Update links and dockerfiles

README.md

@@ -1,11 +1,12 @@
 # GLUE (Graph-Linked Unified Embedding)
 
-[![license-badge](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
+[![Stars](https://img.shields.io/github/stars/gao-lab/GLUE?logo=GitHub&color=yellow)](https://github.com/gao-lab/GLUE/stargazers)
 [![pypi-badge](https://img.shields.io/pypi/v/scglue)](https://pypi.org/project/scglue)
 [![conda-badge](https://anaconda.org/bioconda/scglue/badges/version.svg)](https://anaconda.org/bioconda/scglue)
 [![docs-badge](https://readthedocs.org/projects/scglue/badge/?version=latest)](https://scglue.readthedocs.io/en/latest/?badge=latest)
 [![build-badge](https://github.com/gao-lab/GLUE/actions/workflows/build.yml/badge.svg)](https://github.com/gao-lab/GLUE/actions/workflows/build.yml)
 [![coverage-badge](https://img.shields.io/endpoint?url=https://gist.githubusercontent.com/Jeff1995/e704b2f886ff6a37477311b90fdf7efa/raw/coverage.json)](https://github.com/gao-lab/GLUE/actions/workflows/build.yml)
+[![license-badge](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
 
 Graph-linked unified embedding for single-cell multi-omics data integration
 
@@ -55,6 +56,8 @@ pip install scglue
 Please checkout the documentations and tutorials at
 [scglue.readthedocs.io](https://scglue.readthedocs.io).
 
+A Chinese version is also available [here](https://scglue.readthedocs.io/zh_CN/latest/).
+
 ## Development
 
 Install scglue in editable form via flit (first install flit via conda or pip

docker/cpu/Dockerfile

@@ -1,3 +1,4 @@
-FROM continuumio/miniconda3
-RUN conda install -c conda-forge -c bioconda -y faiss-cpu pytorch-cpu plotly scglue
-RUN conda clean -a -y
+FROM mambaorg/micromamba
+RUN micromamba install -y -n base -c conda-forge -c bioconda \
+    faiss-cpu pytorch-cpu plotly scglue && \
+    micromamba clean -y -a

docker/gpu/Dockerfile

@@ -1,3 +1,4 @@
-FROM gpuci/miniconda-cuda:11.5-base-ubuntu20.04
-RUN conda install -c conda-forge -c bioconda -y faiss-gpu pytorch-gpu plotly scglue
-RUN conda clean -a -y
+FROM mambaorg/micromamba
+RUN micromamba install -y -n base -c conda-forge -c bioconda \
+    faiss-gpu pytorch-gpu plotly scglue && \
+    micromamba clean -y -a

docs/index.rst

@@ -20,6 +20,8 @@ To get started with ``scglue``, check out the `installation guide <install.rst>`
 
 For more details about the GLUE framework, please check out our `publication <https://doi.org/10.1038/s41587-022-01284-4>`__.
 
+For a Chinese version of this documentation, please visit `https://scglue.readthedocs.io/zh_CN/latest/ <https://scglue.readthedocs.io/zh_CN/latest/>`__.
+
 .. toctree::
    :maxdepth: 2
    :caption: Contents:

docs/locale/zh_CN/LC_MESSAGES/index.po

@@ -7,14 +7,14 @@ msgid ""
 msgstr ""
 "Project-Id-Version: scglue 0.2.3\n"
 "Report-Msgid-Bugs-To: \n"
-"POT-Creation-Date: 2022-08-09 10:12+0800\n"
+"POT-Creation-Date: 2022-08-28 14:24+0800\n"
 "Last-Translator: Pei-Wen Ji <[email protected]>\n"
 "MIME-Version: 1.0\n"
 "Content-Type: text/plain; charset=utf-8\n"
 "Content-Transfer-Encoding: 8bit\n"
 "Generated-By: Babel 2.10.3\n"
 
-#: ../../index.rst:23
+#: ../../index.rst:25
 msgid "Contents:"
 msgstr "目录："
 
@@ -77,14 +77,23 @@ msgstr ""
 "关于 GLUE 框架的更多细节，请查看我们的 `论文 "
 "<https://doi.org/10.1038/s41587-022-01284-4>`__。"
 
-#: ../../index.rst:36
+#: ../../index.rst:23
+msgid ""
+"For a Chinese version of this documentation, please visit "
+"`https://scglue.readthedocs.io/zh_CN/latest/ "
+"<https://scglue.readthedocs.io/zh_CN/latest/>`__."
+msgstr ""
+"如果要查看本文档的英文版本，请访问 `https://scglue.readthedocs.io "
+"<https://scglue.readthedocs.io>`__。"
+
+#: ../../index.rst:38
 msgid "Indices and tables"
 msgstr "索引和表格"
 
-#: ../../index.rst:38
+#: ../../index.rst:40
 msgid ":ref:`genindex`"
 msgstr ""
 
-#: ../../index.rst:39
+#: ../../index.rst:41
 msgid ":ref:`modindex`"
 msgstr ""

docs/locale/zh_CN/LC_MESSAGES/release.po

@@ -93,12 +93,12 @@ msgstr "增强功能："
 
 #: ../../release.rst:30
 msgid ""
-"Modularized `scglue.dx.integration_consistency "
-"<api/scglue.dx.integration_consistency.rst>`__ to allow for non-raw-count"
+"Modularized `scglue.models.integration_consistency "
+"<api/scglue.models.dx.integration_consistency.rst>`__ to allow for non-raw-count"
 " input (Resolves `#30 <https://github.com/gao-lab/GLUE/issues/30>`__)."
 msgstr ""
-"将 `scglue.dx.integration_consistency "
-"<api/scglue.dx.integration_consistency.rst>`__ 函数模块化以支持非原始计数的输入（解决了 `#30 "
+"将 `scglue.models.integration_consistency "
+"<api/scglue.models.dx.integration_consistency.rst>`__ 函数模块化以支持非原始计数的输入（解决了 `#30 "
 "<https://github.com/gao-lab/GLUE/issues/30>`__）。"
 
 #: ../../release.rst:31

docs/release.rst

@@ -27,7 +27,7 @@ New features:
 
 Enhancements:
 
-- Modularized `scglue.dx.integration_consistency <api/scglue.dx.integration_consistency.rst>`__ to allow for non-raw-count input (Resolves `#30 <https://github.com/gao-lab/GLUE/issues/30>`__).
+- Modularized `scglue.models.integration_consistency <api/scglue.models.dx.integration_consistency.rst>`__ to allow for non-raw-count input (Resolves `#30 <https://github.com/gao-lab/GLUE/issues/30>`__).
 - Added documentation translation in Chinese.
 
 v0.2.3