $GITHUB_ENV | |
| - name: Restore the package directory | |
| uses: actions/cache@v4 | |
| with: | |
| path: ${{ env.R_PKG_DIR }} | |
| key: preinstalled-packages | |
| - name: Install packages | |
| shell: Rscript {0} | |
| run: | | |
| BiocManager::install(c("uwot", "BiocNeighbors", "Rcpp", "testthat")) | |
| - name: Install the test package | |
| run: R CMD INSTALL tests/R/package | |
| - name: Run the comparisons | |
| shell: Rscript {0} | |
| run: | | |
| setwd("tests/R/package/tests") | |
| source("testthat.R") | |
| - uses: actions/upload-artifact@v2 | |
| with: | |
| name: demo-file | |
| path: tests/R/package/tests/testthat/demo.png | |