Mercurial > repos > recetox > recetox_aplcms_generate_feature_table
comparison recetox_aplcms_generate_feature_table.xml @ 1:e8962c8340f4 draft
planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 4254c6f6f05915ceab5af5d7040ac2c44a8364b4
author | recetox |
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date | Mon, 03 Apr 2023 14:57:14 +0000 |
parents | 2810c956ec39 |
children | 477b5144a422 |
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0:2810c956ec39 | 1:e8962c8340f4 |
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30 #if $max_bandwidth: | 30 #if $max_bandwidth: |
31 max_bandwidth = $max_bandwidth, | 31 max_bandwidth = $max_bandwidth, |
32 #else: | 32 #else: |
33 max_bandwidth = NA, | 33 max_bandwidth = NA, |
34 #end if | 34 #end if |
35 sd_cut = c($sd_cut_min, $sd_cut_max), | 35 #if $advanced.sd_cut.sd_cut_bounds == "FALSE": |
36 #if $shape.shape_model == "bi-Gaussian": | 36 sd_cut = c($advanced.sd_cut.sd_cut_min, $advanced.sd_cut.sd_cut_max), |
37 sigma_ratio_lim = c($shape.sigma_ratio_lim_min, $shape.sigma_ratio_lim_max), | 37 #else |
38 #else: | 38 sd_cut = c(0, Inf), |
39 sigma_ratio_lim = NA, | |
40 #end if | 39 #end if |
41 shape_model = "$shape.shape_model", | 40 sigma_ratio_lim = determine_sigma_ratios($advanced.shape_model.sigma_ratio_lim_min, $advanced.shape_model.sigma_ratio_lim_max), |
42 peak_estim_method = "$peak_estim_method", | 41 shape_model = "bi-Gaussian", |
43 component_eliminate = $component_eliminate, | 42 peak_estim_method = "$advanced.peak_estim.peak_estim_method", |
44 moment_power = $moment_power, | 43 component_eliminate = $advanced.component_eliminate, |
44 #if $advanced.peak_estim.peak_estim_method == "moment": | |
45 moment_power = $advanced.peak_estim.moment_power, | |
46 #else | |
47 moment_power = 1, | |
48 #end if | |
45 BIC_factor = $BIC_factor, | 49 BIC_factor = $BIC_factor, |
46 do.plot = FALSE | 50 do.plot = FALSE |
47 ) | 51 ) |
48 | 52 |
49 feature_table <- save_sample_name(feature_table, sample_name) | 53 feature_table <- save_sample_name(feature_table, sample_name) |