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Merge pull request #47 from BioJulia/release/v2.0.5
Release/v2.0.5
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| Original file line number | Diff line number | Diff line change |
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@@ -7,20 +7,21 @@ on: | |
| jobs: | ||
| Benchmark: | ||
| runs-on: ubuntu-latest | ||
| env: | ||
| JULIA_DEBUG: BenchmarkCI | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: julia-actions/setup-julia@latest | ||
| - uses: julia-actions/setup-julia@v1 | ||
| with: | ||
| version: 1 | ||
| - uses: julia-actions/julia-buildpkg@v1 | ||
| - name: Install Dependencies | ||
| run: julia -e 'using Pkg; pkg"add PkgBenchmark [email protected]"' | ||
| - name: Run Benchmarks | ||
| run: julia -e "using BenchmarkCI; BenchmarkCI.judge()" | ||
| - name: Post Results | ||
| if: ${{ github.event_name == 'pull_request'}} | ||
| run: julia -e "using BenchmarkCI; BenchmarkCI.postjudge()" | ||
| env: | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| - name: Print Judgement | ||
| run: julia -e 'using BenchmarkCI; BenchmarkCI.displayjudgement()' | ||
| env: | ||
|
|
||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,17 +1,32 @@ | ||
| name: CompatHelper | ||
|
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| on: | ||
| schedule: | ||
| - cron: '00 00 * * *' | ||
|
|
||
| - cron: 0 0 * * * | ||
| workflow_dispatch: | ||
| jobs: | ||
| CompatHelper: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - name: Add CompatHelper | ||
| run: julia --color=yes -e 'using Pkg; Pkg.add("CompatHelper")' | ||
| - name: Run CompatHelper | ||
| - name: "Add the General registry via Git" | ||
| run: | | ||
| import Pkg | ||
| ENV["JULIA_PKG_SERVER"] = "" | ||
| Pkg.Registry.add("General") | ||
| shell: julia --color=yes {0} | ||
| - name: "Install CompatHelper" | ||
| run: | | ||
| import Pkg | ||
| name = "CompatHelper" | ||
| uuid = "aa819f21-2bde-4658-8897-bab36330d9b7" | ||
| version = "3" | ||
| Pkg.add(; name, uuid, version) | ||
| shell: julia --color=yes {0} | ||
| - name: "Run CompatHelper" | ||
| run: | | ||
| import CompatHelper | ||
| CompatHelper.main(master_branch = "master") | ||
| shell: julia --color=yes {0} | ||
| env: | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| COMPATHELPER_PRIV: ${{ secrets.COMPATHELPER_PRIV }} | ||
| run: julia --color=yes -e 'using CompatHelper; CompatHelper.main(master_branch = "master")' | ||
| COMPATHELPER_PRIV: ${{ secrets.DOCUMENTER_KEY }} | ||
| # COMPATHELPER_PRIV: ${{ secrets.COMPATHELPER_PRIV }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,26 +1,21 @@ | ||
| name: Build Documentation | ||
|
|
||
| name: Documentation | ||
| on: | ||
| push: | ||
| branches: | ||
| - master | ||
| - develop | ||
| - release/.* | ||
| - release/* | ||
| tags: '*' | ||
| pull_request: | ||
|
|
||
| jobs: | ||
| build: | ||
| Documenter: | ||
| name: Documentation | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: julia-actions/setup-julia@v1 | ||
| with: | ||
| version: '1' | ||
| - name: Install Dependencies | ||
| run: julia --color=yes --project=docs/ -e 'using Pkg; Pkg.develop(PackageSpec(path=pwd())); Pkg.instantiate()' | ||
| - name: Build and Deploy | ||
| - uses: julia-actions/julia-buildpkg@v1 | ||
| - uses: julia-actions/julia-docdeploy@v1 | ||
| env: | ||
| # GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # For authentication with GitHub Actions token | ||
| DOCUMENTER_KEY: ${{ secrets.DOCUMENTER_KEY }} # For authentication with SSH deploy key | ||
| run: julia --color=yes --project=docs/ docs/make.jl | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| DOCUMENTER_KEY: ${{ secrets.DOCUMENTER_KEY }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,55 @@ | ||
| name: Downstream | ||
| on: | ||
| push: | ||
| branches: [master, develop] | ||
| tags: [v*] | ||
| pull_request: | ||
|
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||
| jobs: | ||
| test: | ||
| name: ${{ matrix.package.repo }}/${{ matrix.package.group }} | ||
| runs-on: ${{ matrix.os }} | ||
| env: | ||
| GROUP: ${{ matrix.package.group }} | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| julia-version: [1] | ||
| os: [ubuntu-latest] | ||
| package: | ||
| - {user: BioJulia, repo: BED.jl, group: GenomicFeatures} | ||
| - {user: BioJulia, repo: BigBed.jl, group: GenomicFeatures} | ||
| - {user: BioJulia, repo: BigWig.jl, group: GenomicFeatures} | ||
| - {user: BioJulia, repo: GFF3.jl, group: GenomicFeatures} | ||
| - {user: BioJulia, repo: Indexes.jl, group: GenomicFeatures} | ||
| - {user: BioJulia, repo: XAM.jl, group: GenomicFeatures} | ||
| - {user: phaverty, repo: GenomicVectors.jl, group: GenomicFeatures} | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: julia-actions/setup-julia@v1 | ||
| with: | ||
| version: ${{ matrix.julia-version }} | ||
| arch: x64 | ||
| - uses: julia-actions/julia-buildpkg@latest | ||
| - name: Clone Downstream | ||
| uses: actions/checkout@v2 | ||
| with: | ||
| repository: ${{ matrix.package.user }}/${{ matrix.package.repo }} | ||
| path: downstream | ||
| - name: Load this and run the downstream tests | ||
| shell: julia --color=yes --project=downstream {0} | ||
| run: | | ||
| using Pkg | ||
| try | ||
| # force it to use this PR's version of the package | ||
| Pkg.develop(PackageSpec(path=".")) # resolver may fail with main deps | ||
| Pkg.update() | ||
| Pkg.test() # resolver may fail with test time deps | ||
| catch err | ||
| err isa Pkg.Resolve.ResolverError || rethrow() | ||
| # If we can't resolve that means this is incompatible by SemVer and this is fine. | ||
| # It means we marked this as a breaking change, so we don't need to worry about. | ||
| # Mistakenly introducing a breaking change, as we have intentionally made one. | ||
| @info "Not compatible with this release. No problem." exception=err | ||
| exit(0) # Exit immediately, as a success | ||
| end |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,12 +1,17 @@ | ||
| name: TagBot | ||
|
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| on: | ||
| schedule: | ||
| - cron: 0 0 * * * | ||
| issue_comment: | ||
| types: | ||
| - created | ||
| workflow_dispatch: | ||
|
|
||
| jobs: | ||
| TagBot: | ||
| if: github.event_name == 'workflow_dispatch' || github.actor == 'JuliaTagBot' | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: JuliaRegistries/TagBot@v1 | ||
| with: | ||
| token: ${{ secrets.GITHUB_TOKEN }} | ||
| ssh: ${{ secrets.TAGBOT_KEY }} | ||
| ssh: ${{ secrets.DOCUMENTER_KEY }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,7 +1,7 @@ | ||
| name = "GenomicFeatures" | ||
| uuid = "899a7d2d-5c61-547b-bef9-6698a8d05446" | ||
| authors = ["Kenta Sato <[email protected]>", "Ben J. Ward <[email protected]>", "Ciarán O’Mara <[email protected]>"] | ||
| version = "2.0.4" | ||
| version = "2.0.5" | ||
|
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| [deps] | ||
| BioGenerics = "47718e42-2ac5-11e9-14af-e5595289c2ea" | ||
|
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@@ -16,8 +16,9 @@ julia = "1" | |
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| [extras] | ||
| Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f" | ||
| Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4" | ||
| Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" | ||
| Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40" | ||
|
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| [targets] | ||
| test = ["Random", "Test", "Distributions"] | ||
| test = ["Distributions", "Documenter", "Random", "Test"] | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,5 +1,6 @@ | ||
| [deps] | ||
| Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4" | ||
| GenomicFeatures = "899a7d2d-5c61-547b-bef9-6698a8d05446" | ||
|
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| [compat] | ||
| Documenter = "0.24" | ||
| Documenter = "0.27" |
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@JuliaRegistrator register
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Registration pull request created: JuliaRegistries/General/49456
After the above pull request is merged, it is recommended that a tag is created on this repository for the registered package version.
This will be done automatically if the Julia TagBot GitHub Action is installed, or can be done manually through the github interface, or via: