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2 changes: 1 addition & 1 deletion _sources/recipes/arcs/README.rst.txt
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Expand Up @@ -42,7 +42,7 @@ arcs

:depends btllib: ``>=1.7.3,<2.0a0``
:depends libcxx: ``>=18``
:depends libzlib: ``>=1.2.13,<2.0a0``
:depends libzlib: ``>=1.3.1,<2.0a0``
:depends llvm-openmp: ``>=18.1.8``
:depends make:
:requirements:
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2 changes: 1 addition & 1 deletion _sources/recipes/bioconductor-dada2/README.rst.txt
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Expand Up @@ -32,7 +32,7 @@ bioconductor-dada2
<details><summary><span class="truncated-version-list"><code>1.34.0-0</code>,  <code>1.30.0-0</code>,  <code>1.28.0-0</code>,  <code>1.26.0-1</code>,  <code>1.26.0-0</code>,  <code>1.22.0-2</code>,  <code>1.22.0-1</code>,  <code>1.22.0-0</code>,  <code>1.20.0-0</code>,  </span></summary>


``1.34.0-0``,  ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-1``,  ``1.26.0-0``,  ``1.22.0-2``,  ``1.22.0-1``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.1-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.4-0``,  ``1.4.0-0``,  ``1.2-0``,  ``1.0.3-0``,  ``0.99.10-0``,  ``0.10.4-0``,  ``0.10.3-0``,  ``0.10.1-0``,  ``0.10.0-0``
``1.34.0-0``,  ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-1``,  ``1.26.0-0``,  ``1.22.0-2``,  ``1.22.0-1``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.1-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.4.0-0``,  ``1.4-0``,  ``1.2-0``,  ``1.0.3-0``,  ``0.99.10-0``,  ``0.10.4-0``,  ``0.10.3-0``,  ``0.10.1-0``,  ``0.10.0-0``


.. raw:: html
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9 changes: 6 additions & 3 deletions _sources/recipes/eastr/README.rst.txt
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Expand Up @@ -12,7 +12,10 @@ eastr

Tool for emending alignments of spuriously spliced transcript reads.

:homepage: https://github.com/ishinder/EASTR
:homepage: https://ccb.jhu.edu/eastr/
:documentation: https://ccb.jhu.edu/eastr/#usage

:developer docs: https://github.com/ishinder/EASTR
:license: MIT / MIT
:recipe: /`eastr <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/eastr>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/eastr/meta.yaml>`_
:links: biotools: :biotools:`eastr`, usegalaxy-eu: :usegalaxy-eu:`eastr`, doi: :doi:`10.1038/s41467-023-43017-4`
Expand All @@ -28,7 +31,7 @@ eastr



``1.1.1-1``,  ``1.1.1-0``
``1.1.1-2``,  ``1.1.1-1``,  ``1.1.1-0``



Expand Down Expand Up @@ -99,7 +102,7 @@ eastr

<script>
var package = "eastr";
var versions = ["1.1.1","1.1.1"];
var versions = ["1.1.1","1.1.1","1.1.1"];
</script>


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4 changes: 2 additions & 2 deletions _sources/recipes/flexynesis/README.rst.txt
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``0.2.13-0``,  ``0.2.12-0``,  ``0.2.11-0``,  ``0.2.10-0``
``0.2.14-0``,  ``0.2.13-0``,  ``0.2.12-0``,  ``0.2.11-0``,  ``0.2.10-0``



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<script>
var package = "flexynesis";
var versions = ["0.2.13","0.2.12","0.2.11","0.2.10"];
var versions = ["0.2.14","0.2.13","0.2.12","0.2.11","0.2.10"];
</script>


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10 changes: 5 additions & 5 deletions _sources/recipes/genomad/README.rst.txt
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Expand Up @@ -30,10 +30,10 @@ genomad

.. raw:: html

<details><summary><span class="truncated-version-list"><code>1.8.1-0</code>,  <code>1.8.0-2</code>,  <code>1.8.0-1</code>,  <code>1.8.0-0</code>,  <code>1.7.6-0</code>,  <code>1.7.5-0</code>,  <code>1.7.4-0</code>,  <code>1.7.3-0</code>,  <code>1.7.2-0</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>1.9.0-1</code>,  <code>1.9.0-0</code>,  <code>1.8.1-0</code>,  <code>1.8.0-2</code>,  <code>1.8.0-1</code>,  <code>1.8.0-0</code>,  <code>1.7.6-0</code>,  <code>1.7.5-0</code>,  <code>1.7.4-0</code>,  </span></summary>


``1.8.1-0``,  ``1.8.0-2``,  ``1.8.0-1``,  ``1.8.0-0``,  ``1.7.6-0``,  ``1.7.5-0``,  ``1.7.4-0``,  ``1.7.3-0``,  ``1.7.2-0``,  ``1.7.1-0``,  ``1.7.0-0``,  ``1.6.1-0``,  ``1.5.2-0``,  ``1.5.1-0``,  ``1.5.0-0``,  ``1.4.0-0``,  ``1.3.3-0``,  ``1.3.2-0``,  ``1.3.1-0``,  ``1.3.0-0``,  ``1.2.0-0``,  ``1.1.0-1``,  ``1.1.0-0``,  ``1.0.0-0``
``1.9.0-1``,  ``1.9.0-0``,  ``1.8.1-0``,  ``1.8.0-2``,  ``1.8.0-1``,  ``1.8.0-0``,  ``1.7.6-0``,  ``1.7.5-0``,  ``1.7.4-0``,  ``1.7.3-0``,  ``1.7.2-0``,  ``1.7.1-0``,  ``1.7.0-0``,  ``1.6.1-0``,  ``1.5.2-0``,  ``1.5.1-0``,  ``1.5.0-0``,  ``1.4.0-0``,  ``1.3.3-0``,  ``1.3.2-0``,  ``1.3.1-0``,  ``1.3.0-0``,  ``1.2.0-0``,  ``1.1.0-1``,  ``1.1.0-0``,  ``1.0.0-0``


.. raw:: html
Expand All @@ -43,7 +43,7 @@ genomad


:depends aragorn:
:depends keras: ``>=2.7,<3``
:depends keras: ``>=3``
:depends mmseqs2: ``14.7e284.*``
:depends numba: ``>=0.57``
:depends numpy: ``>=1.21``
Expand All @@ -52,7 +52,7 @@ genomad
:depends python-crfsuite:
:depends rich-click: ``>=1.4``
:depends taxopy: ``>=0.4.0``
:depends tensorflow: ``>=2.7,<2.16``
:depends tensorflow: ``>=2.16``
:depends xgboost: ``>=1.6``
:requirements:

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<script>
var package = "genomad";
var versions = ["1.8.1","1.8.0","1.8.0","1.8.0","1.7.6"];
var versions = ["1.9.0","1.9.0","1.8.1","1.8.0","1.8.0"];
</script>


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24 changes: 16 additions & 8 deletions _sources/recipes/mummer4/README.rst.txt
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Expand Up @@ -10,11 +10,15 @@ mummer4
:replaces_section_title:
:noindex:

MUMmer is a system for rapidly aligning entire genomes
MUMmer is a system for rapidly aligning entire genomes.

:homepage: https://mummer4.github.io/
:license: The Artistic License 2.0
:homepage: https://mummer4.github.io
:documentation: https://github.com/mummer4/mummer/blob/v4.0.0/README.md

:developer docs: https://github.com/mummer4/mummer
:license: Artistic License 2.0
:recipe: /`mummer4 <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/mummer4>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/mummer4/meta.yaml>`_
:links: doi: :doi:`10.1371/journal.pcbi.1005944`, biotools: :biotools:`mummer4`, usegalaxy-eu: :usegalaxy-eu:`mummer_mummer`, usegalaxy-eu: :usegalaxy-eu:`mummerplot`, usegalaxy-eu: :usegalaxy-eu:`mummerplot_wrapper`



Expand All @@ -28,10 +32,10 @@ mummer4

.. raw:: html

<details><summary><span class="truncated-version-list"><code>4.0.0rc1-8</code>,  <code>4.0.0rc1-7</code>,  <code>4.0.0rc1-6</code>,  <code>4.0.0rc1-5</code>,  <code>4.0.0rc1-4</code>,  <code>4.0.0rc1-3</code>,  <code>4.0.0rc1-2</code>,  <code>4.0.0rc1-1</code>,  <code>4.0.0rc1-0</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>4.0.0-0</code>,  <code>4.0.0rc1-8</code>,  <code>4.0.0rc1-7</code>,  <code>4.0.0rc1-6</code>,  <code>4.0.0rc1-5</code>,  <code>4.0.0rc1-4</code>,  <code>4.0.0rc1-3</code>,  <code>4.0.0rc1-2</code>,  <code>4.0.0rc1-1</code>,  </span></summary>


``4.0.0rc1-8``,  ``4.0.0rc1-7``,  ``4.0.0rc1-6``,  ``4.0.0rc1-5``,  ``4.0.0rc1-4``,  ``4.0.0rc1-3``,  ``4.0.0rc1-2``,  ``4.0.0rc1-1``,  ``4.0.0rc1-0``,  ``4.0.0beta2-5``,  ``4.0.0beta2-4``,  ``4.0.0beta2-3``,  ``4.0.0beta2-2``,  ``4.0.0beta2-1``,  ``4.0.0beta2-0``
``4.0.0-0``,  ``4.0.0rc1-8``,  ``4.0.0rc1-7``,  ``4.0.0rc1-6``,  ``4.0.0rc1-5``,  ``4.0.0rc1-4``,  ``4.0.0rc1-3``,  ``4.0.0rc1-2``,  ``4.0.0rc1-1``,  ``4.0.0rc1-0``,  ``4.0.0beta2-5``,  ``4.0.0beta2-4``,  ``4.0.0beta2-3``,  ``4.0.0beta2-2``,  ``4.0.0beta2-1``,  ``4.0.0beta2-0``


.. raw:: html
Expand All @@ -40,15 +44,19 @@ mummer4



:depends libcxx: ``>=18``
:depends _openmp_mutex: ``>=4.5``
:depends libgcc: ``>=13``
:depends libgomp:
:depends libstdcxx: ``>=13``
:depends perl: ``>=5.32.1,<5.33.0a0 *_perl5``
:depends yaggo: ``>=1.5.10,<1.6.0a0``
:requirements:

:additional platforms:

.. raw:: html

<span class="additional-platforms"><code>linux-aarch64</code></span>
<span class="additional-platforms"><code>linux-aarch64</code>,  <code>osx-arm64</code></span>


.. rubric:: Installation
Expand Down Expand Up @@ -96,7 +104,7 @@ mummer4

<script>
var package = "mummer4";
var versions = ["4.0.0rc1","4.0.0rc1","4.0.0rc1","4.0.0rc1","4.0.0rc1"];
var versions = ["4.0.0","4.0.0rc1","4.0.0rc1","4.0.0rc1","4.0.0rc1"];
</script>


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4 changes: 2 additions & 2 deletions _sources/recipes/muscle/README.rst.txt
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Expand Up @@ -29,10 +29,10 @@ muscle

.. raw:: html

<details><summary><span class="truncated-version-list"><code>5.3-1</code>,  <code>5.3-0</code>,  <code>5.2-0</code>,  <code>5.1-3</code>,  <code>5.1-2</code>,  <code>5.1.0-1</code>,  <code>5.1-1</code>,  <code>5.1-0</code>,  <code>5.1.0-0</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>5.3-1</code>,  <code>5.3-0</code>,  <code>5.2-0</code>,  <code>5.1-3</code>,  <code>5.1-2</code>,  <code>5.1.0-1</code>,  <code>5.1-1</code>,  <code>5.1.0-0</code>,  <code>5.1-0</code>,  </span></summary>


``5.3-1``,  ``5.3-0``,  ``5.2-0``,  ``5.1-3``,  ``5.1-2``,  ``5.1.0-1``,  ``5.1-1``,  ``5.1-0``,  ``5.1.0-0``,  ``3.8.1551-8``,  ``3.8.1551-7``,  ``3.8.1551-6``,  ``3.8.1551-5``,  ``3.8.1551-4``,  ``3.8.1551-3``,  ``3.8.1551-2``,  ``3.8.1551-1``,  ``3.8.31-0``
``5.3-1``,  ``5.3-0``,  ``5.2-0``,  ``5.1-3``,  ``5.1-2``,  ``5.1.0-1``,  ``5.1-1``,  ``5.1.0-0``,  ``5.1-0``,  ``3.8.1551-8``,  ``3.8.1551-7``,  ``3.8.1551-6``,  ``3.8.1551-5``,  ``3.8.1551-4``,  ``3.8.1551-3``,  ``3.8.1551-2``,  ``3.8.1551-1``,  ``3.8.31-0``


.. raw:: html
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6 changes: 3 additions & 3 deletions _sources/recipes/paraphase/README.rst.txt
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Expand Up @@ -28,10 +28,10 @@ paraphase

.. raw:: html

<details><summary><span class="truncated-version-list"><code>3.1.2-0</code>,  <code>3.1.1-0</code>,  <code>3.1.0-0</code>,  <code>3.0.0-0</code>,  <code>2.2.3-0</code>,  <code>2.2.2-0</code>,  <code>2.2.1-0</code>,  <code>2.1.0-0</code>,  <code>2.0.0-0</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>3.2.0-0</code>,  <code>3.1.2-0</code>,  <code>3.1.1-0</code>,  <code>3.1.0-0</code>,  <code>3.0.0-0</code>,  <code>2.2.3-0</code>,  <code>2.2.2-0</code>,  <code>2.2.1-0</code>,  <code>2.1.0-0</code>,  </span></summary>


``3.1.2-0``,  ``3.1.1-0``,  ``3.1.0-0``,  ``3.0.0-0``,  ``2.2.3-0``,  ``2.2.2-0``,  ``2.2.1-0``,  ``2.1.0-0``,  ``2.0.0-0``,  ``1.1.3-0``
``3.2.0-0``,  ``3.1.2-0``,  ``3.1.1-0``,  ``3.1.0-0``,  ``3.0.0-0``,  ``2.2.3-0``,  ``2.2.2-0``,  ``2.2.1-0``,  ``2.1.0-0``,  ``2.0.0-0``,  ``1.1.3-0``


.. raw:: html
Expand Down Expand Up @@ -97,7 +97,7 @@ paraphase

<script>
var package = "paraphase";
var versions = ["3.1.2","3.1.1","3.1.0","3.0.0","2.2.3"];
var versions = ["3.2.0","3.1.2","3.1.1","3.1.0","3.0.0"];
</script>


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14 changes: 8 additions & 6 deletions _sources/recipes/py2bit/README.rst.txt
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Expand Up @@ -10,10 +10,12 @@ py2bit
:replaces_section_title:
:noindex:

A package for accessing 2bit files using lib2bit
A package for accessing 2bit files using lib2bit.

:homepage: https://github.com/deeptools/py2bit
:license: MIT
:documentation: https://github.com/deeptools/py2bit/blob/0.3.3/README.md

:license: MIT / MIT
:recipe: /`py2bit <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/py2bit>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/py2bit/meta.yaml>`_


Expand All @@ -28,10 +30,10 @@ py2bit

.. raw:: html

<details><summary><span class="truncated-version-list"><code>0.3.3-0</code>,  <code>0.3.0-11</code>,  <code>0.3.0-10</code>,  <code>0.3.0-9</code>,  <code>0.3.0-8</code>,  <code>0.3.0-7</code>,  <code>0.3.0-6</code>,  <code>0.3.0-5</code>,  <code>0.3.0-4</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>0.3.3-1</code>,  <code>0.3.3-0</code>,  <code>0.3.0-11</code>,  <code>0.3.0-10</code>,  <code>0.3.0-9</code>,  <code>0.3.0-8</code>,  <code>0.3.0-7</code>,  <code>0.3.0-6</code>,  <code>0.3.0-5</code>,  </span></summary>


``0.3.3-0``,  ``0.3.0-11``,  ``0.3.0-10``,  ``0.3.0-9``,  ``0.3.0-8``,  ``0.3.0-7``,  ``0.3.0-6``,  ``0.3.0-5``,  ``0.3.0-4``,  ``0.3.0-3``,  ``0.3.0-2``,  ``0.3.0-1``,  ``0.3.0-0``,  ``0.2.2-0``,  ``0.2.1-0``,  ``0.2.0-0``,  ``0.1.0-0``
``0.3.3-1``,  ``0.3.3-0``,  ``0.3.0-11``,  ``0.3.0-10``,  ``0.3.0-9``,  ``0.3.0-8``,  ``0.3.0-7``,  ``0.3.0-6``,  ``0.3.0-5``,  ``0.3.0-4``,  ``0.3.0-3``,  ``0.3.0-2``,  ``0.3.0-1``,  ``0.3.0-0``,  ``0.2.2-0``,  ``0.2.1-0``,  ``0.2.0-0``,  ``0.1.0-0``


.. raw:: html
Expand All @@ -49,7 +51,7 @@ py2bit

.. raw:: html

<span class="additional-platforms"><code>linux-aarch64</code></span>
<span class="additional-platforms"><code>linux-aarch64</code>,  <code>osx-arm64</code></span>


.. rubric:: Installation
Expand Down Expand Up @@ -97,7 +99,7 @@ py2bit

<script>
var package = "py2bit";
var versions = ["0.3.3","0.3.0","0.3.0","0.3.0","0.3.0"];
var versions = ["0.3.3","0.3.3","0.3.0","0.3.0","0.3.0"];
</script>


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16 changes: 9 additions & 7 deletions _sources/recipes/pybarrnap/README.rst.txt
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Expand Up @@ -10,9 +10,11 @@ pybarrnap
:replaces_section_title:
:noindex:

Python implementation of barrnap \(Bacterial ribosomal RNA predictor\)
Python implementation of barrnap \(Bacterial ribosomal RNA predictor\).

:homepage: https://github.com/moshi4/pybarrnap/
:homepage: https://github.com/moshi4/pybarrnap
:documentation: https://github.com/moshi4/pybarrnap/blob/v0.5.1/README.md

:license: GPL3 / GPL-3.0-or-later
:recipe: /`pybarrnap <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/pybarrnap>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/pybarrnap/meta.yaml>`_

Expand All @@ -27,14 +29,14 @@ pybarrnap



``0.5.0-0``,  ``0.4.1-0``,  ``0.3.0-0``
``0.5.1-0``,  ``0.5.0-0``,  ``0.4.1-0``,  ``0.3.0-0``




:depends biopython: ``>=1.79``
:depends pyhmmer: ``>=0.10.8``
:depends python: ``>=3.8``
:depends biopython: ``>=1.80``
:depends pyhmmer: ``>=0.11.0``
:depends python: ``>=3.9``
:requirements:

:additional platforms:
Expand Down Expand Up @@ -85,7 +87,7 @@ pybarrnap

<script>
var package = "pybarrnap";
var versions = ["0.5.0","0.4.1","0.3.0"];
var versions = ["0.5.1","0.5.0","0.4.1","0.3.0"];
</script>


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4 changes: 2 additions & 2 deletions _sources/recipes/r-locuszoomr/README.rst.txt
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Expand Up @@ -27,7 +27,7 @@ r-locuszoomr



``0.3.5-1``,  ``0.3.5-0``
``0.3.6-0``,  ``0.3.5-1``,  ``0.3.5-0``



Expand Down Expand Up @@ -100,7 +100,7 @@ r-locuszoomr

<script>
var package = "r-locuszoomr";
var versions = ["0.3.5","0.3.5"];
var versions = ["0.3.6","0.3.5","0.3.5"];
</script>


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6 changes: 3 additions & 3 deletions _sources/recipes/simpleaf/README.rst.txt
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Expand Up @@ -28,10 +28,10 @@ simpleaf

.. raw:: html

<details><summary><span class="truncated-version-list"><code>0.18.4-1</code>,  <code>0.18.4-0</code>,  <code>0.18.2-0</code>,  <code>0.18.1-0</code>,  <code>0.18.0-1</code>,  <code>0.18.0-0</code>,  <code>0.17.4-1</code>,  <code>0.17.4-0</code>,  <code>0.17.3-0</code>,  </span></summary>
<details><summary><span class="truncated-version-list"><code>0.19.0-0</code>,  <code>0.18.4-1</code>,  <code>0.18.4-0</code>,  <code>0.18.2-0</code>,  <code>0.18.1-0</code>,  <code>0.18.0-1</code>,  <code>0.18.0-0</code>,  <code>0.17.4-1</code>,  <code>0.17.4-0</code>,  </span></summary>


``0.18.4-1``,  ``0.18.4-0``,  ``0.18.2-0``,  ``0.18.1-0``,  ``0.18.0-1``,  ``0.18.0-0``,  ``0.17.4-1``,  ``0.17.4-0``,  ``0.17.3-0``,  ``0.17.2-0``,  ``0.17.1-0``,  ``0.17.0-1``,  ``0.17.0-0``,  ``0.16.2-0``,  ``0.16.1-0``,  ``0.16.0-0``,  ``0.15.1-0``,  ``0.15.0-0``,  ``0.14.1-0``,  ``0.14.0-0``,  ``0.13.0-0``,  ``0.12.0-0``,  ``0.11.1-0``,  ``0.10.0-1``,  ``0.10.0-0``,  ``0.9.0-0``,  ``0.8.1-0``,  ``0.7.0-0``,  ``0.6.0-0``,  ``0.5.3-0``,  ``0.5.2-0``,  ``0.5.1-0``,  ``0.5.0-0``,  ``0.4.0-0``,  ``0.3.0-0``,  ``0.2.1-0``
``0.19.0-0``,  ``0.18.4-1``,  ``0.18.4-0``,  ``0.18.2-0``,  ``0.18.1-0``,  ``0.18.0-1``,  ``0.18.0-0``,  ``0.17.4-1``,  ``0.17.4-0``,  ``0.17.3-0``,  ``0.17.2-0``,  ``0.17.1-0``,  ``0.17.0-1``,  ``0.17.0-0``,  ``0.16.2-0``,  ``0.16.1-0``,  ``0.16.0-0``,  ``0.15.1-0``,  ``0.15.0-0``,  ``0.14.1-0``,  ``0.14.0-0``,  ``0.13.0-0``,  ``0.12.0-0``,  ``0.11.1-0``,  ``0.10.0-1``,  ``0.10.0-0``,  ``0.9.0-0``,  ``0.8.1-0``,  ``0.7.0-0``,  ``0.6.0-0``,  ``0.5.3-0``,  ``0.5.2-0``,  ``0.5.1-0``,  ``0.5.0-0``,  ``0.4.0-0``,  ``0.3.0-0``,  ``0.2.1-0``


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<script>
var package = "simpleaf";
var versions = ["0.18.4","0.18.4","0.18.2","0.18.1","0.18.0"];
var versions = ["0.19.0","0.18.4","0.18.4","0.18.2","0.18.1"];
</script>


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