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[Networking] Adding user defined parameter for the level of parallelism we could allow #741

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[Networking] Adding user defined parameter for the level of parallelism we could allow #741

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e9f4290
adding user defined parameter for the level of parallelism we could a…
mwang87 Jun 29, 2021
32c6957
updating
mwang87 Jun 29, 2021
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2 changes: 1 addition & 1 deletion metabolomics-snets-v2/Makefile
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Expand Up @@ -3,6 +3,6 @@ include ../Makefile.deploytemplate

WORKFLOW_NAME=metabolomics-snets-v2
TOOL_FOLDER_NAME=metabolomicsnetsv2
WORKFLOW_VERSION=release_28.2
WORKFLOW_VERSION=release_29
WORKFLOW_DESCRIPTION="Molecular networks are visual displays of the chemical space present in tandem mass spectrometry (MS/MS) experiments. This visualization approach can detect sets of spectra from related molecules (molecular networks), even when the spectra themselves are not matched to any known compounds. Classical molecular networking is well suited for discovery and can be analyzed directly from raw mass spectrometry files. Feature-based Molecular Networking (FBMN) is better when quantification analysis is necessary, but requires preprocessing with feature finding tools."

24 changes: 24 additions & 0 deletions metabolomics-snets-v2/metabolomics-snets-v2/input.xml
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Expand Up @@ -208,6 +208,12 @@
<default value="0"/>
</parameter>


<parameter name="MAXNETWORKINGPARALLELISM" label="Maxmimum Networking Parallelism">
<default value="50"/>
<validator type="integer" minimumExclusive="0" maximum="100"/>
</parameter>

</parameters>


Expand Down Expand Up @@ -851,4 +857,22 @@
</cell>
</row>
</block>

<block label="Advanced Compute Options">
<row>
<cell>
<label>
<content parameter="MAXNETWORKINGPARALLELISM"/>
</label>
</cell>

<cell>
<input type="text" parameter="MAXNETWORKINGPARALLELISM">
<attribute name="size" value="10"/>
</input>
</cell>
</row>
</block>


</interface>
2 changes: 1 addition & 1 deletion metabolomics-snets-v2/metabolomics-snets-v2/tool.xml
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Expand Up @@ -100,7 +100,7 @@
<arg valueRef="mgf_file"/>
<arg valueRef="workflowParameters"/>
<arg valueRef="networking_parameters"/>
<arg option="-parallelism" value="100"/>
<arg option="-parallelism" valueRef="@MAXNETWORKINGPARALLELISM"/>
</execution>
</tool>

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