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Merged
keighrim merged 12 commits into from
Jul 26, 2025
Merged

install process updated for newer python #323

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7dc0f09
Merge pull request #288 from clamsproject/develop
keighrim Jun 26, 2024
0962ff3
adding HTML documentation for publication
Jun 26, 2024
dcf7324
Merge pull request #298 from clamsproject/develop
keighrim Jul 15, 2024
01440dd
adding HTML documentation for publication
Jul 15, 2024
9a5a4f5
Merge pull request #301 from clamsproject/develop
keighrim Jul 29, 2024
0e6dbbb
adding HTML documentation for publication
Jul 29, 2024
5895168
Merge pull request #322 from clamsproject/develop
keighrim Jul 23, 2025
5173675
fixed publish GHA for new min py version
keighrim Jul 23, 2025
d087761
updated setup.py to support newer setuptools (in 3.12 and newer)
keighrim Jul 26, 2025
e3f6aa5
reverted test GHA to call common sdk workflow
keighrim Jul 26, 2025
0a1e7ff
Merge tag '1.1.0' into 314-py3.12-setup.py
keighrim Jul 26, 2025
88e7479
reverted publish GHA to call common sdk workflow
keighrim Jul 26, 2025
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57 changes: 5 additions & 52 deletions .github/workflows/codecov.yml
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default: "develop"

jobs:
test:
name: "🧪 Test with coverage"
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ["3.11", "3.10"]
env:
OS: linux
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
steps:
- name: "🛍️ Checkout repository"
uses: actions/checkout@v4
with:
ref: ${{ github.event.inputs.branch || github.ref }}
- name: "🐍 Setup Python"
uses: actions/setup-python@v4
with:
python-version: ${{ matrix.python-version }}
- name: "🧪 Run test and generate coverage report"
working-directory: .
run: |
echo "codecov.dev" > VERSION
make test
- name: "📦 Upload coverage artifact"
uses: actions/upload-artifact@v4
with:
name: coverage-report-${{ matrix.python-version }}
path: ./coverage.xml

upload:
name: "☁️ Upload coverage to Codecov"
runs-on: ubuntu-latest
needs: test
steps:
- name: "🛍️ Checkout repository"
uses: actions/checkout@v4
with:
ref: ${{ github.event.inputs.branch || github.ref }}
- name: "📥 Download coverage artifact"
uses: actions/download-artifact@v4
with:
name: coverage-report-3.10
- name: "☁️ Upload coverage to Codecov"
uses: codecov/codecov-action@v3
with:
token: ${{ secrets.CODECOV_UPLOAD_TOKEN_MMIF_PYTHON }}
files: ./coverage.xml
flags: unittests
env_vars: OS,PYTHON
name: coverage
fail_ci_if_error: true

test-and-codecov:
name: "🤙 Call SDK test workflow"
uses: clamsproject/.github/.github/workflows/sdk-codecov.yml@main
secrets:
CC_REPO_UPLOAD_TOKEN: ${{ secrets.CODECOV_UPLOAD_TOKEN_MMIF_PYTHON }}
3 changes: 1 addition & 2 deletions .github/workflows/publish.yml
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- '[0-9]+.[0-9]+.[0-9]+'

jobs:
packge-and-upload:
package-and-upload:
name: "🤙 Call SDK publish workflow"
uses: clamsproject/.github/.github/workflows/sdk-publish.yml@main
secrets: inherit

29 changes: 29 additions & 0 deletions CHANGELOG.md
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## releasing 1.0.19 (2024-07-29)
### Overview
Patch to fix a critical bug.

### Changes
- bugfix when `Annotation` instance and "warnings" view both are involved, MMIF is not properly returned (#299)

## releasing 1.0.18 (2024-07-15)
### Overview
Patch release with a bugfix.

### Additions
- document location (docloc) plugins now have a common function to provide formatting guidelines (https://github.com/clamsproject/mmif-python/issues/297)
### Changes
- fixed bug when adding custom properties to a newly generated `TextDocument` object (https://github.com/clamsproject/mmif-python/issues/290)

## releasing 1.0.17 (2024-06-26)
### Overview
This release adds caching mechanism for annotation alignments (via `Alignment` annotation, the alignment via `targets` property is not yet supported).

### Additions
- `Annotation` class now has [`.aligned_to_by(alignment: Annotation)`](https://clams.ai/mmif-python/latest/autodoc/mmif.serialize.html#mmif.serialize.annotation.Annotation.aligned_to_by) and [`.get_all_aligned()`](https://clams.ai/mmif-python/latest/autodoc/mmif.serialize.html#mmif.serialize.annotation.Annotation.get_all_aligned) method to quickly retrieve cached alignment counterparts (https://github.com/clamsproject/mmif-python/issues/285). The caching occurs
1. when MMIF JSON is deserialized
2. when `view.add_annotation` or `view.new_annotation` is called

### Changes
- `mmif.utils.text_document_helper.slice_text` received a major speed boost from the alignment caching.


## releasing 1.0.16 (2024-06-14)
### Overview
This release includes an _experimental_ implementation for helpers to slice `text_value` from text documents.
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# Sphinx build info version 1
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
config: f096d2caba7303b9a2d38a50c0ba12a6
config: 150c922e863772efb719a199ed6b54a2
tags: 645f666f9bcd5a90fca523b33c5a78b7
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<dd><a href="../../1.0.14/autodoc/mmif.serialize.html">1.0.14</a></dd>
<dd><a href="../../1.0.15/autodoc/mmif.serialize.html">1.0.15</a></dd>
<dd><a href="../../1.0.16/autodoc/mmif.serialize.html">1.0.16</a></dd>
<dd><a href="../../1.0.17/autodoc/mmif.serialize.html">1.0.17</a></dd>
<dd><a href="../../1.0.18/autodoc/mmif.serialize.html">1.0.18</a></dd>
<dd><a href="../../1.0.19/autodoc/mmif.serialize.html">1.0.19</a></dd>
<dd><a href="../../1.0.2/autodoc/mmif.serialize.html">1.0.2</a></dd>
<dd><a href="../../1.0.3/autodoc/mmif.serialize.html">1.0.3</a></dd>
<dd><a href="../../1.0.4/autodoc/mmif.serialize.html">1.0.4</a></dd>
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<dd><a href="../../1.0.14/autodoc/mmif.vocabulary.html">1.0.14</a></dd>
<dd><a href="../../1.0.15/autodoc/mmif.vocabulary.html">1.0.15</a></dd>
<dd><a href="../../1.0.16/autodoc/mmif.vocabulary.html">1.0.16</a></dd>
<dd><a href="../../1.0.17/autodoc/mmif.vocabulary.html">1.0.17</a></dd>
<dd><a href="../../1.0.18/autodoc/mmif.vocabulary.html">1.0.18</a></dd>
<dd><a href="../../1.0.19/autodoc/mmif.vocabulary.html">1.0.19</a></dd>
<dd><a href="../../1.0.2/autodoc/mmif.vocabulary.html">1.0.2</a></dd>
<dd><a href="../../1.0.3/autodoc/mmif.vocabulary.html">1.0.3</a></dd>
<dd><a href="../../1.0.4/autodoc/mmif.vocabulary.html">1.0.4</a></dd>
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<dd><a href="../1.0.14/consumer-tutorial.html">1.0.14</a></dd>
<dd><a href="../1.0.15/consumer-tutorial.html">1.0.15</a></dd>
<dd><a href="../1.0.16/consumer-tutorial.html">1.0.16</a></dd>
<dd><a href="../1.0.17/consumer-tutorial.html">1.0.17</a></dd>
<dd><a href="../1.0.18/consumer-tutorial.html">1.0.18</a></dd>
<dd><a href="../1.0.19/consumer-tutorial.html">1.0.19</a></dd>
<dd><a href="../1.0.2/consumer-tutorial.html">1.0.2</a></dd>
<dd><a href="../1.0.3/consumer-tutorial.html">1.0.3</a></dd>
<dd><a href="../1.0.4/consumer-tutorial.html">1.0.4</a></dd>
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<dd><a href="../1.0.14/index.html">1.0.14</a></dd>
<dd><a href="../1.0.15/index.html">1.0.15</a></dd>
<dd><a href="../1.0.16/index.html">1.0.16</a></dd>
<dd><a href="../1.0.17/index.html">1.0.17</a></dd>
<dd><a href="../1.0.18/index.html">1.0.18</a></dd>
<dd><a href="../1.0.19/index.html">1.0.19</a></dd>
<dd><a href="../1.0.2/index.html">1.0.2</a></dd>
<dd><a href="../1.0.3/index.html">1.0.3</a></dd>
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<dd><a href="../1.0.14/index.html">1.0.14</a></dd>
<dd><a href="../1.0.15/index.html">1.0.15</a></dd>
<dd><a href="../1.0.16/index.html">1.0.16</a></dd>
<dd><a href="../1.0.17/index.html">1.0.17</a></dd>
<dd><a href="../1.0.18/index.html">1.0.18</a></dd>
<dd><a href="../1.0.19/index.html">1.0.19</a></dd>
<dd><a href="../1.0.2/index.html">1.0.2</a></dd>
<dd><a href="../1.0.3/index.html">1.0.3</a></dd>
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<dd><a href="../1.0.14/introduction.html">1.0.14</a></dd>
<dd><a href="../1.0.15/introduction.html">1.0.15</a></dd>
<dd><a href="../1.0.16/introduction.html">1.0.16</a></dd>
<dd><a href="../1.0.17/introduction.html">1.0.17</a></dd>
<dd><a href="../1.0.18/introduction.html">1.0.18</a></dd>
<dd><a href="../1.0.19/introduction.html">1.0.19</a></dd>
<dd><a href="../1.0.2/introduction.html">1.0.2</a></dd>
<dd><a href="../1.0.3/introduction.html">1.0.3</a></dd>
<dd><a href="../1.0.4/introduction.html">1.0.4</a></dd>
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<dd><a href="../1.0.15/modules.html">1.0.15</a></dd>
<dd><a href="../1.0.16/modules.html">1.0.16</a></dd>
<dd><a href="../1.0.17/modules.html">1.0.17</a></dd>
<dd><a href="../1.0.18/modules.html">1.0.18</a></dd>
<dd><a href="../1.0.19/modules.html">1.0.19</a></dd>
<dd><a href="../1.0.2/modules.html">1.0.2</a></dd>
<dd><a href="../1.0.3/modules.html">1.0.3</a></dd>
<dd><a href="../1.0.4/modules.html">1.0.4</a></dd>
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<dd><a href="../1.0.14/index.html">1.0.14</a></dd>
<dd><a href="../1.0.15/index.html">1.0.15</a></dd>
<dd><a href="../1.0.16/index.html">1.0.16</a></dd>
<dd><a href="../1.0.17/index.html">1.0.17</a></dd>
<dd><a href="../1.0.18/index.html">1.0.18</a></dd>
<dd><a href="../1.0.19/index.html">1.0.19</a></dd>
<dd><a href="../1.0.2/index.html">1.0.2</a></dd>
<dd><a href="../1.0.3/index.html">1.0.3</a></dd>
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<dd><a href="../1.0.16/index.html">1.0.16</a></dd>
<dd><a href="../1.0.17/index.html">1.0.17</a></dd>
<dd><a href="../1.0.18/index.html">1.0.18</a></dd>
<dd><a href="../1.0.19/index.html">1.0.19</a></dd>
<dd><a href="../1.0.2/index.html">1.0.2</a></dd>
<dd><a href="../1.0.3/index.html">1.0.3</a></dd>
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# Sphinx build info version 1
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
config: 9f6137b002d005e941db6d845325d5ec
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<dd><a href="../../1.0.15/autodoc/mmif.serialize.html">1.0.15</a></dd>
<dd><a href="../../1.0.16/autodoc/mmif.serialize.html">1.0.16</a></dd>
<dd><a href="../../1.0.17/autodoc/mmif.serialize.html">1.0.17</a></dd>
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<dd><a href="../../1.0.19/autodoc/mmif.serialize.html">1.0.19</a></dd>
<dd><a href="../../1.0.2/autodoc/mmif.serialize.html">1.0.2</a></dd>
<dd><a href="../../1.0.3/autodoc/mmif.serialize.html">1.0.3</a></dd>
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<dd><a href="../1.0.15/introduction.html">1.0.15</a></dd>
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