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Merge pull request #72 from blankenberg/patch-1

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Add API_KEY, GALAXY_URL, and fix HISTORY_ID envars
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Björn Grüning
2019-08-12 19:04:28 +02:00
committed by GitHub
parent 3689d857df 29e1173f6c
commit 717d94997c
1 changed files with 16 additions and 10 deletions
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test/functional/tools/interactive_tool_juypter_notebook.xml
+16 -10
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@@ -2,11 +2,6 @@
<requirements>
<container type="docker">bgruening/docker-jupyter-notebook:ie2</container>
</requirements>
HISTORY_ID
<entry_points>
<entry_point name="Jupyter Interactive Tool">
<port>8888</port>
@@ -14,14 +9,25 @@ HISTORY_ID
</entry_point>
</entry_points>
<environment_variables>
<environment_variable name="HISTORY_ID">${__app__.security.encode_id($jupyter_notebook.history_id)}</environment_variable>
<environment_variable name="HISTORY_ID" strip="True">
#if $jupyter_notebook:
${__app__.security.encode_id($jupyter_notebook.history_id)}
#else:
${__app__.security.encode_id($out_file1.history_id)}
#end if
</environment_variable>
<environment_variable name="REMOTE_HOST">TODO</environment_variable>
<environment_variable name="GALAXY_URL">TODO</environment_variable>
<environment_variable name="API_KEY">TODO</environment_variable>
<environment_variable name="GALAXY_URL">${__app__.config.galaxy_infrastructure_url}</environment_variable>
<environment_variable name="API_KEY" strip="True">
#if $__user__:
#for $api_key in $__user__.api_keys:
${api_key.key}
#break
#end for
#end if
</environment_variable>
</environment_variables>
<command detect_errors="aggressive"><![CDATA[
#import re
export GALAXY_WORKING_DIR=`pwd` &&
mkdir -p ./jupyter/outputs/ &&