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planemo upload for repository https://github.com/esg-epfl-apc/tools-astro/tree/main/tools commit f28a8cb73a7f3053eac92166867a48b3d4af28fd
| author | astroteam |
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| date | Fri, 25 Apr 2025 21:48:27 +0000 |
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<tool id="plot_tools_astro_tool" name="Plot Tools" version="0.0.1+galaxy0" profile="24.0"> <requirements> <requirement type="package" version="2.2.3">pandas</requirement> <requirement type="package" version="3.9.2">matplotlib</requirement> <requirement type="package" version="5.3">astropy</requirement> <requirement type="package" version="1.2.37">oda-api</requirement> <requirement type="package" version="1.2">gammapy</requirement> <requirement type="package" version="9.1.0">ipython</requirement> </requirements> <command detect_errors="exit_code">python '$__tool_directory__/${C_data_product_.DPselector_}.py'</command> <environment_variables> <environment_variable name="BASEDIR">$__tool_directory__</environment_variable> <environment_variable name="GALAXY_TOOL_DIR">$__tool_directory__</environment_variable> </environment_variables> <configfiles> <inputs name="inputs" filename="inputs.json" data_style="paths" /> </configfiles> <inputs> <conditional name="C_data_product_"> <param name="DPselector_" type="select" label="Data Product"> <option value="light_curve" selected="true">light_curve</option> <option value="spectrum" selected="false">spectrum</option> <option value="sky_plot" selected="false">sky_plot</option> </param> <when value="light_curve"> <param name="fn" type="data" label="fn" format="data" optional="false" /> <param name="skiprows" type="integer" value="0" label="skiprows" optional="false" /> <param name="sep" type="select" label="sep" optional="false"> <option value="comma">comma</option> <option value="semicolon">semicolon</option> <option value="space">space</option> <option value="tab">tab</option> <option value="whitespace" selected="true">whitespace</option> </param> <param name="column" type="text" value="T" label="column" optional="false" /> <param name="weight_col" type="text" value="" label="weight_col" optional="false" /> <param name="binning" type="select" label="binning" optional="false"> <option value="linear">linear</option> <option value="logarithmic" selected="true">logarithmic</option> </param> <param name="minval" type="float" value="0" label="minval" optional="false" /> <param name="maxval" type="float" value="0" label="maxval" optional="false" /> <param name="use_quantile_values" type="boolean" label="use_quantile_values" optional="false" /> <param name="nbins" type="integer" value="15" label="nbins" optional="false" /> <param name="xlabel" type="text" value="time, s" label="xlabel" optional="false" /> <param name="ylabel" type="text" value="Ncounts" label="ylabel" optional="false" /> <param name="plot_mode" type="select" label="plot_mode" optional="false"> <option value="counts">counts</option> <option value="flux" selected="true">flux</option> </param> </when> <when value="spectrum"> <param name="fn" type="data" label="fn" format="data" optional="false" /> <param name="skiprows" type="integer" value="0" label="skiprows" optional="false" /> <param name="sep" type="select" label="sep" optional="false"> <option value="auto">auto</option> <option value="comma">comma</option> <option value="semicolon">semicolon</option> <option value="tab">tab</option> <option value="whitespace" selected="true">whitespace</option> </param> <param name="column" type="text" value="c1" label="column" optional="false" /> <param name="weight_col" type="text" value="" label="weight_col" optional="false" /> <param name="binning" type="select" label="binning" optional="false"> <option value="linear">linear</option> <option value="logarithmic" selected="true">logarithmic</option> </param> <param name="minval" type="float" value="0" label="minval" optional="false" /> <param name="maxval" type="float" value="0" label="maxval" optional="false" /> <param name="nbins" type="integer" value="15" label="nbins" optional="false" /> <param name="xlabel" type="text" value="Energy, [eV]" label="xlabel" optional="false" /> <param name="ylabel" type="text" value="Flux E^2, [eV]" label="ylabel" optional="false" /> <param name="spec_power" type="float" value="2.0" label="spec_power" optional="false" /> </when> <when value="sky_plot"> <param name="fn" type="data" label="fn" format="data" optional="false" /> <param name="skiprows" type="integer" value="0" label="skiprows" optional="false" /> <param name="sep" type="select" label="sep" optional="false"> <option value="auto">auto</option> <option value="comma">comma</option> <option value="semicolon">semicolon</option> <option value="tab">tab</option> <option value="whitespace" selected="true">whitespace</option> </param> <param name="ra_col" type="text" value="c3" label="ra_col" optional="false" /> <param name="dec_col" type="text" value="c4" label="dec_col" optional="false" /> <param name="weight_col" type="text" value="" label="weight_col" optional="false" /> <param name="binsz" type="float" value="0.02" label="binsz" optional="false" /> <param name="window_size_RA" type="float" value="2.0" label="window_size_RA" optional="false" /> <param name="window_size_DEC" type="float" value="2.0" label="window_size_DEC" optional="false" /> </when> </conditional> </inputs> <outputs> <data label="${tool.name} -> light_curve histogram_data" name="out_light_curve_histogram_data" format="auto" from_work_dir="histogram_data_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'light_curve'</filter> </data> <data label="${tool.name} -> light_curve histogram_picture" name="out_light_curve_histogram_picture" format="auto" from_work_dir="histogram_picture_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'light_curve'</filter> </data> <data label="${tool.name} -> spectrum histogram_data" name="out_spectrum_histogram_data" format="auto" from_work_dir="histogram_data_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'spectrum'</filter> </data> <data label="${tool.name} -> spectrum histogram_picture" name="out_spectrum_histogram_picture" format="auto" from_work_dir="histogram_picture_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'spectrum'</filter> </data> <data label="${tool.name} -> sky_plot plot" name="out_sky_plot_plot" format="auto" from_work_dir="plot_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'sky_plot'</filter> </data> <data label="${tool.name} -> sky_plot fits_image" name="out_sky_plot_fits_image" format="auto" from_work_dir="fits_image_galaxy.output"> <filter>C_data_product_['DPselector_'] == 'sky_plot'</filter> </data> </outputs> <tests> <test expect_num_outputs="2"> <conditional name="C_data_product_"> <param name="DPselector_" value="light_curve" /> <param name="fn" location="https://gitlab.renkulab.io/astronomy/mmoda/plot-tools/-/raw/57cc7b8180fa6c1a286114a9e7b903923f786631/data.tsv" /> <param name="skiprows" value="0" /> <param name="sep" value="whitespace" /> <param name="column" value="T" /> <param name="weight_col" value="" /> <param name="binning" value="logarithmic" /> <param name="minval" value="0" /> <param name="maxval" value="0" /> <param name="use_quantile_values" value="False" /> <param name="nbins" value="15" /> <param name="xlabel" value="time, s" /> <param name="ylabel" value="Ncounts" /> <param name="plot_mode" value="flux" /> </conditional> <assert_stdout> <has_text text="*** Job finished successfully ***" /> </assert_stdout> </test> <test expect_num_outputs="2"> <conditional name="C_data_product_"> <param name="DPselector_" value="spectrum" /> <param name="fn" location="https://gitlab.renkulab.io/astronomy/mmoda/plot-tools/-/raw/57cc7b8180fa6c1a286114a9e7b903923f786631/data.tsv" /> <param name="skiprows" value="0" /> <param name="sep" value="whitespace" /> <param name="column" value="c1" /> <param name="weight_col" value="" /> <param name="binning" value="logarithmic" /> <param name="minval" value="0" /> <param name="maxval" value="0" /> <param name="nbins" value="15" /> <param name="xlabel" value="Energy, [eV]" /> <param name="ylabel" value="Flux E^2, [eV]" /> <param name="spec_power" value="2.0" /> </conditional> <assert_stdout> <has_text text="*** Job finished successfully ***" /> </assert_stdout> </test> <test expect_num_outputs="2"> <conditional name="C_data_product_"> <param name="DPselector_" value="sky_plot" /> <param name="fn" location="https://gitlab.renkulab.io/astronomy/mmoda/plot-tools/-/raw/57cc7b8180fa6c1a286114a9e7b903923f786631/data.tsv" /> <param name="skiprows" value="0" /> <param name="sep" value="whitespace" /> <param name="ra_col" value="c3" /> <param name="dec_col" value="c4" /> <param name="weight_col" value="" /> <param name="binsz" value="0.02" /> <param name="window_size_RA" value="2.0" /> <param name="window_size_DEC" value="2.0" /> </conditional> <assert_stdout> <has_text text="*** Job finished successfully ***" /> </assert_stdout> </test> </tests> <help>Plot Tools ========== Set of tools for astronomical data visualization - sky_plot - visualize sky map using set of events as input - light_cure - calculate and visualize light curve from a set of evebts - spectrum - calculate energy spectrum using set of events as input Parameters ---------- common parameters ~~~~~~~~~~~~~~~~~ fn - input data file skiprows - number of rows to skip sep - separator value sky_plot parameters ~~~~~~~~~~~~~~~~~~~ ra_col - RA column (either column name of string cXX, where XX >= 1 is column number) dec_col - DEC column (either column name of string cXX, where XX >= 1 is column number) weight_col - weight column (either column name of string cXX, where XX >= 1 is column number, or empty string if data doesn’t contain weights) binsz - bin size in degrees window_size_RA - size of window (RA) in degrees window_size_DEC - size of window (DEC) in degrees light_cure parameters ~~~~~~~~~~~~~~~~~~~~~ column - time column (either column name of string cXX, where XX >= 1 is column number) weight_col - weight column (either column name of string cXX, where XX >= 1 is column number, or empty string if data doesn’t contain weights) binning - binning type (‘logarithmic’ or “linear”) minval - minimal value (use 0 to infer from data) maxval - maximal value (use 0 to infer from data) use_quantile_values - interpret minval and maxval as quantiles nbins=15 - number of bins xlabel - plot x-label ylabel - plot y-label plot_mode - plotting mode (“counts” or “flux”) spectrum parameters ~~~~~~~~~~~~~~~~~~~ column - energy column (either column name of string cXX, where XX >= 1 is column number) weight_col- weight column (either column name of string cXX, where XX >= 1 is column number, or empty string if data doesn’t contain weights) binning - binning type (‘logarithmic’ or “linear”) minval - minimal value (use 0 to infer from data) maxval - maximal value (use 0 to infer from data) nbins - number of bins xlabel - plot x-label ylabel - plot y-label spec_power - multiply spectrum by energy in this power on plot </help> <citations> <citation type="bibtex">@misc{label, title = {Tool repository}, url = {https://renkulab.io/projects/astronomy/mmoda/plot-tools}, author = {Oleg Kalashev}, year = {2024}, note = {} }</citation> </citations> </tool>