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This commit is contained in:
Anup Kumar
2021-02-25 10:13:25 +00:00
parent b793fd82e1
commit 6ce7ef097b
1 changed files with 17 additions and 6 deletions
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tools/interactive/interactivetool_ml_jupyter_notebook.xml
+17 -6
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@@ -27,13 +27,24 @@
ln -sf '$input' './jupyter/data/${cleaned_name}' &&
## change into the directory where the notebooks are located
cd ./jupyter/ &&
##export PATH=/usr/local/bin:\$PATH &&
cp '$__tool_directory__/default_notebook_ml.ipynb' ./ipython_galaxy_notebook_ml.ipynb &&
cd ./jupyter/ &&
chown -R \$NB_USER:users `pwd` &&
##chown \$NB_USER ./ipython_galaxy_notebook_ml.ipynb &&
jupyter trust ./ipython_galaxy_notebook_ml.ipynb &&
/usr/local/bin/start-notebook.sh
##export PATH=/usr/local/bin:\$PATH &&
#if $mode.mode_select == 'scratch':
cp '$__tool_directory__/default_notebook_ml.ipynb' ./ipython_galaxy_notebook_ml.ipynb &&
jupyter trust ./ipython_galaxy_notebook_ml.ipynb &&
/usr/local/bin/start-notebook.sh
#else:
#set $cleaned_name = re.sub('[^\w\-\.]', '_', str($input.element_identifier))
cp '$mode.ipynb' ./${cleaned_name}.ipynb &&
jupyter trust ./${cleaned_name}.ipynb &&
#if $mode.run_it:
jupyter nbconvert --to notebook --execute --output ./ipython_galaxy_notebook_ml.ipynb --allow-errors ./*.ipynb &&
#else:
jupyter lab --allow-root --no-browser --NotebookApp.shutdown_button=True &&
#end if
cp ./ipython_galaxy_notebook_ml.ipynb '$jupyter_notebook'
#end if
##if $mode.mode_select == 'scratch':
## copy default notebook