Mercurial > repos > bgruening > hicexplorer_hiccorrelate
comparison hicCorrelate.xml @ 12:e89d515c3594 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3b41d687ff30583540d055f6995de00530cca81d-dirty"
| author | bgruening |
|---|---|
| date | Mon, 16 Dec 2019 15:39:31 -0500 |
| parents | 2d8543aeeb65 |
| children | 340aa8042c7f |
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| 11:0942d0a1b0bd | 12:e89d515c3594 |
|---|---|
| 6 </macros> | 6 </macros> |
| 7 <expand macro="requirements" /> | 7 <expand macro="requirements" /> |
| 8 <command detect_errors="exit_code"><![CDATA[ | 8 <command detect_errors="exit_code"><![CDATA[ |
| 9 | 9 |
| 10 @multiple_input_matrices@ | 10 @multiple_input_matrices@ |
| 11 hicCorrelate | 11 @BINARY@ |
| 12 | 12 |
| 13 --matrices $matrices | 13 --matrices $matrices |
| 14 --labels $mlabels | 14 --labels $mlabels |
| 15 | 15 |
| 16 #if $method and $method is not None: | 16 #if $method and $method is not None: |
| 26 | 26 |
| 27 #if $colormap: | 27 #if $colormap: |
| 28 --colorMap $colormap | 28 --colorMap $colormap |
| 29 #end if | 29 #end if |
| 30 | 30 |
| 31 --outFileNameHeatmap ./heatmap.png | 31 --outFileNameHeatmap heatmap.png |
| 32 --outFileNameScatter ./scatter.png | 32 --outFileNameScatter scatter.png |
| 33 ]]> | 33 ]]> |
| 34 </command> | 34 </command> |
| 35 <inputs> | 35 <inputs> |
| 36 <expand macro="multiple_input_matrices" /> | 36 <expand macro="multiple_input_matrices" /> |
| 37 | 37 |
| 60 <data name="outFileNameScatter" from_work_dir="scatter.png" format="png" /> | 60 <data name="outFileNameScatter" from_work_dir="scatter.png" format="png" /> |
| 61 </outputs> | 61 </outputs> |
| 62 <tests> | 62 <tests> |
| 63 <test> | 63 <test> |
| 64 <repeat name="input_files"> | 64 <repeat name="input_files"> |
| 65 <param name="matrix" value="hicCorrectMatrix_result1.npz.h5" ftype="h5"/> | 65 <param name="matrix" value="small_test_matrix.h5" ftype="h5"/> |
| 66 <param name="mlabel" value="first"/> | 66 <param name="mlabel" value="first"/> |
| 67 </repeat> | 67 </repeat> |
| 68 <repeat name="input_files"> | 68 <repeat name="input_files"> |
| 69 <param name="matrix" value="hicCorrectMatrix_result1.npz.h5" ftype="h5" /> | 69 <param name="matrix" value="small_test_matrix.h5" ftype="h5" /> |
| 70 <param name="mlabel" value="second"/> | 70 <param name="mlabel" value="second"/> |
| 71 </repeat> | 71 </repeat> |
| 72 <param name="log1p" value="True"/> | 72 <param name="log1p" value="True"/> |
| 73 <param name="colormap" value="jet"/> | 73 <param name="colormap" value="jet"/> |
| 74 <param name="method" value="spearman"/> | 74 <param name="method" value="spearman"/> |
| 75 <output name="outFileNameHeatmap" file="hicCorrelate_heatmap_result1.png" ftype="png" compare="sim_size"/> | 75 <output name="outFileNameHeatmap" file="hicCorrelate_heatmap_result1.png" ftype="png" compare="sim_size"/> |
| 76 <output name="outFileNameScatter" file="hicCorrelate_scatter_result1.png" ftype="png" compare="sim_size"/> | 76 <output name="outFileNameScatter" file="hicCorrelate_scatter_result1.png" ftype="png" compare="sim_size"/> |
| 77 </test> | 77 </test> |
| 78 <test> | 78 <test> |
| 79 <repeat name="input_files"> | 79 <repeat name="input_files"> |
| 80 <param name="matrix" value="hicCorrectMatrix_result1.npz.h5" ftype="h5"/> | 80 <param name="matrix" value="small_test_matrix.h5" ftype="h5"/> |
| 81 <param name="mlabel" value="first"/> | 81 <param name="mlabel" value="first"/> |
| 82 </repeat> | 82 </repeat> |
| 83 <repeat name="input_files"> | 83 <repeat name="input_files"> |
| 84 <param name="matrix" value="hicCorrectMatrix_result1.npz.h5" ftype="h5" /> | 84 <param name="matrix" value="small_test_matrix.h5" ftype="h5" /> |
| 85 <param name="mlabel" value="second"/> | 85 <param name="mlabel" value="second"/> |
| 86 </repeat> | 86 </repeat> |
| 87 | 87 |
| 88 <param name="log1p" value="True"/> | 88 <param name="log1p" value="True"/> |
| 89 <param name="colormap" value="jet"/> | 89 <param name="colormap" value="jet"/> |