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Initial tool configs for qiime, most need work.
author Jim Johnson <jj@umn.edu>
date Sun, 17 Jul 2011 10:30:11 -0500
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1 <tool id="transform_coordinate_matrices" name="transform_coordinate_matrices" version="1.2.0">
2 <description>Transform 2 coordinate matrices</description>
3 <requirements>
4 <requirement type="binary">transform_coordinate_matrices.py</requirement>
5 </requirements>
6 <command interpreter="python">
7 qiime_wrapper.py
8 --galaxy_tmpdir='$__new_file_path__'
9 transform_coordinate_matrices.py
10 --input_fps=$input_fps
11 --output_dir=$__new_file_path__
12 --random_trials=$random_trials
13 --num_dimensions=$num_dimensions
14 --sample_id_map_fp=$sample_id_map_fp
15 $store_trial_details
16 </command>
17 <inputs>
18 <param name="input_fps" type="text" label="input_fps"
19 help="comma-separated input files [REQUIRED]"/>
20 <param name="random_trials" type="integer" value="-1" label="random_trials"
21 help="Number of random permutations of matrix2 to perform. [default: (no Monte Carlo analysis performed)]"/>
22 <param name="num_dimensions" type="integer" value="-1" label="num_dimensions"
23 help="Number of dimensions to include in output matrices [default: Consider all dimensions]"/>
24 <param name="sample_id_map_fp" type="data" format="tabular" label="sample_id_map_fp"
25 help="Map of original sample ids to new sample ids [default: %default]"/>
26 <param name="store_trial_details" type="boolean" truevalue="--store_trial_details" falsevalue="" checked="false" label="store_trial_details"
27 help="Store PC matrices for individual trials [default: False]"/>
28 </inputs>
29 <outputs>
30
31 </outputs>
32 <tests>
33 </tests>
34 <help>
35
36 </help>
37 </tool>
38