From c9392883837f10b3cc383b7e676ce05049b319ff Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 10:13:40 -0700 Subject: [PATCH 01/52] Fixed .gitignore --- .gitignore | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/.gitignore b/.gitignore index 9045477..8241d4c 100644 --- a/.gitignore +++ b/.gitignore @@ -209,3 +209,7 @@ __marimo__/ # Streamlit .streamlit/secrets.toml + +json_pages/ +notebooks/ +test_json_pages/ \ No newline at end of file From e102ef8404cc9cf85599bc13acdc3ac5ecb5aa78 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 10:33:35 -0700 Subject: [PATCH 02/52] Made new release-workflow branch off of master --- .github/workflows/release.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 6def586..62bfe1f 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -62,4 +62,4 @@ jobs: uses: ad-m/github-push-action@master with: github_token: ${{ secrets.GITHUB_TOKEN }} -# integrate mkdocs at some point +# integrate mkdocs at some point and testpypi From 11b451273940ac56fec1d2c08bd22c5134a8a73c Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 12:21:04 -0700 Subject: [PATCH 03/52] First test of release workflow --- .github/workflows/release.yml | 19 +++++++++++++++---- pyproject.toml | 2 +- uv.lock | 2 +- 3 files changed, 17 insertions(+), 6 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 62bfe1f..032155f 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -1,6 +1,8 @@ name: release on: + push: + branches: [release-workflow] release: types: [published] @@ -20,12 +22,21 @@ jobs: uses: astral-sh/setup-uv@v6 with: python-version: 3.12 + enable-cache: true + cache-dependency-glob: "uv.lock" - - name: Build - run: uv-build + - name: Install build dependencies + run: uv sync --all-extras - - name: Publish - run: uv-publish --trusted-publishing always + # should I uv version --bump patch here? + + - name: Build the project + run: uv build + + - name: Publish to TestPyPI + env: + TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} + run: # uv publish --index "testpypi" --token docs: runs-on: ubuntu-latest diff --git a/pyproject.toml b/pyproject.toml index c1090ff..46319de 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.1" +version = "0.0.3" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index 060ed6f..98a4b2c 100644 --- a/uv.lock +++ b/uv.lock @@ -157,7 +157,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.1" +version = "0.0.3" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From a6bb412bbe7b7c6e8986c0d206f12f33c67436f7 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 12:25:37 -0700 Subject: [PATCH 04/52] added temporary placeholder for publish --- .github/workflows/release.yml | 13 ++++++++++++- 1 file changed, 12 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 032155f..d6e8435 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -36,7 +36,9 @@ jobs: - name: Publish to TestPyPI env: TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} - run: # uv publish --index "testpypi" --token + run: | + echo Temporary Placeholder For Publish + # uv publish --index "testpypi" --token docs: runs-on: ubuntu-latest @@ -73,4 +75,13 @@ jobs: uses: ad-m/github-push-action@master with: github_token: ${{ secrets.GITHUB_TOKEN }} + + - name: Build + run: mkdocs build + + - name: Deploy + uses: peaceiris/actions-gh-pages@v4.0.0 + with: + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: ./site # integrate mkdocs at some point and testpypi From 1c05fd9b014ec873039f04f6103e2d5e96f32395 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 12:36:01 -0700 Subject: [PATCH 05/52] Fixed branch in pull from main to current branch name --- .github/workflows/release.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index d6e8435..5cd240c 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -37,7 +37,7 @@ jobs: env: TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} run: | - echo Temporary Placeholder For Publish + echo Temporary Placeholder For Publish. 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Added error error detection of nothing to commit, for development I guess --- .github/workflows/release.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 879a300..1a6331c 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -69,8 +69,8 @@ jobs: git stash git pull origin ${GITHUB_REF##*/} mv CHANGELOG.md docs/ - git add docs/CHANGELOG.md && git commit -m 'Updated CHANGELOG.md' - + git add docs/CHANGELOG.md && git diff-index --quiet HEAD || git commit -m 'Updated CHANGELOG.md' + - name: Push changes uses: ad-m/github-push-action@master with: From 705627994ec4631468beed7cd09897e5868f0b64 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:37:17 -0700 Subject: [PATCH 10/52] Trying to get mkdocs to build --- .github/workflows/release.yml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 1a6331c..f9438fd 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -54,7 +54,9 @@ jobs: python-version: 3.12 - name: Install deps - run: uv sync --locked --all-extras --dev + run: | + uv pip list + uv sync --locked --all-extras --dev - name: Generate changelog uses: charmixer/auto-changelog-action@v1 From b5a3e69a39356cb5ac6bca9be987fd0c34589606 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:42:58 -0700 Subject: [PATCH 11/52] Trying uvx to run mkdocs build, swapped order of syc and pip list --- .github/workflows/release.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index f9438fd..c6ae38b 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -55,8 +55,8 @@ jobs: - name: Install deps run: | - uv pip list uv sync --locked --all-extras --dev + uv pip list - name: Generate changelog uses: charmixer/auto-changelog-action@v1 @@ -80,7 +80,7 @@ jobs: branch: ${{ github.ref }} - name: Build - run: mkdocs build + run: uvx mkdocs build - name: Deploy uses: peaceiris/actions-gh-pages@v4.0.0 From 44958754a7751f2b3dd4ee0d9a5d6c5c33d04be1 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:54:56 -0700 Subject: [PATCH 12/52] Switching to uvx mkdocs gh-deploy --- .github/workflows/release.yml | 18 +++++++++--------- 1 file changed, 9 insertions(+), 9 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index c6ae38b..7c3e3b7 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -79,12 +79,12 @@ jobs: github_token: ${{ secrets.GITHUB_TOKEN }} branch: ${{ github.ref }} - - name: Build - run: uvx mkdocs build - - - name: Deploy - uses: peaceiris/actions-gh-pages@v4.0.0 - with: - github_token: ${{ secrets.GITHUB_TOKEN }} - publish_dir: ./site -# integrate mkdocs at some point and testpypi + - name: Build and Deploy! + run: uvx mkdocs gh-deploy + +# - name: Deploy +# uses: peaceiris/actions-gh-pages@v4.0.0 +# with: +# github_token: ${{ secrets.GITHUB_TOKEN }} +# publish_dir: ./site +# # integrate mkdocs at some point and testpypi From fe1a18884da6f520f4140c86266af7baea83e136 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:00:15 -0700 Subject: [PATCH 13/52] Trying to resolve local branch being behind with a git pull first --- .github/workflows/release.yml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 7c3e3b7..158ce42 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -80,7 +80,9 @@ jobs: branch: ${{ github.ref }} - name: Build and Deploy! - run: uvx mkdocs gh-deploy + run: | + git checkout gh-pages && git pull + uvx mkdocs gh-deploy # - name: Deploy # uses: peaceiris/actions-gh-pages@v4.0.0 From 2ee97be629ee273eeb2c925ff89d768a606fc5da Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:09:31 -0700 Subject: [PATCH 14/52] Attempting to fetch gh-pages first to pull any changes first before deployment --- .github/workflows/release.yml | 1 + 1 file changed, 1 insertion(+) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 158ce42..7872a43 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -81,6 +81,7 @@ jobs: - name: Build and Deploy! run: | + git fetch origin gh-pages git checkout gh-pages && git pull uvx mkdocs gh-deploy From a26bc490bdaeaa4e271863e91643e0b27767fce8 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:12:10 -0700 Subject: [PATCH 15/52] Return to workflow branch before calling mkdocs gh-deploy --- .github/workflows/release.yml | 1 + 1 file changed, 1 insertion(+) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 7872a43..af11971 100644 --- a/.github/workflows/release.yml +++ 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TAt}$i00000NkvXXu0mjfREQB? literal 0 HcmV?d00001 From 0b5cefcb8fac459137d7ca762934287a92b17825 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:49:14 -0700 Subject: [PATCH 17/52] Attempting first automated push to testpypi, bumped to mpcite 0.0.4 and replaced placeholder echo --- .github/workflows/release.yml | 4 ++-- pyproject.toml | 2 +- uv.lock | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index af11971..4eed1ad 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -10,8 +10,8 @@ jobs: publish: runs-on: ubuntu-latest environment: - name: pypi - url: https://pypi.org/p/mp-cite + name: testpypi + url: https://test.pypi.org/project/mp-cite/ permissions: id-token: write diff --git a/pyproject.toml b/pyproject.toml index 3ee8a6e..e8931e9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.3" +version = "0.0.4" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index c977b5a..1d91b32 100644 --- a/uv.lock +++ b/uv.lock @@ -297,7 +297,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.3" +version = "0.0.4" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From 3a8137b174fdf6ea0a5febd45fac9372aa6a41d3 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:51:04 -0700 Subject: [PATCH 18/52] Maybe uv publish was commented out accidentally --- .github/workflows/release.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 4eed1ad..cd44b64 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -37,8 +37,8 @@ jobs: env: TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} run: | - echo Temporary Placeholder For Publish. Branch: ${GITHUB_REF##*/} - # uv publish --index "testpypi" --token + uv publish --index "testpypi" --token + # echo Temporary Placeholder For Publish. Branch: ${GITHUB_REF##*/} docs: runs-on: ubuntu-latest From c49961959f60c4846a898b505653b8ea14886884 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:53:15 -0700 Subject: [PATCH 19/52] Forgot to supply testpypi api token --- .github/workflows/release.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index cd44b64..33b1843 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -37,7 +37,7 @@ jobs: env: TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} run: | - uv publish --index "testpypi" --token + uv publish --index "testpypi" --token $TESTPYPI_TOKEN_SCOPED_MPCITE # echo Temporary Placeholder For Publish. Branch: ${GITHUB_REF##*/} docs: From 5a1e2f3de096844ad6234cd6d3111547c543813d Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 15:55:00 -0700 Subject: [PATCH 20/52] Added Brief readme.md --- README.md | 8 ++++++++ 1 file changed, 8 insertions(+) diff --git a/README.md b/README.md index e69de29..ce274fc 100644 --- a/README.md +++ b/README.md @@ -0,0 +1,8 @@ +# MPCite + +MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. + +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. + +- πŸ“„ **Documentation:** HugoOnghai.github.io/MPCite/ +- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From a8d9aedec8b82082186354e3768b4e407c1c8a45 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 16:00:32 -0700 Subject: [PATCH 21/52] Fixed URL on Readme --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index ce274fc..3ec647a 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,5 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. -- πŸ“„ **Documentation:** HugoOnghai.github.io/MPCite/ +- πŸ“„ **Documentation:** https://hugoonghai.github.io/MPCite/ - πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From d887e6a6061ee9a4e931c630d4872b16bd47614c Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 16:01:31 -0700 Subject: [PATCH 22/52] Removing release on branch for now --- .github/workflows/release.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 33b1843..eff3755 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -1,8 +1,8 @@ name: release on: - push: - branches: [release-workflow] + # push: + # branches: [release-workflow] release: types: [published] From a1a320c171267992bc9f8cddfb4ed012989b77b7 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 09:57:45 -0700 Subject: [PATCH 23/52] Changed about.md --- README.md | 2 +- docs/about.md | 8 ++++++++ docs/index.md | 55 ++++++++++++++++++++++++++++++++++++++++++++------- mkdocs.yml | 4 ++++ 4 files changed, 61 insertions(+), 8 deletions(-) diff --git a/README.md b/README.md index 3ec647a..c01d92c 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,5 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. -- πŸ“„ **Documentation:** https://hugoonghai.github.io/MPCite/ +- πŸ“„ **Documentation:** https://github.com/materialsproject/MPCite - πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file diff --git a/docs/about.md b/docs/about.md index e69de29..414711b 100644 --- a/docs/about.md +++ b/docs/about.md @@ -0,0 +1,8 @@ +# About + +MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. + +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. + +- πŸ“„ **Source Code:** https://github.com/materialsproject/MPCite +- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file diff --git a/docs/index.md b/docs/index.md index 94f4695..6244e5b 100644 --- a/docs/index.md +++ b/docs/index.md @@ -1,6 +1,6 @@ -# Welcome to MPCite +# Home -For full documentation visit [mkdocs.org](https://www.mkdocs.org). +For the source code visit the [GitHub Repository](https://github.com/materialsproject/MPCite). ## Commands @@ -10,8 +10,49 @@ For full documentation visit [mkdocs.org](https://www.mkdocs.org). * `mkdocs -h` - Print help message and exit. ## Project layout - - mkdocs.yml # The configuration file. - docs/ - index.md # The documentation homepage. - ... # Other markdown pages, images and other files. +``` + C:. + β”œβ”€β”€β”€.github + β”‚ └───workflows + β”œβ”€β”€β”€.ipynb_checkpoints + β”œβ”€β”€β”€.pytest_cache + β”‚ └───v + β”‚ └───cache + β”œβ”€β”€β”€.ruff_cache + β”‚ β”œβ”€β”€β”€0.12.4 + β”‚ └───0.12.7 + β”œβ”€β”€β”€.venv + β”‚ └───Scripts + β”œβ”€β”€β”€.vscode + β”œβ”€β”€β”€dist + β”œβ”€β”€β”€docs + β”‚ └───img + β”œβ”€β”€β”€json_pages + β”‚ └───.ipynb_checkpoints + β”œβ”€β”€β”€legacy + β”‚ β”œβ”€β”€β”€files + β”‚ β”œβ”€β”€β”€mpcite + β”‚ β”‚ └───__pycache__ + β”‚ └───tests + β”‚ └───__pycache__ + β”œβ”€β”€β”€mpcite + β”‚ └───__pycache__ + β”œβ”€β”€β”€notebooks + β”‚ └───.ipynb_checkpoints + β”œβ”€β”€β”€site + β”‚ β”œβ”€β”€β”€about + β”‚ β”œβ”€β”€β”€CHANGELOG + β”‚ β”œβ”€β”€β”€css + β”‚ β”œβ”€β”€β”€img + β”‚ β”œβ”€β”€β”€js + β”‚ β”œβ”€β”€β”€search + β”‚ └───webfonts + β”œβ”€β”€β”€src + β”‚ └───mp_cite + β”‚ β”œβ”€β”€β”€.ipynb_checkpoints + β”‚ └───__pycache__ + β”œβ”€β”€β”€tests + β”‚ └───__pycache__ + └───test_json_pages + └───.ipynb_checkpoints +``` \ No newline at end of file diff --git a/mkdocs.yml b/mkdocs.yml index 5102808..db02be1 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -1 +1,5 @@ site_name: MPCite +nav: + - Home: index.md + - About: about.md + - Changelog: CHANGELOG.md \ No newline at end of file From 9bf11dc0360a55bfb80c0971c7d1fe536e71ff5d Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:11:18 -0700 Subject: [PATCH 24/52] Added workflow dispatch to release workflow --- .github/workflows/release.yml | 15 +++++++++------ 1 file changed, 9 insertions(+), 6 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index eff3755..46c1a4f 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -1,13 +1,17 @@ name: release on: - # push: - # branches: [release-workflow] + workflow_dispatch: + inputs: + buildSiteOnly: + type: boolean + description: If true, then the package will not publish, only the site will rebuild. If false, then the workflow will attempt to publish (it will fail if you haven't bumped the version number) release: types: [published] jobs: publish: + if: ${{ github.event.inputs.buildSiteOnly == 'false'}} runs-on: ubuntu-latest environment: name: testpypi @@ -56,7 +60,6 @@ jobs: - name: Install deps run: | uv sync --locked --all-extras --dev - uv pip list - name: Generate changelog uses: charmixer/auto-changelog-action@v1 @@ -81,9 +84,9 @@ jobs: - name: Build and Deploy! run: | - git fetch origin gh-pages - git checkout gh-pages && git pull - git checkout ${{ github.ref }} + # git fetch origin gh-pages + # git checkout gh-pages && git pull + # git checkout ${{ github.ref }} uvx mkdocs gh-deploy # - name: Deploy From 1e709286e2a887e540ff1adeb19ea385ebd7ef2f Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:22:56 -0700 Subject: [PATCH 25/52] debugging workflow_dispatch --- .github/workflows/release.yml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 46c1a4f..0a8736e 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -1,6 +1,8 @@ name: release on: + push: + branches: [release-workflow] workflow_dispatch: inputs: buildSiteOnly: From 06aee085645ff5509ff5689a36e418d6cccbf068 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:29:44 -0700 Subject: [PATCH 26/52] testing workflow dispatch... --- .github/workflows/release.yml | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 0a8736e..f3817eb 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -5,15 +5,19 @@ on: branches: [release-workflow] workflow_dispatch: inputs: - buildSiteOnly: - type: boolean - description: If true, then the package will not publish, only the site will rebuild. If false, then the workflow will attempt to publish (it will fail if you haven't bumped the version number) + control: + type: choice + options: + - buildSiteOnly + - publishAndBuild + required: true + description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. release: types: [published] jobs: publish: - if: ${{ github.event.inputs.buildSiteOnly == 'false'}} + if: ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: name: testpypi From f67e2e53b744c974264b09191075714ef5035cf1 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:32:13 -0700 Subject: [PATCH 27/52] Ignore workflow requirement if event is not workflow_dispatch --- .github/workflows/release.yml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index f3817eb..0f1ae0f 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -12,12 +12,14 @@ on: - publishAndBuild required: true description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. + environment: + type: environment release: types: [published] jobs: publish: - if: ${{ github.event.inputs.control == 'publishAndBuild'}} + if: github.event_name != 'workflow_dispatch' || ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: name: testpypi From 7fc25e1d5c9043a7c6b272774aea15332b8cce99 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:33:23 -0700 Subject: [PATCH 28/52] Fixed typing twice --- .github/workflows/release.yml | 2 -- 1 file changed, 2 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 0f1ae0f..97a5649 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -12,8 +12,6 @@ on: - publishAndBuild required: true description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. - environment: - type: environment release: types: [published] From 71ecaee44f6162d727992286e275fd546381eaa6 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 13:10:35 -0700 Subject: [PATCH 29/52] Republish to see if it fixes. --- .github/workflows/release.yml | 6 ++++-- pyproject.toml | 2 +- uv.lock | 2 +- 3 files changed, 6 insertions(+), 4 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 97a5649..d6111a0 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -3,15 +3,17 @@ name: release on: push: branches: [release-workflow] + workflow_dispatch: inputs: control: + required: true + description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. type: choice options: - buildSiteOnly - publishAndBuild - required: true - description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. + release: types: [published] diff --git a/pyproject.toml b/pyproject.toml index e8931e9..ab73b14 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.4" +version = "0.0.5" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index 1d91b32..4738df3 100644 --- a/uv.lock +++ b/uv.lock @@ -297,7 +297,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.4" +version = "0.0.5" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From 6211173b20861544a78ac943b93a4171f870e9b7 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 13:14:34 -0700 Subject: [PATCH 30/52] removing fetching of gh-pages --- .github/workflows/release.yml | 3 --- pyproject.toml | 2 +- uv.lock | 2 +- 3 files changed, 2 insertions(+), 5 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index d6111a0..4e90620 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -92,9 +92,6 @@ jobs: - name: Build and Deploy! run: | - # git fetch origin gh-pages - # git checkout gh-pages && git pull - # git checkout ${{ github.ref }} uvx mkdocs gh-deploy # - name: Deploy diff --git a/pyproject.toml b/pyproject.toml index ab73b14..1ae2b46 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.5" +version = "0.0.6" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index 4738df3..21b033a 100644 --- a/uv.lock +++ b/uv.lock @@ -297,7 +297,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.5" +version = "0.0.6" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From af0af8466b0acf53b01826124ac91780fe067748 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 13:26:47 -0700 Subject: [PATCH 31/52] Trying original functionality again, and hoping workflow dispatch works --- .github/workflows/release.yml | 13 +++++-------- pyproject.toml | 2 +- uv.lock | 2 +- 3 files changed, 7 insertions(+), 10 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 4e90620..61da068 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -10,6 +10,7 @@ on: required: true description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. type: choice + default: "release-workflow" options: - buildSiteOnly - publishAndBuild @@ -92,11 +93,7 @@ jobs: - name: Build and Deploy! run: | - uvx mkdocs gh-deploy - -# - name: Deploy -# uses: peaceiris/actions-gh-pages@v4.0.0 -# with: -# github_token: ${{ secrets.GITHUB_TOKEN }} -# publish_dir: ./site -# # integrate mkdocs at some point and testpypi + git fetch origin gh-pages + git checkout gh-pages && git pull + git checkout ${{ github.ref }} + uvx mkdocs gh-deploy \ No newline at end of file diff --git a/pyproject.toml b/pyproject.toml index 1ae2b46..81fd127 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.6" +version = "0.0.7" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index 21b033a..a0c20f8 100644 --- a/uv.lock +++ b/uv.lock @@ -297,7 +297,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.6" +version = "0.0.7" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From c5e7da66e252414a7c152a426f8fa75b602c6eac Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 15:06:32 -0700 Subject: [PATCH 32/52] Removed README.md, will direct users to documentation instead --- README.md | 8 -------- 1 file changed, 8 deletions(-) diff --git a/README.md b/README.md index c01d92c..e69de29 100644 --- a/README.md +++ b/README.md @@ -1,8 +0,0 @@ -# MPCite - -MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. - -Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. - -- πŸ“„ **Documentation:** https://github.com/materialsproject/MPCite -- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From fe10af002fb0b0fa51c68a37816758772062633e Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 16:28:24 -0700 Subject: [PATCH 33/52] Fixing PR Comments --- .github/workflows/release.yml | 42 ++++++------------------------ docs/about.md | 2 +- docs/index.md | 48 ----------------------------------- pyproject.toml | 2 +- uv.lock | 2 +- 5 files changed, 11 insertions(+), 85 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 61da068..7045b95 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -1,30 +1,15 @@ name: release on: - push: - branches: [release-workflow] - - workflow_dispatch: - inputs: - control: - required: true - description: if buildSiteOnly, then only builds site. If publishAndBuild is selected, then publish to TestPyPi and Build. - type: choice - default: "release-workflow" - options: - - buildSiteOnly - - publishAndBuild - release: types: [published] jobs: publish: - if: github.event_name != 'workflow_dispatch' || ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: - name: testpypi - url: https://test.pypi.org/project/mp-cite/ + name: pypi + url: https://pypi.org/p/mp-cite permissions: id-token: write @@ -38,20 +23,13 @@ jobs: enable-cache: true cache-dependency-glob: "uv.lock" - - name: Install build dependencies - run: uv sync --all-extras - # should I uv version --bump patch here? - name: Build the project run: uv build - - name: Publish to TestPyPI - env: - TESTPYPI_TOKEN_SCOPED_MPCITE: ${{ secrets.TESTPYPI_TOKEN_SCOPED_MPCITE }} - run: | - uv publish --index "testpypi" --token $TESTPYPI_TOKEN_SCOPED_MPCITE - # echo Temporary Placeholder For Publish. Branch: ${GITHUB_REF##*/} + - name: Publish to PyPI + run: uv publish --trusted-publishing always docs: runs-on: ubuntu-latest @@ -81,19 +59,15 @@ jobs: git config --local user.email "feedback@materialsproject.org" git config --local user.name "materialsproject" git stash - git pull origin ${GITHUB_REF##*/} + git pull origin master mv CHANGELOG.md docs/ - git add docs/CHANGELOG.md && git diff-index --quiet HEAD || git commit -m 'Updated CHANGELOG.md' + git add docs/CHANGELOG.md && git commit -m 'Updated CHANGELOG.md' - name: Push changes uses: ad-m/github-push-action@master with: github_token: ${{ secrets.GITHUB_TOKEN }} - branch: ${{ github.ref }} + branch: master - name: Build and Deploy! - run: | - git fetch origin gh-pages - git checkout gh-pages && git pull - git checkout ${{ github.ref }} - uvx mkdocs gh-deploy \ No newline at end of file + run: uvx mkdocs gh-deploy \ No newline at end of file diff --git a/docs/about.md b/docs/about.md index 414711b..afd6dfc 100644 --- a/docs/about.md +++ b/docs/about.md @@ -5,4 +5,4 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. - πŸ“„ **Source Code:** https://github.com/materialsproject/MPCite -- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file +- πŸ“¦ **PyPI Package:** https://pypi.org/p/mp-cite/ \ No newline at end of file diff --git a/docs/index.md b/docs/index.md index 6244e5b..04ec8b5 100644 --- a/docs/index.md +++ b/docs/index.md @@ -8,51 +8,3 @@ For the source code visit the [GitHub Repository](https://github.com/materialspr * `mkdocs serve` - Start the live-reloading docs server. * `mkdocs build` - Build the documentation site. * `mkdocs -h` - Print help message and exit. - -## Project layout -``` - C:. - β”œβ”€β”€β”€.github - β”‚ └───workflows - β”œβ”€β”€β”€.ipynb_checkpoints - β”œβ”€β”€β”€.pytest_cache - β”‚ └───v - β”‚ └───cache - β”œβ”€β”€β”€.ruff_cache - β”‚ β”œβ”€β”€β”€0.12.4 - β”‚ └───0.12.7 - β”œβ”€β”€β”€.venv - β”‚ └───Scripts - β”œβ”€β”€β”€.vscode - β”œβ”€β”€β”€dist - β”œβ”€β”€β”€docs - β”‚ └───img - β”œβ”€β”€β”€json_pages - β”‚ └───.ipynb_checkpoints - β”œβ”€β”€β”€legacy - β”‚ β”œβ”€β”€β”€files - β”‚ β”œβ”€β”€β”€mpcite - β”‚ β”‚ └───__pycache__ - β”‚ └───tests - β”‚ └───__pycache__ - β”œβ”€β”€β”€mpcite - β”‚ └───__pycache__ - β”œβ”€β”€β”€notebooks - β”‚ └───.ipynb_checkpoints - β”œβ”€β”€β”€site - β”‚ β”œβ”€β”€β”€about - β”‚ β”œβ”€β”€β”€CHANGELOG - β”‚ β”œβ”€β”€β”€css - β”‚ β”œβ”€β”€β”€img - β”‚ β”œβ”€β”€β”€js - β”‚ β”œβ”€β”€β”€search - β”‚ └───webfonts - β”œβ”€β”€β”€src - β”‚ └───mp_cite - β”‚ β”œβ”€β”€β”€.ipynb_checkpoints - β”‚ └───__pycache__ - β”œβ”€β”€β”€tests - β”‚ └───__pycache__ - └───test_json_pages - └───.ipynb_checkpoints -``` \ No newline at end of file diff --git a/pyproject.toml b/pyproject.toml index 81fd127..b181531 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "mp-cite" -version = "0.0.7" +version = "0.0.1" description = "Add your description here" readme = "README.md" authors = [ diff --git a/uv.lock b/uv.lock index a0c20f8..8a63c50 100644 --- a/uv.lock +++ b/uv.lock @@ -297,7 +297,7 @@ wheels = [ [[package]] name = "mp-cite" -version = "0.0.7" +version = "0.0.1" source = { editable = "." } dependencies = [ { name = "elinkapi" }, From b7af4c2403d8436631bfdb08f31a1e502595546d Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 16:35:49 -0700 Subject: [PATCH 34/52] Cleaned up docs --- docs/about.md | 8 -------- docs/index.md | 11 ++++++----- mkdocs.yml | 1 - 3 files changed, 6 insertions(+), 14 deletions(-) delete mode 100644 docs/about.md diff --git a/docs/about.md b/docs/about.md deleted file mode 100644 index afd6dfc..0000000 --- a/docs/about.md +++ /dev/null @@ -1,8 +0,0 @@ -# About - -MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. - -Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. - -- πŸ“„ **Source Code:** https://github.com/materialsproject/MPCite -- πŸ“¦ **PyPI Package:** https://pypi.org/p/mp-cite/ \ No newline at end of file diff --git a/docs/index.md b/docs/index.md index 04ec8b5..07616b1 100644 --- a/docs/index.md +++ b/docs/index.md @@ -2,9 +2,10 @@ For the source code visit the [GitHub Repository](https://github.com/materialsproject/MPCite). -## Commands +For package instructions visit [PyPi](https://pypi.org/p/mp-cite). -* `mkdocs new [dir-name]` - Create a new project. -* `mkdocs serve` - Start the live-reloading docs server. -* `mkdocs build` - Build the documentation site. -* `mkdocs -h` - Print help message and exit. +# What is MPCite? + +MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. + +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. \ No newline at end of file diff --git a/mkdocs.yml b/mkdocs.yml index db02be1..e2ab337 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -1,5 +1,4 @@ site_name: MPCite nav: - Home: index.md - - About: about.md - Changelog: CHANGELOG.md \ No newline at end of file From 24931854403307ae77af2fc040abbc0f46026e3d Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 16:40:06 -0700 Subject: [PATCH 35/52] moved mkdocs to a new dependency group: docs --- pyproject.toml | 4 +++- uv.lock | 6 ++++-- 2 files changed, 7 insertions(+), 3 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index b181531..52babb3 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -15,7 +15,6 @@ maintainers = [ requires-python = ">=3.11" dependencies = [ "elinkapi>=0.4.9", - "mkdocs>=1.6.1", "pydantic>=2.11.7", "pymongo>=4.13.2", ] @@ -29,6 +28,9 @@ lint = [ "mypy>=1.17.1", "ruff>=0.12.7", ] +docs = [ + "mkdocs>=1.6.1", +] [build-system] requires = ["hatchling"] diff --git a/uv.lock b/uv.lock index 8a63c50..b6a2a78 100644 --- a/uv.lock +++ b/uv.lock @@ -301,7 +301,6 @@ version = "0.0.1" source = { editable = "." } dependencies = [ { name = "elinkapi" }, - { name = "mkdocs" }, { name = "pydantic" }, { name = "pymongo" }, ] @@ -311,6 +310,9 @@ dev = [ { name = "pre-commit" }, { name = "pytest" }, ] +docs = [ + { name = "mkdocs" }, +] lint = [ { name = "mypy" }, { name = "ruff" }, @@ -319,7 +321,6 @@ lint = [ [package.metadata] requires-dist = [ { name = "elinkapi", specifier = ">=0.4.9" }, - { name = "mkdocs", specifier = ">=1.6.1" }, { name = "pydantic", specifier = ">=2.11.7" }, { name = "pymongo", specifier = ">=4.13.2" }, ] @@ -329,6 +330,7 @@ dev = [ { name = "pre-commit", specifier = ">=4.2.0" }, { name = "pytest", specifier = ">=8.4.1" }, ] +docs = [{ name = "mkdocs", specifier = ">=1.6.1" }] lint = [ { name = "mypy", specifier = ">=1.17.1" }, { name = "ruff", specifier = ">=0.12.7" }, From 60cffcfdad172d9198bd48b3396211f4497dd530 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:28:38 -0700 Subject: [PATCH 36/52] Added error error detection of nothing to commit, for development I guess --- .github/workflows/release.yml | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 7045b95..e480b18 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -61,7 +61,11 @@ jobs: git stash git pull origin master mv CHANGELOG.md docs/ +<<<<<<< HEAD git add docs/CHANGELOG.md && git commit -m 'Updated CHANGELOG.md' +======= + git add docs/CHANGELOG.md && git diff-index --quiet HEAD || git commit -m 'Updated CHANGELOG.md' +>>>>>>> 44e82a1 (Added error error detection of nothing to commit, for development I guess) - name: Push changes uses: ad-m/github-push-action@master From b43cf2bd36c8538277194804fe6c7dcfdc53f837 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:37:17 -0700 Subject: [PATCH 37/52] Trying to get mkdocs to build --- .github/workflows/release.yml | 7 +------ 1 file changed, 1 insertion(+), 6 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index e480b18..a009cda 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -45,8 +45,7 @@ jobs: python-version: 3.12 - name: Install deps - run: | - uv sync --locked --all-extras --dev + run: uv sync --locked --all-extras --dev - name: Generate changelog uses: charmixer/auto-changelog-action@v1 @@ -61,11 +60,7 @@ jobs: git stash git pull origin master mv CHANGELOG.md docs/ -<<<<<<< HEAD git add docs/CHANGELOG.md && git commit -m 'Updated CHANGELOG.md' -======= - git add docs/CHANGELOG.md && git diff-index --quiet HEAD || git commit -m 'Updated CHANGELOG.md' ->>>>>>> 44e82a1 (Added error error detection of nothing to commit, for development I guess) - name: Push changes uses: ad-m/github-push-action@master From de0e156221a3130afad88480367afe3da46faad7 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:42:58 -0700 Subject: [PATCH 38/52] Trying uvx to run mkdocs build, swapped order of syc and pip list --- .github/workflows/release.yml | 20 +++++++++++++++++++- 1 file changed, 19 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index a009cda..47c1e78 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -45,7 +45,13 @@ jobs: python-version: 3.12 - name: Install deps +<<<<<<< HEAD run: uv sync --locked --all-extras --dev +======= + run: | + uv sync --locked --all-extras --dev + uv pip list +>>>>>>> 296d17b (Trying uvx to run mkdocs build, swapped order of syc and pip list) - name: Generate changelog uses: charmixer/auto-changelog-action@v1 @@ -68,5 +74,17 @@ jobs: github_token: ${{ secrets.GITHUB_TOKEN }} branch: master +<<<<<<< HEAD - name: Build and Deploy! - run: uvx mkdocs gh-deploy \ No newline at end of file + run: uvx mkdocs gh-deploy +======= + - name: Build + run: uvx mkdocs build + + - name: Deploy + uses: peaceiris/actions-gh-pages@v4.0.0 + with: + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: ./site +# integrate mkdocs at some point and testpypi +>>>>>>> 296d17b (Trying uvx to run mkdocs build, swapped order of syc and pip list) From e9f2b384d1a7f1d8d986fc58bddf756d30e95b19 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 13:54:56 -0700 Subject: [PATCH 39/52] Switching to uvx mkdocs gh-deploy --- .github/workflows/release.yml | 18 ------------------ 1 file changed, 18 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 47c1e78..e5d2a28 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -45,13 +45,7 @@ jobs: python-version: 3.12 - name: Install deps -<<<<<<< HEAD run: uv sync --locked --all-extras --dev -======= - run: | - uv sync --locked --all-extras --dev - uv pip list ->>>>>>> 296d17b (Trying uvx to run mkdocs build, swapped order of syc and pip list) - name: Generate changelog uses: charmixer/auto-changelog-action@v1 @@ -74,17 +68,5 @@ jobs: github_token: ${{ secrets.GITHUB_TOKEN }} branch: master -<<<<<<< HEAD - name: Build and Deploy! run: uvx mkdocs gh-deploy -======= - - name: Build - run: uvx mkdocs build - - - name: Deploy - uses: peaceiris/actions-gh-pages@v4.0.0 - with: - github_token: ${{ secrets.GITHUB_TOKEN }} - publish_dir: ./site -# integrate mkdocs at some point and testpypi ->>>>>>> 296d17b (Trying uvx to run mkdocs build, swapped order of syc and pip list) From ca2e879ee53a2c04a7839eccfc1325f3fcd1a8e1 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:09:31 -0700 Subject: [PATCH 40/52] Attempting to fetch gh-pages first to pull any changes first before deployment --- .github/workflows/release.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index e5d2a28..a009cda 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -69,4 +69,4 @@ jobs: branch: master - name: Build and Deploy! - run: uvx mkdocs gh-deploy + run: uvx mkdocs gh-deploy \ No newline at end of file From 735309ddd6adb822ebb8db3d05a5d943effceb83 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:44:05 -0700 Subject: [PATCH 41/52] Added favicon and made about page, preparing for first release and changelog --- docs/about.md | 0 1 file changed, 0 insertions(+), 0 deletions(-) create mode 100644 docs/about.md diff --git a/docs/about.md b/docs/about.md new file mode 100644 index 0000000..e69de29 From 1eb54790dc815c560e3941ee263434fd5a7f747c Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 14:49:14 -0700 Subject: [PATCH 42/52] Attempting first automated push to testpypi, bumped to mpcite 0.0.4 and replaced placeholder echo --- .github/workflows/release.yml | 4 +- uv.lock | 788 ---------------------------------- 2 files changed, 2 insertions(+), 790 deletions(-) delete mode 100644 uv.lock diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index a009cda..7078842 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -8,8 +8,8 @@ jobs: publish: runs-on: ubuntu-latest environment: - 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It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. + +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. + +- πŸ“„ **Documentation:** HugoOnghai.github.io/MPCite/ +- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From 7d0d51c6784338feefaa5542d0d4a3abda4f5931 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Thu, 31 Jul 2025 16:00:32 -0700 Subject: [PATCH 44/52] Fixed URL on Readme --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index ce274fc..3ec647a 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,5 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. -- πŸ“„ **Documentation:** HugoOnghai.github.io/MPCite/ +- πŸ“„ **Documentation:** https://hugoonghai.github.io/MPCite/ - πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From 489492cc5f516440dc5719766945b299e58bdc11 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 09:57:45 -0700 Subject: [PATCH 45/52] Changed about.md --- README.md | 2 +- docs/about.md | 8 ++++++++ docs/index.md | 2 +- 3 files changed, 10 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 3ec647a..c01d92c 100644 --- a/README.md +++ b/README.md @@ -4,5 +4,5 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. -- πŸ“„ **Documentation:** https://hugoonghai.github.io/MPCite/ +- πŸ“„ **Documentation:** https://github.com/materialsproject/MPCite - πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file diff --git a/docs/about.md b/docs/about.md index e69de29..414711b 100644 --- a/docs/about.md +++ b/docs/about.md @@ -0,0 +1,8 @@ +# About + +MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. + +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. + +- πŸ“„ **Source Code:** https://github.com/materialsproject/MPCite +- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file diff --git a/docs/index.md b/docs/index.md index 07616b1..9b7fd96 100644 --- a/docs/index.md +++ b/docs/index.md @@ -8,4 +8,4 @@ For package instructions visit [PyPi](https://pypi.org/p/mp-cite). MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. -Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. \ No newline at end of file +Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. From 3eb285b8a113b6b71246b38596af260a42b50c54 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:11:18 -0700 Subject: [PATCH 46/52] Added workflow dispatch to release workflow --- .github/workflows/release.yml | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 7078842..42a7fcf 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -6,6 +6,7 @@ on: jobs: publish: + if: ${{ github.event.inputs.buildSiteOnly == 'false'}} runs-on: ubuntu-latest environment: name: testpypi @@ -69,4 +70,4 @@ jobs: branch: master - name: Build and Deploy! - run: uvx mkdocs gh-deploy \ No newline at end of file + run: uvx mkdocs gh-deploy From a991ed891fd8912185117d73599fbac5d10b568e Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:29:44 -0700 Subject: [PATCH 47/52] testing workflow dispatch... --- .github/workflows/release.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 42a7fcf..315a1ab 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -6,7 +6,7 @@ on: jobs: publish: - if: ${{ github.event.inputs.buildSiteOnly == 'false'}} + if: ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: name: testpypi From c98d9943fefebc7f01c5c40a2bfe2ce719a27ae3 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 12:32:13 -0700 Subject: [PATCH 48/52] Ignore workflow requirement if event is not workflow_dispatch --- .github/workflows/release.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 315a1ab..27817af 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -6,7 +6,7 @@ on: jobs: publish: - if: ${{ github.event.inputs.control == 'publishAndBuild'}} + if: github.event_name != 'workflow_dispatch' || ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: name: testpypi From 6f44bd738d933eb81f791262be1728b255b93a57 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 15:06:32 -0700 Subject: [PATCH 49/52] Removed README.md, will direct users to documentation instead --- README.md | 8 -------- 1 file changed, 8 deletions(-) diff --git a/README.md b/README.md index c01d92c..e69de29 100644 --- a/README.md +++ b/README.md @@ -1,8 +0,0 @@ -# MPCite - -MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). It enables automated submission, validation, and management of metadata records and Digital Object Identifiers (DOIs) for materials data within the Materials Project ecosystem. - -Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. - -- πŸ“„ **Documentation:** https://github.com/materialsproject/MPCite -- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file From 9098e5a7395636338d65afc4576b4958f20e6173 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 16:28:24 -0700 Subject: [PATCH 50/52] Fixing PR Comments --- .github/workflows/release.yml | 5 ++--- docs/about.md | 2 +- 2 files changed, 3 insertions(+), 4 deletions(-) diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 27817af..e5d2a28 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -6,11 +6,10 @@ on: jobs: publish: - if: github.event_name != 'workflow_dispatch' || ${{ github.event.inputs.control == 'publishAndBuild'}} runs-on: ubuntu-latest environment: - name: testpypi - url: https://test.pypi.org/project/mp-cite/ + name: pypi + url: https://pypi.org/p/mp-cite permissions: id-token: write diff --git a/docs/about.md b/docs/about.md index 414711b..afd6dfc 100644 --- a/docs/about.md +++ b/docs/about.md @@ -5,4 +5,4 @@ MPCite provides high-throughput, orchestrated functions for the Materials Projec Designed as a backend utility, MPCite ensures robust, scalable DOI assignment workflows through modular and reusable interfaces that integrate directly with MP's data infrastructure. - πŸ“„ **Source Code:** https://github.com/materialsproject/MPCite -- πŸ“¦ **TestPyPI Package:** https://test.pypi.org/project/mp-cite/ \ No newline at end of file +- πŸ“¦ **PyPI Package:** https://pypi.org/p/mp-cite/ \ No newline at end of file From a3adddb6e4ab6f05d4baf06068e2cd2737740d14 Mon Sep 17 00:00:00 2001 From: HugoOnghai Date: Mon, 4 Aug 2025 16:35:49 -0700 Subject: [PATCH 51/52] Cleaned up docs --- docs/about.md | 8 -------- 1 file changed, 8 deletions(-) delete mode 100644 docs/about.md diff --git a/docs/about.md b/docs/about.md deleted file mode 100644 index afd6dfc..0000000 --- a/docs/about.md +++ /dev/null @@ -1,8 +0,0 @@ -# About - -MPCite provides high-throughput, orchestrated functions for the Materials Project to interact programmatically with the DOE Office of Scientific and Technical Information (OSTI) via the E-Link API [[1]](https://github.com/doecode/elinkapi). 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