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some pyiron fixes from EU

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Bjoern Gruening
2021-03-05 09:55:20 +01:00
parent 56af70cdc1
commit ef5c9cd9e0
1 changed files with 8 additions and 10 deletions
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tools/interactive/interactivetool_pyiron.xml
+8 -10
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@@ -13,8 +13,8 @@
<environment_variable name="REMOTE_HOST">$__galaxy_url__</environment_variable>
<environment_variable name="GALAXY_WEB_PORT">8080</environment_variable>
<environment_variable name="GALAXY_URL">$__galaxy_url__</environment_variable>
<environment_variable name="API_KEY" inject="api_key" />
<environment_variable name="PYIRONRESOURCEPATHS">/home/jovyan/resources</environment_variable>
<environment_variable name="API_KEY" inject="api_key"/>
<environment_variable name="PYIRONRESOURCEPATHS">/opt/conda/share/pyiron/</environment_variable>
</environment_variables>
<command detect_errors="aggressive"><![CDATA[
#import re
@@ -54,7 +54,6 @@
]]>
</command>
<inputs>
<conditional name="mode">
<param name="mode_select" type="select" label="Do you already have a notebook?" help="If not, no problem we will provide you with a default one.">
<option value="scratch">Start with a fresh notebook</option>
@@ -63,21 +62,19 @@
<when value="scratch"/>
<when value="previous">
<param name="ipynb" type="data" format="ipynb" label="IPython Notebook"/>
<param name="run_it" type="boolean" truevalue="true" falsevalue="false" label="Execute notebook and return a new one."
help="This option is useful in workflows when you just want to execute a notebook and not dive into the webfrontend."/>
<param name="run_it" type="boolean" truevalue="true" falsevalue="false" label="Execute notebook and return a new one." help="This option is useful in workflows when you just want to execute a notebook and not dive into the webfrontend."/>
</when>
</conditional>
<param name="input" type="data" optional="true" label="Include data into the environment"/>
</inputs>
<outputs>
<data name="jupyter_notebook" format="ipynb" label="PyIron Workbench"></data>
<data name="jupyter_notebook" format="ipynb" label="PyIron Workbench"/>
</outputs>
<tests>
<test expect_num_outputs="1">
<param name="mode" value="previous" />
<param name="ipynb" value="test.ipynb" />
<param name="run_it" value="true" />
<param name="mode" value="previous"/>
<param name="ipynb" value="test.ipynb"/>
<param name="run_it" value="true"/>
<output name="jupyter_notebook" file="test.ipynb" ftype="ipynb"/>
</test>
</tests>
@@ -98,3 +95,4 @@
You can import data into the notebook via a predefined `get()` function and write results back to Galaxy with a `put()` function.
</help>
</tool>