Updated docs to commit fc2ca8824c8c384d55bd8330609114505436ab8b

Author: actions-user

_sources/recipes/abismal/README.rst.txt

@@ -43,7 +43,7 @@ abismal
 
 
    :depends on _openmp_mutex: ``>=4.5``
-   :depends on htslib: ``>=1.22,<1.24.0a0``
+   :depends on htslib: ``>=1.22,<1.23.0a0``
    :depends on libgcc: ``>=13``
    :depends on libgomp: 
    :depends on libstdcxx: ``>=13``

_sources/recipes/acedrg/README.rst.txt

@@ -37,15 +37,14 @@ acedrg
 
 
 
-   :depends on __glibc: ``>=2.17,<3.0.a0``
    :depends on gemmi: 
    :depends on libgcc: ``>=14``
    :depends on libstdcxx: ``>=14``
    :depends on networkx: 
    :depends on numpy: 
    :depends on pdbecif: 
-   :depends on python: ``>=3.10,<3.11.0a0 *_cpython``
-   :depends on python_abi: ``3.10.* *_cp310``
+   :depends on python: ``>=3.11,<3.12.0a0 *_cpython``
+   :depends on python_abi: ``3.11.* *_cp311``
    :depends on rdkit: 
    :depends on servalcat: 
 

_sources/recipes/addrg/README.rst.txt

@@ -40,7 +40,7 @@ addrg
 
 
 
-   :depends on htslib: ``>=1.22.1,<1.24.0a0``
+   :depends on htslib: ``>=1.22.1,<1.23.0a0``
    :depends on libgcc: ``>=13``
    :depends on libzlib: ``>=1.3.1,<2.0a0``
 

_sources/recipes/alen/README.rst.txt

@@ -32,7 +32,6 @@ alen
 
 
 
-   :depends on __glibc: ``>=2.17,<3.0.a0``
 
    :additional platforms:
 

_sources/recipes/alerax/README.rst.txt

@@ -0,0 +1,135 @@
+:orphan:  .. only available via index, not via toctree
+
+.. title:: Package Recipe 'alerax'
+.. highlight: bash
+
+alerax
+======
+
+.. conda:recipe:: alerax
+   :replaces_section_title:
+   :noindex:
+
+   Probabilistic gene tree and species tree reconciliation tool.
+
+   :homepage: https://github.com/BenoitMorel/AleRax
+   :license: GPL-3.0-only
+   :recipe: /`alerax <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/alerax>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/alerax/meta.yaml>`_
+
+   
+
+
+.. conda:package:: alerax
+
+   |downloads_alerax| |docker_alerax|
+
+   :versions:
+      
+      
+
+      ``1.4.0-0``
+
+      
+
+   
+   :depends on __glibc: ``>=2.17,<3.0.a0``
+   :depends on gsl: ``>=2.7,<2.8.0a0``
+   :depends on libgcc: ``>=14``
+   :depends on libstdcxx: ``>=14``
+   :depends on openmpi: ``>=4.1.6,<5.0a0``
+
+   :additional platforms:
+      
+
+Installation
+------------
+
+You need a conda-compatible package manager
+(currently either `pixi <https://pixi.sh>`__, `conda <https://docs.conda.io/projects/conda>`__, or `micromamba <https://mamba.readthedocs.io>`__)
+and the Bioconda channel already activated (see :ref:`bioconda_setup`).
+Below, we show how to install with either pixi or conda (for micromamba and mamba, commands are essentially the same as with conda).
+
+Pixi
+""""
+
+With pixi_ installed and the Bioconda channel set up (see :ref:`bioconda_setup`),
+to install globally, run::
+
+    pixi global install alerax
+
+to add into an existing workspace instead, run::
+
+    pixi add alerax
+
+In the latter case, make sure to first add bioconda and conda-forge to the channels considered by the workspace::
+
+    pixi workspace channel add conda-forge
+    pixi workspace channel add bioconda
+
+Conda
+"""""
+
+With conda_ installed and the Bioconda channel set up (see :ref:`bioconda_setup`), to install into an existing and activated environment, run::
+
+    conda install alerax
+
+Alternatively, to install into a new environment, run::
+
+    conda create -n envname alerax
+
+with ``envname`` being the name of the desired environment.
+
+Container
+"""""""""
+
+Alternatively, every Bioconda package is available as a container image for usage with your preferred container runtime.
+For e.g. docker, run::
+
+    docker pull quay.io/biocontainers/alerax:<tag>
+
+(see `alerax/tags`_ for valid values for ``<tag>``).
+
+Integrated deployment
+"""""""""""""""""""""
+
+Finally, note that many scientific workflow management systems directly integrate both conda and container based software deployment.
+Thus, workflow steps can be often directly annotated to use the package, leading to automatic deployment by the respective workflow management system, thereby improving reproducibility and transparency.
+Check the documentation of your workflow management system to find out about the integration.
+
+.. _conda: https://conda.io
+.. _pixi: https://pixi.sh
+.. |downloads_alerax| image:: https://img.shields.io/conda/dn/bioconda/alerax.svg?style=flat
+   :target: https://anaconda.org/bioconda/alerax
+   :alt:   (downloads)
+.. |docker_alerax| image:: https://quay.io/repository/biocontainers/alerax/status
+   :target: https://quay.io/repository/biocontainers/alerax
+.. _`alerax/tags`: https://quay.io/repository/biocontainers/alerax?tab=tags
+
+
+.. raw:: html
+
+    <script>
+        var package = "alerax";
+        var versions = ["1.4.0"];
+    </script>
+
+
+
+
+
+
+Download stats
+-----------------
+
+.. raw:: html
+    :file: ../../templates/package_dashboard.html
+
+Link to this page
+-----------------
+
+Render an |install-with-bioconda| badge with the following MarkDown::
+
+   [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/alerax/README.html)
+
+.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
+   :target: http://bioconda.github.io/recipes/alerax/README.html

_sources/recipes/aletsch/README.rst.txt

@@ -41,7 +41,7 @@ aletsch
 
 
    :depends on boost-cpp: 
-   :depends on htslib: ``>=1.21,<1.24.0a0``
+   :depends on htslib: ``>=1.21,<1.22.0a0``
    :depends on libgcc: ``>=13``
    :depends on libstdcxx: ``>=13``
 

_sources/recipes/alignstats/README.rst.txt

@@ -41,7 +41,7 @@ alignstats
 
 
    :depends on htslib: ``>1.4``
-   :depends on htslib: ``>=1.21,<1.24.0a0``
+   :depends on htslib: ``>=1.21,<1.22.0a0``
    :depends on libgcc: ``>=13``
 
    :additional platforms:

_sources/recipes/amaranth-assembler/README.rst.txt

@@ -33,7 +33,7 @@ amaranth-assembler
 
 
    :depends on _openmp_mutex: ``>=4.5``
-   :depends on htslib: ``>=1.22.1,<1.24.0a0``
+   :depends on htslib: ``>=1.22.1,<1.23.0a0``
    :depends on libgcc: ``>=13``
    :depends on libstdcxx: ``>=13``
    :depends on libxcrypt: ``>=4.4.36``

_sources/recipes/amplisim/README.rst.txt

@@ -33,7 +33,7 @@ amplisim
 
 
    :depends on bzip2: ``>=1.0.8,<2.0a0``
-   :depends on libcurl: ``>=8.10.1,<9.0a0``
+   :depends on libcurl: ``>=8.11.1,<9.0a0``
    :depends on libdeflate: ``>=1.22,<1.23.0a0``
    :depends on libgcc: ``>=13``
    :depends on liblzma: ``>=5.6.3,<6.0a0``

_sources/recipes/angsd/README.rst.txt

@@ -42,7 +42,7 @@ angsd
 
 
    :depends on bzip2: ``>=1.0.8,<2.0a0``
-   :depends on htslib: ``>=1.21,<1.24.0a0``
+   :depends on htslib: ``>=1.21,<1.22.0a0``
    :depends on libgcc: ``>=13``
    :depends on liblzma: ``>=5.6.3,<6.0a0``
    :depends on libstdcxx: ``>=13``