Mercurial > repos > iuc > spyboat
diff spyboat.xml @ 1:639d2031d998 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/spyboat commit 88e9d9a220d160f55e0472719bb463143a4eefa5"
author | iuc |
---|---|
date | Mon, 30 Nov 2020 21:11:23 +0000 |
parents | 76733d05d8ef |
children | 4626a83601d4 |
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--- a/spyboat.xml Sat Nov 28 13:45:34 2020 +0000 +++ b/spyboat.xml Mon Nov 30 21:11:23 2020 +0000 @@ -1,5 +1,5 @@ -<tool id="spyboat" name="SpyBOAT" version="@TOOL_VERSION@" profile="20.01" license="GPL-3.0-or-later"> -<description>wavelet transforms image stacks</description> +<tool id="spyboat" name="SpyBOAT" version="@TOOL_VERSION@" profile="20.01" license="GPL-3.0-or-later"> +<description>wavelet analyzes image stacks</description> <macros> <token name="@TOOL_VERSION@">0.1.1</token> </macros> @@ -75,21 +75,21 @@ argparse parser in spyboat_cli.py --> <section name="PreProc" title="Preprocessing" expanded="true"> - <param argument="gauss_sigma" type="float" min="0" max="9999999" optional="true" label="Sigma" + <param argument="gauss_sigma" type="float" min="0" max="100" optional="true" label="Sigma" help="Width of the Gaussian smoothing kernel, leave blank if no pre-smoothing desired" /> <param argument="rescale_factor" type="integer" value="" min="0" max="99" optional="true" label="Rescale factor" help="Downsamples the input movie by this factor given in %, leave blank to disable downsampling" /> </section> <section name="wavana" title="Wavelet Analysis" expanded="true"> - <param name="dt" type="float" value="1" min="0" max="9999999" label="Sampling interval" help="Time span between two frames" /> - <param name="tmin" type="float" value="20" min="0" max="9999999" label="Smallest period" help="Lowest period for the wavelet transform" /> - <param name="tmax" type="float" value="30" min="0" max="9999999" label="Largest period" + <param name="dt" type="float" value="1" min="0" max="1000" label="Sampling interval" help="Time span between two frames" /> + <param name="tmin" type="float" value="20" min="0" max="2000" label="Smallest period" help="Lowest period for the wavelet transform" /> + <param name="tmax" type="float" value="30" min="0" max="10000" label="Largest period" help="Largest period for the wavelet transform" /> - <param name="nt" type="integer" value="150" min="0" max="9999999" label="Number of periods to scan for" + <param name="nt" type="integer" value="150" min="0" max="1000" label="Number of periods to scan for" help="Determines period resolution of the Wavelet power spectra" /> - <param name="tcutoff" type="float" value="40" min="0" max="9999999" label="T cutoff" + <param name="tcutoff" type="float" value="40" min="0" max="10000" label="T cutoff" help="Cut-off-period for sinc filter detrending, a blank field disables detrending" optional="true" /> - <param name="win_size" type="float" value="" min="0" max="9999999" optional="true" label="Sliding window size" + <param name="win_size" type="float" value="" min="0" max="10000" optional="true" label="Sliding window size" help="Window size for amplitude envelope estimation, leave blank to disable normalization" /> </section> <conditional name="masking"> @@ -100,17 +100,17 @@ </param> <when value="no_masking" /> <when value="create_static_mask"> - <param name="mask_frame" type="integer" value="1" min="1" max="99999" label="Create mask from frame" + <param name="mask_frame" type="integer" value="1" min="1" max="5000" label="Create mask from frame" help="Creates a static mask from the chosen frame of the input movie." /> - <param name="mask_thresh" type="float" value="0" min="0" max="999999" label="Threshold" + <param name="mask_thresh" type="float" value="0" min="0" max="65000" label="Threshold" help="All pixels below this threshold will be masked in the output." /> </when> <when value="create_dynamic_mask"> - <param name="mask_thresh" type="float" value="0" min="0" max="999999" label="Threshold" + <param name="mask_thresh" type="float" value="0" min="0" max="65000" label="Threshold" help="For each frame of the input, all pixels below this threshold will be masked in the output." /> </when> </conditional> - <param name="outputs" type="select" optional="true" multiple="true" label="Select optional outputs" help=""> + <param name="outputs" type="select" optional="true" multiple="true" label="Select optional outputs" help="" display="checkboxes"> <option value="save_phase">Phase Movie</option> <option value="save_period">Period Movie</option> <option value="save_amplitude">Amplitude Movie</option> @@ -121,19 +121,19 @@ <outputs> <data name="phase_out" format="tiff" label="${movie.name[:-4]}_phase"> - <filter>'save_phase' in ouputs</filter> + <filter>outputs and 'save_phase' in outputs</filter> </data> <data name="period_out" format="tiff" label="${movie.name[:-4]}_period"> - <filter>'save_period' in outputs</filter> + <filter>outputs and 'save_period' in outputs</filter> </data> <data name="power_out" format="tiff" label="${movie.name[:-4]}_power"> - <filter>'save_power' in outputs</filter> + <filter>outputs and "save_power" in outputs</filter> </data> <data name="amplitude_out" format="tiff" label="${movie.name[:-4]}_amplitude"> - <filter>'save_amplitude' in outputs</filter> + <filter>outputs and 'save_amplitude' in outputs</filter> </data> <data name="preprocessed_out" format="tiff" label="${movie.name[:-4]}_preproc"> - <filter>'save_preprocessed' in outputs</filter> + <filter>outputs and 'save_preprocessed' in outputs</filter> </data> <data name="html_out" format="html" label="Report ${movie.name[:-4]}" /> </outputs> @@ -168,7 +168,6 @@ <has_size value="1764430" delta="100" /> </assert_contents> </output> - <output name="html_out" file="output1.html" ftype="html"/> </test> <test expect_num_outputs="4"> <section name="wavana"> @@ -186,7 +185,6 @@ <has_size value="1764430" delta="100" /> </assert_contents> </output> - <output name="html_out" file="output1.html" ftype="html"/> </test> </tests> <help><![CDATA[