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install WikidataQueryServiceR from own GitHub as no longer available on CRAN
and updated actions version
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.github/workflows/monthly_collection.yml

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@@ -13,7 +13,7 @@ jobs:
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RELDATE: $(date +"%Y%m%d")
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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uses: actions/checkout@v6
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with:
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persist-credentials: false
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token: ${{ secrets.PICOPAT2 }}
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sudo apt-get install -y jq
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- name: Checkout Assets
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uses: actions/checkout@v4
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uses: actions/checkout@v6
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with:
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repository: wikipathways/wikipathways-assets
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path: wikipathways-assets
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- name: Install R packages
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run: |
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sudo apt-get install libcurl4-openssl-dev
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Rscript -e 'install.packages(c("tidyr","dplyr","magrittr","yaml","WikidataQueryServiceR","remotes"))'
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Rscript -e 'install.packages(c("tidyr","dplyr","magrittr","yaml","remotes"))'
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Rscript -e 'remotes::install_github("wikipathways/WikidataQueryServiceR@main")'
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- name: Install rWikiPathways
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run: |
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cd ../../..
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- name: Checkout Jekyll
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uses: actions/checkout@v4
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uses: actions/checkout@v6
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with:
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repository: wikipathways/wikipathways.github.io
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path: wikipathways.github.io

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