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Fix review comments

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Anup Kumar
2021-09-09 10:25:08 +02:00
parent 212248b3e2
commit 582fb25567
1 changed files with 21 additions and 12 deletions
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tools/interactive/interactivetool_ml_jupyter_notebook.xml
+21 -12
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@@ -1,4 +1,4 @@
<tool id="interactive_tool_ml_jupyter_notebook" tool_type="interactive" name="GPU enabled Interactive Jupyter Notebook for Machine Learning" version="0.1">
<tool id="interactive_tool_ml_jupyter_notebook" tool_type="interactive" name="GPU enabled Interactive Jupyter Notebook for Machine Learning" version="0.1" profile="20.09">
<requirements>
<container type="docker">docker.io/anupkumar/docker-ml-jupyterlab:galaxy-integration</container>
</requirements>
@@ -48,7 +48,18 @@
jupyter trust ./notebooks/*.ipynb &&
jupyter trust ./elyra/*.ipynb &&
jupyter lab --allow-root --no-browser --NotebookApp.shutdown_button=True
#end if
#else:
#set $noteboook_name = re.sub('[^\w\-\.\s]', '_', str($mode.ipynb.element_identifier))
cp '$mode.ipynb' './${noteboook_name}.ipynb' &&
jupyter trust './${noteboook_name}.ipynb' &&
#if $mode.run_it:
jupyter nbconvert --to notebook --execute --output ./ipython_galaxy_notebook.ipynb --allow-errors ./*.ipynb &&
#set $noteboook_name = 'ipython_galaxy_notebook'
#else:
jupyter lab --allow-root --no-browser --NotebookApp.shutdown_button=True &&
#end if
cp './${noteboook_name}.ipynb' '$jupyter_notebook'
#end if
]]>
</command>
<inputs>
@@ -79,16 +90,14 @@
<output name="jupyter_notebook" file="test.ipynb" ftype="ipynb"/>
</test>
</tests>
<help>
JupyterLab is a next-generation web-based user interface for Project Jupyter. JupyterLab enables you to work with documents and activities such as Jupyter notebooks, text editors,
terminals, and custom components in a flexible, integrated, and extensible manner.
<help><![CDATA[
JupyterLab is a next-generation web-based user interface for Project Jupyter. JupyterLab enables you to work with documents and activities such as Jupyter notebooks, text editors,
terminals, and custom components in a flexible, integrated, and extensible manner.
Galaxy offers you to use Jupyter Lab directly in Galaxy accessing and interacting with Galaxy datasets as you like. A very common use-case is to
do the heavy lifting such as performing computation on GPUs and data reduction steps in Galaxy and the plotting and more `interactive` part on smaller datasets in Jupyter Lab.
Galaxy offers you to use Jupyter Lab directly in Galaxy accessing and interacting with Galaxy datasets as you like. A very common use-case is to
do the heavy lifting such as performing computation on GPUs and data reduction steps in Galaxy and the plotting and more `interactive` part on smaller datasets in Jupyter Lab.
You can start with a new Jupyter Lab notebook from scratch and wait until the job starts running. Running job will provide you a link which can be opened in the same or another
browser tab. This link opens Jupyter Lab notebook which can be used to prototype machine learning solutions.
</help>
You can start with a new Jupyter Lab notebook from scratch and wait until the job starts running. Running job will provide you a link which can be opened in the same or another
browser tab. This link opens Jupyter Lab notebook which can be used to prototype machine learning solutions.
]]></help>
</tool>