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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,80 @@ | ||
| # adapted from a similar check run by {arrow} | ||
| # Licensed to the Apache Software Foundation (ASF) under one | ||
| # or more contributor license agreements. See the NOTICE file | ||
| # distributed with this work for additional information | ||
| # regarding copyright ownership. The ASF licenses this file | ||
| # to you under the Apache License, Version 2.0 (the | ||
| # "License"); you may not use this file except in compliance | ||
| # with the License. You may obtain a copy of the License at | ||
| # | ||
| # http://www.apache.org/licenses/LICENSE-2.0 | ||
| # | ||
| # Unless required by applicable law or agreed to in writing, | ||
| # software distributed under the License is distributed on an | ||
| # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY | ||
| # KIND, either express or implied. See the License for the | ||
| # specific language governing permissions and limitations | ||
| # under the License. | ||
| name: rchk | ||
|
|
||
| on: | ||
| workflow_run: | ||
| workflows: ['R'] | ||
| types: | ||
| - completed | ||
| branches-ignore: [gh-pages] | ||
| paths: | ||
| - ".github/workflows/rchk.yml" | ||
| - "r/**" | ||
| - 'c/Make*' | ||
| - 'c/*.mk' | ||
| - 'c/**/*.[ch]p?p?' | ||
|
|
||
| env: | ||
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | ||
| _R_CHECK_FORCE_SUGGESTS_: false | ||
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | ||
|
|
||
| concurrency: | ||
| group: ${{ github.workflow }}-${{ github.ref }} | ||
| cancel-in-progress: true | ||
|
|
||
| jobs: | ||
| rchk: | ||
| if: ${{ github.event.workflow_run.conclusion == 'success' }} | ||
| runs-on: ubuntu-latest | ||
| name: Run rchk | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| - uses: r-lib/actions/setup-r@v2 | ||
| with: | ||
| r-version: 'devel' | ||
|
|
||
| - name: Install minimal dependencies | ||
| run: | | ||
| install.packages(c("Rdpack","matrixStats")) | ||
| shell: Rscript {0} | ||
| working-directory: r | ||
|
|
||
| - name: Build | ||
| run: | | ||
| R CMD build --no-build-vignettes r | ||
| mkdir packages | ||
| mv moocore_*.tar.gz packages | ||
| - name: Run rchk | ||
| run: | | ||
| docker run -v `pwd`/packages:/rchk/packages kalibera/rchk:latest /rchk/packages/moocore_*.tar.gz |& tee rchk.out | ||
| - name: Confirm that rchk has no errors | ||
| # Suspicious call, [UP], and [PB] are all of the error types currently at | ||
| # https://github.com/kalibera/cran-checks/tree/HEAD/rchk/results | ||
| # though this might not be exhaustive, there does not appear to be a way to have rchk return an error code | ||
| # CRAN also will remove some of the outputs (especially those related to Rcpp and strptime, e.g. | ||
| # ERROR: too many states (abstraction error?)) | ||
| # https://github.com/kalibera/rchk | ||
| run: | | ||
| if [ $(grep -Fc "Suspicious call" rchk.out) -gt 0 ] || [ $(grep -F "[UP]" rchk.out | grep -Fvc "results will be incomplete") -gt 0 ] || [ $(grep -Fc "[PB]" rchk.out) -gt 0 ]; then | ||
| echo "Found rchk errors" | ||
| exit 1 | ||
| fi | ||
| if: always() |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,19 +1,19 @@ | ||
| /* .Call calls */ | ||
| DECLARE_CALL(SEXP, compute_eaf_C, SEXP DATA, SEXP CUMSIZES, SEXP PERCENTILE) | ||
| DECLARE_CALL(SEXP, compute_eafdiff_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(SEXP, compute_eafdiff_polygon_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(SEXP, compute_eafdiff_rectangles_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(SEXP, R_read_datasets, SEXP FILENAME) | ||
| DECLARE_CALL(SEXP, hypervolume_C, SEXP DATA, SEXP REFERENCE) | ||
| DECLARE_CALL(SEXP, hv_contributions_C, SEXP DATA, SEXP REFERENCE) | ||
| DECLARE_CALL(void, normalise_C, SEXP DATA, SEXP RANGE, SEXP LBOUND, SEXP UBOUND, SEXP MAXIMISE) | ||
| DECLARE_CALL(SEXP, is_nondominated_C, SEXP DATA, SEXP MAXIMISE, SEXP KEEP_WEAKLY) | ||
| DECLARE_CALL(SEXP, pareto_ranking_C, SEXP DATA) | ||
| DECLARE_CALL(SEXP, epsilon_mul_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(SEXP, epsilon_add_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(SEXP, igd_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(SEXP, igd_plus_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(SEXP, avg_hausdorff_dist_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE, SEXP P) | ||
| DECLARE_CALL(SEXP, rect_weighted_hv2d_C, SEXP DATA, SEXP RECTANGLES) | ||
| DECLARE_CALL(SEXP, whv_hype_C, SEXP DATA, SEXP IDEAL, SEXP REFERENCE, SEXP NSAMPLES, SEXP DIST, SEXP SEED, SEXP MU) | ||
| DECLARE_CALL(SEXP, preprocess_rectangles_C, SEXP RECTANGLES, SEXP REFERENCE) | ||
| DECLARE_CALL(compute_eaf_C, SEXP DATA, SEXP CUMSIZES, SEXP PERCENTILE) | ||
| DECLARE_CALL(compute_eafdiff_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(compute_eafdiff_polygon_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(compute_eafdiff_rectangles_C, SEXP DATA, SEXP CUMSIZES, SEXP INTERVALS) | ||
| DECLARE_CALL(R_read_datasets, SEXP FILENAME) | ||
| DECLARE_CALL(hypervolume_C, SEXP DATA, SEXP REFERENCE) | ||
| DECLARE_CALL(hv_contributions_C, SEXP DATA, SEXP REFERENCE) | ||
| DECLARE_CALL(normalise_C, SEXP DATA, SEXP RANGE, SEXP LBOUND, SEXP UBOUND, SEXP MAXIMISE) | ||
| DECLARE_CALL(is_nondominated_C, SEXP DATA, SEXP MAXIMISE, SEXP KEEP_WEAKLY) | ||
| DECLARE_CALL(pareto_ranking_C, SEXP DATA) | ||
| DECLARE_CALL(epsilon_mul_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(epsilon_add_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(igd_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(igd_plus_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE) | ||
| DECLARE_CALL(avg_hausdorff_dist_C, SEXP DATA, SEXP REFERENCE, SEXP MAXIMISE, SEXP P) | ||
| DECLARE_CALL(rect_weighted_hv2d_C, SEXP DATA, SEXP RECTANGLES) | ||
| DECLARE_CALL(whv_hype_C, SEXP DATA, SEXP IDEAL, SEXP REFERENCE, SEXP NSAMPLES, SEXP DIST, SEXP SEED, SEXP MU) | ||
| DECLARE_CALL(preprocess_rectangles_C, SEXP RECTANGLES, SEXP REFERENCE) |