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comparison stoceps_macros.xml @ 0:df3ce23d0d23 draft

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"planemo upload for repository https://github.com/Alanamosse/Galaxy-E/tree/stoctool/tools/stoc commit f82f897ab22464de40c878e17616333855814e25"
author ecology
date Thu, 02 Apr 2020 03:32:56 -0400
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children a961be0a964f
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-1:000000000000 0:df3ce23d0d23
1 <macros>
2 <token name="@VERSION@">0.0.1</token>
3 <xml name="reshape_requirements">
4 <requirements>
5 <requirement type="package" version="0.8.8">r-reshape</requirement>
6 <requirement type="package" version="1.12.0">r-data.table</requirement>
7 </requirements>
8 </xml>
9 <xml name="reshape2_requirements">
10 <requirements>
11 <requirement type="package" version="1.4.3">r-reshape2</requirement>
12 </requirements>
13 </xml>
14 <xml name="mainglm_requirements">
15 <requirements>
16 <requirement type="package" version="3.0.0">r-ggplot2</requirement>
17 <requirement type="package" version="0.3_2">r-speedglm</requirement>
18 <requirement type="package" version="1.10_1">r-arm</requirement>
19 <requirement type="package" version="1.12.0">r-data.table</requirement>
20 <requirement type="package" version="1.4.3">r-reshape2</requirement>
21 </requirements>
22 </xml>
23 <xml name="temp_indic_requirements">
24 <requirements>
25 <requirement type="package" version="1.3_15">r-rodbc</requirement>
26 <requirement type="package" version="0.8.8">r-reshape</requirement>
27 <requirement type="package" version="1.12.0">r-data.table</requirement>
28 <requirement type="package" version="1.4_3">r-rgdal</requirement>
29 <requirement type="package" version="1.7.4">r-lubridate</requirement>
30 <requirement type="package" version="4.6_2">r-doby</requirement>
31 <requirement type="package" version="1.10_1">r-arm</requirement>
32 <requirement type="package" version="3.1.0">r-ggplot2</requirement>
33 <requirement type="package" version="1.0.0">r-scales</requirement>
34 <requirement type="package" version="1.8_24">r-mgcv</requirement>
35 <requirement type="package" version="1.8.4">r-plyr</requirement>
36 <requirement type="package" version="0.3_2">r-speedglm</requirement>
37 <requirement type="package" version="3.1_0">r-lmertest</requirement>
38 <requirement type="package" version="0.2.3">r-glmmtmb</requirement>
39 </requirements>
40 </xml>
41 <xml name="stoceps_input_filtered">
42 <param name="input" type="data" format="tabular" label="Stoc filtered input" help="Input Stoc count file, shaped and filtered with the 'preprocess population data' and 'filter species' tools." />
43 </xml>
44 <xml name="stoceps_advanced_params_select">
45 <param name="advanced" type="select" label="Specify advanced parameters">
46 <option value="simple" selected="true">No, use program defaults.</option>
47 <option value="advanced">Yes, see full parameter list.</option>
48 </param>
49 <when value="simple">
50 </when>
51 </xml>
52 <xml name="stoceps_compute_ic">
53 <param name="compute_ic" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="yes" label="Compute confidence intervals"/>
54 </xml>
55 <xml name="stoceps_filter_glmmtmb">
56 <filter> settings['advanced'] == 'advanced'</filter>
57 <filter> settings['method'] == 'glmmtmb'</filter>
58 </xml>
59 <xml name="stoceps_filter_gam">
60 <filter> settings['method'] == 'gam'</filter>
61 </xml>
62 <xml name="stoceps_bibref">
63 <citations>
64 <citation type="bibtex">
65 @unpublished{stocepsromain,
66 title={Vigie-Nature STOC unpublished scripts},
67 author={Lorrilliere, R},
68 url={http://www.vigienature.fr/sites/vigienature/files/atoms/files/analysestoceps_0.zip}
69 }
70 </citation>
71 </citations>
72 </xml>
73 </macros>