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+++ b/sgwb_astro_tool.xml	Wed Apr 17 10:29:23 2024 +0000
@@ -0,0 +1,122 @@
+<tool id="sgwb_astro_tool" name="SGWB" version="0.0.1+galaxy0" profile="23.0">
+  <requirements>
+    <requirement type="package" version="8.22.2">ipython</requirement>
+    <requirement type="package" version="1.26.4">numpy</requirement>
+    <requirement type="package" version="3.8.4">matplotlib</requirement>
+    <requirement type="package" version="6.0.1">astropy</requirement>
+    <requirement type="package" version="2.2.2">pandas</requirement>
+    <requirement type="package" version="5.19.0">plotly</requirement>
+    <requirement type="package" version="1.13.0">scipy</requirement>
+    <requirement type="package" version="1.21.4">wget</requirement>
+    <requirement type="package" version="1.2.15">oda-api</requirement>
+    <!--Requirements string 'nb2workflow[cwl,service,rdf,mmoda]>=1.3.30 
+' can't be converted automatically. Please add the galaxy/conda requirement manually or modify the requirements file!-->
+    <requirement type="package" version="7.16.3">nbconvert</requirement>
+  </requirements>
+  <command detect_errors="exit_code">ipython '$__tool_directory__/${_data_product._selector}.py'</command>
+  <configfiles>
+    <inputs name="inputs" filename="inputs.json" data_style="paths" />
+  </configfiles>
+  <inputs>
+    <conditional name="_data_product">
+      <param name="_selector" type="select" label="Data Product">
+        <option value="Model_spectrum" selected="true">Model_spectrum</option>
+        <option value="Phase_transition_parameters" selected="false">Phase_transition_parameters</option>
+      </param>
+      <when value="Model_spectrum">
+        <param name="T_star" type="float" value="0.178" label="T_star (unit: GeV)" />
+        <param name="g_star" type="integer" value="20" label="g_star" />
+        <param name="alpha" type="float" value="1.0" label="alpha" />
+        <param name="beta_H" type="float" value="3.3" label="beta_H" />
+        <param name="epsilon_turb" type="integer" value="1" label="epsilon_turb" />
+        <param name="v_w" type="float" value="0.999" label="v_w" />
+        <param name="h" type="float" value="0.7" label="h" />
+      </when>
+      <when value="Phase_transition_parameters">
+        <param name="epsilon_turb" type="float" value="1.0" label="epsilon_turb" />
+      </when>
+    </conditional>
+  </inputs>
+  <outputs>
+    <data label="${tool.name} -&gt; Model_spectrum png" name="out_Model_spectrum_png" format="auto" from_work_dir="png_galaxy.output">
+      <filter>_data_product['_selector'] == 'Model_spectrum'</filter>
+    </data>
+    <data label="${tool.name} -&gt; Model_spectrum astropy_table" name="out_Model_spectrum_astropy_table" format="auto" from_work_dir="astropy_table_galaxy.output">
+      <filter>_data_product['_selector'] == 'Model_spectrum'</filter>
+    </data>
+    <data label="${tool.name} -&gt; Phase_transition_parameters B_lambdaB_png" name="out_Phase_transition_parameters_B_lambdaB_png" format="auto" from_work_dir="B_lambdaB_png_galaxy.output">
+      <filter>_data_product['_selector'] == 'Phase_transition_parameters'</filter>
+    </data>
+    <data label="${tool.name} -&gt; Phase_transition_parameters T_Beta_png" name="out_Phase_transition_parameters_T_Beta_png" format="auto" from_work_dir="T_Beta_png_galaxy.output">
+      <filter>_data_product['_selector'] == 'Phase_transition_parameters'</filter>
+    </data>
+    <data label="${tool.name} -&gt; Phase_transition_parameters Alpha_Beta_png" name="out_Phase_transition_parameters_Alpha_Beta_png" format="auto" from_work_dir="Alpha_Beta_png_galaxy.output">
+      <filter>_data_product['_selector'] == 'Phase_transition_parameters'</filter>
+    </data>
+    <data label="${tool.name} -&gt; Phase_transition_parameters Alpha_T_png" name="out_Phase_transition_parameters_Alpha_T_png" format="auto" from_work_dir="Alpha_T_png_galaxy.output">
+      <filter>_data_product['_selector'] == 'Phase_transition_parameters'</filter>
+    </data>
+  </outputs>
+  <tests>
+    <test expect_num_outputs="2">
+      <conditional name="_data_product">
+        <param name="_selector" value="Model_spectrum" />
+        <param name="T_star" value="0.178" />
+        <param name="g_star" value="20" />
+        <param name="alpha" value="1.0" />
+        <param name="beta_H" value="3.3" />
+        <param name="epsilon_turb" value="1" />
+        <param name="v_w" value="0.999" />
+        <param name="h" value="0.7" />
+      </conditional>
+      <assert_stdout>
+        <has_text text="*** Job finished successfully ***" />
+      </assert_stdout>
+    </test>
+    <test expect_num_outputs="4">
+      <conditional name="_data_product">
+        <param name="_selector" value="Phase_transition_parameters" />
+        <param name="epsilon_turb" value="1.0" />
+      </conditional>
+      <assert_stdout>
+        <has_text text="*** Job finished successfully ***" />
+      </assert_stdout>
+    </test>
+  </tests>
+  <help>This service provides a calculaiton of the power spectrum of Stochastic
+Gravitational Wave Backgorund (SGWB) from a first-order cosmological
+phase transition based on the parameterisations of `Roper Pol et
+al.&#160;(2023) &lt;https://arxiv.org/abs/2307.10744&gt;`__. The power spectrum
+includes two components: from the sound waves excited by collisions of
+bubbles of the new phase and from the turbulence that is induced by
+these collisions.
+
+The cosmological epoch of the phase transition is described by the
+temperature, ``T_star`` and by the number(s) of relativistic degrees of
+freedom, ``g_star`` that should be specified as parameters.
+
+The phase transition itself is characterised by phenomenological
+parameters, ``alpha``, ``beta_H`` and ``epsilon_turb``, the latent heat,
+the ratio of the Hubble radius to the bubble size at percolation and the
+fraction of the energy otuput of the phase transition that goes into
+turbulence.
+
+The tool ``Model spectrum`` outputs the power spectrum for fixed values
+of these parameters. The tool ``Phase transition parameters`` reproduces
+the constraints on the phase transition parameters from the Pulsar
+Timing Array gravitational wave detectors, reported by Boyer &amp; Neronov
+(2024), including the estimate of the cosmological magnetic field
+induced by turbulence.
+</help>
+  <citations>
+    <citation type="bibtex">@article{RoperPol:2023bqa,
+			author = {Roper Pol, A. and Neronov, A. and Caprini, C. and Boyer, T. and Semikoz, D.},
+			title = {{LISA and $\gamma$-ray telescopes as multi-messenger probes of a first-order cosmological phase transition}},
+			eprint = {2307.10744},
+			archivePrefix = {arXiv},
+			primaryClass = {astro-ph.CO},
+			month = {7},
+			year = {2023}
+		}</citation>
+  </citations>
+</tool>
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