From da95593f0becd7b06e54dfdaad0751c4818c0157 Mon Sep 17 00:00:00 2001 From: Sebastian Funk Date: Tue, 17 Oct 2023 15:21:40 +0100 Subject: [PATCH] update organisation name across repo --- .github/CODEOWNERS | 4 ++-- .github/workflows/ValidationV2.yml | 2 +- .github/workflows/reports-country.yml | 2 +- .github/workflows/reports-model.yml | 2 +- .gitmodules | 2 +- DESCRIPTION | 2 +- README.Rmd | 2 +- README.md | 2 +- code/auto_download/check_revisions.R | 2 +- code/reports/country/country-report.Rmd | 2 +- code/reports/hub/hub-report.Rmd | 2 +- code/reports/models/model-report.Rmd | 2 +- code/reports/rmdchunks/evaluation-footer.Rmd | 4 ++-- code/reports/rmdchunks/ranking.Rmd | 2 +- renv.lock | 4 ++-- schema-data.yml | 2 +- schema-metadata.yml | 2 +- 17 files changed, 20 insertions(+), 20 deletions(-) diff --git a/.github/CODEOWNERS b/.github/CODEOWNERS index c5920f47a2..508e9c0cf7 100644 --- a/.github/CODEOWNERS +++ b/.github/CODEOWNERS @@ -1,3 +1,3 @@ # Catch-all rule -/data-processed/ @covid19-forecast-hub-europe/ecdc -/model-metadata/ @covid19-forecast-hub-europe/ecdc +/data-processed/ @european-modelling-hubs/ecdc +/model-metadata/ @european-modelling-hubs/ecdc diff --git a/.github/workflows/ValidationV2.yml b/.github/workflows/ValidationV2.yml index 260fce37b8..c835f8ffbe 100644 --- a/.github/workflows/ValidationV2.yml +++ b/.github/workflows/ValidationV2.yml @@ -15,7 +15,7 @@ jobs: steps: - uses: actions/checkout@v3 with: - repository: 'epiforecasts/covid19-forecast-hub-europe-validations' + repository: 'european-modelling-hubs/covid19-forecast-hub-europe-validations' - name: Setup Python uses: actions/setup-python@v2 diff --git a/.github/workflows/reports-country.yml b/.github/workflows/reports-country.yml index 16b3502233..32aa960804 100644 --- a/.github/workflows/reports-country.yml +++ b/.github/workflows/reports-country.yml @@ -59,7 +59,7 @@ jobs: env: GITHUB_TOKEN: ${{ secrets.FORECASTHUB_TOKEN }} run: | - gh workflow run build-and-deploy.yml -R covid19-forecast-hub-europe/covid19-forecast-hub-europe-website + gh workflow run build-and-deploy.yml -R european-modelling-hubs/covid19-forecast-hub-europe-website - name: Create issue about failure if: failure() && github.event_name != 'workflow_dispatch' && github.event_name != 'pull_request' diff --git a/.github/workflows/reports-model.yml b/.github/workflows/reports-model.yml index dee8d302b0..24c03ca091 100644 --- a/.github/workflows/reports-model.yml +++ b/.github/workflows/reports-model.yml @@ -59,7 +59,7 @@ jobs: env: GITHUB_TOKEN: ${{ secrets.FORECASTHUB_TOKEN }} run: | - gh workflow run build-and-deploy.yml -R covid19-forecast-hub-europe/covid19-forecast-hub-europe-website + gh workflow run build-and-deploy.yml -R european-modelling-hubs/covid19-forecast-hub-europe-website - name: Create issue about failure if: failure() && github.event_name != 'workflow_dispatch' && github.event_name != 'pull_request' diff --git a/.gitmodules b/.gitmodules index b8812f72bb..ebc2bd275b 100644 --- a/.gitmodules +++ b/.gitmodules @@ -1,4 +1,4 @@ [submodule "validation"] path = validation - url = https://github.com/epiforecasts/covid19-forecast-hub-europe-validations + url = https://github.com/european-modelling-hubs/covid19-forecast-hub-europe-validations ignore = all diff --git a/DESCRIPTION b/DESCRIPTION index 66ebe22e8d..31ab399c13 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -3,4 +3,4 @@ Version: 0.1 Depends: HubValidations Remotes: - covid19-forecast-hub-europe/HubValidations + european-modelling-hubs/HubValidations diff --git a/README.Rmd b/README.Rmd index 44176a261e..06eaf36598 100644 --- a/README.Rmd +++ b/README.Rmd @@ -19,7 +19,7 @@ We are aggregating forecasts of new cases and deaths due to Covid-19 over the ne * View the [current forecasts](https://covid19forecasthub.eu/visualisation) * We publish a weekly [evaluation](https://covid19forecasthub.eu/reports) of current forecasts -* Raw forecast files are in the [data-processed](https://github.com/epiforecasts/covid19-forecast-hub-europe/tree/main/data-processed) folder +* Raw forecast files are in the [data-processed](https://github.com/european-modelling-hubs/covid19-forecast-hub-europe/tree/main/data-processed) folder ##### README contents diff --git a/README.md b/README.md index 51f6dcc0d1..5214da5d69 100644 --- a/README.md +++ b/README.md @@ -14,7 +14,7 @@ over the next four weeks in countries across Europe and the UK. [evaluation](https://covid19forecasthub.eu/reports) of current forecasts - Raw forecast files are in the - [data-processed](https://github.com/epiforecasts/covid19-forecast-hub-europe/tree/main/data-processed) + [data-processed](https://github.com/european-modelling-hubs/covid19-forecast-hub-europe/tree/main/data-processed) folder ##### README contents diff --git a/code/auto_download/check_revisions.R b/code/auto_download/check_revisions.R index bfc25a5571..ca2d653924 100644 --- a/code/auto_download/check_revisions.R +++ b/code/auto_download/check_revisions.R @@ -19,7 +19,7 @@ target_variables <- Deaths = "inc death", Hospitalizations = "inc hosp") -owner <- "covid19-forecast-hub-europe" +owner <- "european-modelling-hubs" repo <- "covid19-forecast-hub-europe" path <- vapply(names(sources), function(x) { paste("data-truth", sources[[x]], diff --git a/code/reports/country/country-report.Rmd b/code/reports/country/country-report.Rmd index f4f89448ca..5ec05ffefa 100644 --- a/code/reports/country/country-report.Rmd +++ b/code/reports/country/country-report.Rmd @@ -6,7 +6,7 @@ params: plot_weeks: 4 report_models: "EuroCOVIDhub-ensemble" data_weeks: 10 - config: "https://raw.githubusercontent.com/epiforecasts/covid19-forecast-hub-europe/main/project-config.json" + config: "https://raw.githubusercontent.com/european-modelling-hubs/covid19-forecast-hub-europe/main/project-config.json" output: html_document: theme: yeti diff --git a/code/reports/hub/hub-report.Rmd b/code/reports/hub/hub-report.Rmd index 5628629fb1..e62a81d804 100644 --- a/code/reports/hub/hub-report.Rmd +++ b/code/reports/hub/hub-report.Rmd @@ -127,7 +127,7 @@ models |> ### Complete model information ```{r table-metadata} -github_repo <- "epiforecasts/covid19-forecast-hub-europe" +github_repo <- "european-modelling-hubs/covid19-forecast-hub-europe" team_df <- gh::gh( "/repos/{github_repo}/contents/{path}", diff --git a/code/reports/models/model-report.Rmd b/code/reports/models/model-report.Rmd index 785d9fdd9b..fbdf2f62c4 100644 --- a/code/reports/models/model-report.Rmd +++ b/code/reports/models/model-report.Rmd @@ -6,7 +6,7 @@ params: data_weeks: "10" model: "EuroCOVIDhub-ensemble" report_models: "EuroCOVIDhub-ensemble" - config: "https://raw.githubusercontent.com/epiforecasts/covid19-forecast-hub-europe/main/project-config.json" + config: "https://raw.githubusercontent.com/european-modelling-hubs/covid19-forecast-hub-europe/main/project-config.json" output: html_document: theme: yeti diff --git a/code/reports/rmdchunks/evaluation-footer.Rmd b/code/reports/rmdchunks/evaluation-footer.Rmd index 08d85795ac..6ab30db5f1 100644 --- a/code/reports/rmdchunks/evaluation-footer.Rmd +++ b/code/reports/rmdchunks/evaluation-footer.Rmd @@ -1,6 +1,6 @@ If you would like to learn more about a model, you can go the the -[`data-processed` folder](https://github.com/epiforecasts/covid19-forecast-hub-europe) of the -[European Forecast Hub GitHub repository](https://github.com/epiforecasts/covid19-forecast-hub-europe), select a model and access the metadata file with further +[`data-processed` folder](https://github.com/european-modelling-hubs/covid19-forecast-hub-europe) of the +[European Forecast Hub GitHub repository](https://github.com/european-modelling-hubs/covid19-forecast-hub-europe), select a model and access the metadata file with further information provided by the model authors. diff --git a/code/reports/rmdchunks/ranking.Rmd b/code/reports/rmdchunks/ranking.Rmd index 0d08adeb0e..613491681e 100644 --- a/code/reports/rmdchunks/ranking.Rmd +++ b/code/reports/rmdchunks/ranking.Rmd @@ -48,7 +48,7 @@ if ("n_loc" %in% colnames(df)) { if ("rel_wis" %in% colnames(df)) { cat("- The [weighted interval score](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008618) (WIS) is a [proper scoring rule](https://en.wikipedia.org/wiki/Scoring_rule#Propriety) (i.e., it cannot be \"cheated\") that is suited to scoring forecasts in an interval format. It generalizes the absolute error (i.e. lower values are better) and has three components: dispersion, underprediction and overprediction. Dispersion is a weighted average of the widths of the submitted prediction intervals. Over- and underprediction (overpred/underpred) penalties are added whenever an observation falls outside of a reported central prediction interval, with the strength of the penalty depending on the nominal level of the interval and how far outside of the interval the observation fell. Note that the average WIS can refer to different sets of targets for different models and therefore _cannot always be compared across models_. Such comparisons should be done based on the relative skill. \n") cat("The Relative WIS (column `rel_wis`) is a relative measure of forecast performance which takes into account that different teams may not cover the exact same set of forecast targets (i.e., weeks and locations). Loosely speaking, a relative WIS of X means that averaged over the targets a given team addressed, its WIS was X times higher/lower than the the performance of the baseline model described in [Cramer et al. (2021)](https://www.medrxiv.org/content/10.1101/2021.02.03.21250974v1). Smaller values are thus better and a value below one means that the model has above average performance. The relative WIS is computed using a 'pairwise comparison tournament' where for each pair of models a mean score ratio is computed based on the set of shared targets. The relative WIS is the geometric mean of these ratios. Details on the computation can be found in [Cramer et al. (2021)](https://www.medrxiv.org/content/10.1101/2021.02.03.21250974v1). \n") - cat("This metric is calculated for all models that provide a [full set](https://github.com/epiforecasts/covid19-forecast-hub-europe/wiki/Forecast-format#quantile) of quantiles.\n") + cat("This metric is calculated for all models that provide a [full set](https://github.com/european-modelling-hubs/covid19-forecast-hub-europe/wiki/Forecast-format#quantile) of quantiles.\n") } if ("rel_ae" %in% colnames(df)) { cat("- The Relative Absolute Error (column `rel_ae`) is the relative absolute error of the predictive point forecasts, that is the predicted value that individual forecasts deem the most likely. The relative AE is computed using a 'pairwise comparison tournament' where for each pair of models a mean score ratio is computed based on the set of shared targets. The relative AE is the geometric mean of these ratios. Details on the computation can be found in [Cramer et al. (2021)](https://www.medrxiv.org/content/10.1101/2021.02.03.21250974v1).\n") diff --git a/renv.lock b/renv.lock index e6335f99ff..82618d9491 100644 --- a/renv.lock +++ b/renv.lock @@ -111,7 +111,7 @@ "Version": "0.0.0.9000", "Source": "GitHub", "RemoteType": "github", - "RemoteUsername": "covid19-forecast-hub-europe", + "RemoteUsername": "european-modelling-hubs", "RemoteRepo": "EuroForecastHub", "RemoteRef": "main", "RemoteSha": "404046706b0799a002969644e6e691b564f92fd1", @@ -140,7 +140,7 @@ "Version": "0.0.0.9000", "Source": "GitHub", "RemoteType": "github", - "RemoteUsername": "covid19-forecast-hub-europe", + "RemoteUsername": "european-modelling-hubs", "RemoteRepo": "HubValidations", "RemoteRef": "main", "RemoteSha": "b8759d465e77797fca9989eb4dfd4c5bf640feac", diff --git a/schema-data.yml b/schema-data.yml index a85ba86a71..d24bdba0a0 100644 --- a/schema-data.yml +++ b/schema-data.yml @@ -2,7 +2,7 @@ $schema: "http://json-schema.org/draft-07/schema" title: ForecastHub model data description: > This is the schema of the forecasts files, please refer to - https://github.com/epiforecasts/covid19-forecast-hub-europe/wiki/Forecast-format + https://github.com/european-modelling-hubs/covid19-forecast-hub-europe/wiki/Forecast-format for more info. type: object properties: diff --git a/schema-metadata.yml b/schema-metadata.yml index 8630f54b5e..3b8ba6f101 100644 --- a/schema-metadata.yml +++ b/schema-metadata.yml @@ -2,7 +2,7 @@ $schema: "http://json-schema.org/draft-07/schema" title: ForecastHub model metadata description: > This is the schema of the metadata file, please refer to - https://github.com/epiforecasts/covid19-forecast-hub-europe/wiki/Metadata for + https://github.com/european-modelling-hubs/covid19-forecast-hub-europe/wiki/Metadata for more info. type: object properties: