Mercurial > repos > jjohnson > qiime
comparison quality_scores_plot.xml @ 0:e5c3175506b7 default tip
Initial tool configs for qiime, most need work.
| author | Jim Johnson <jj@umn.edu> |
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| date | Sun, 17 Jul 2011 10:30:11 -0500 |
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| -1:000000000000 | 0:e5c3175506b7 |
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| 1 <tool id="quality_scores_plot" name="quality_scores_plot" version="1.2.1"> | |
| 2 <description>Generates histograms of sequence quality scores and number of nucleotides recorded at a particular index</description> | |
| 3 <requirements> | |
| 4 <requirement type="binary">quality_scores_plot.py</requirement> | |
| 5 </requirements> | |
| 6 <command interpreter="python"> | |
| 7 qiime_wrapper.py | |
| 8 --galaxy_tmpdir='$__new_file_path__' | |
| 9 quality_scores_plot.py | |
| 10 --qual_fp=$qual_fp | |
| 11 --output_dir=$__new_file_path__ | |
| 12 --score_min=$score_min | |
| 13 --verbose | |
| 14 </command> | |
| 15 <inputs> | |
| 16 <param name="qual_fp" type="data" format="qual" label="qual_fp" | |
| 17 help="Quality score file used to generate histogram data. [REQUIRED]"/> | |
| 18 <param name="score_min" type="text" value="25" label="score_min" | |
| 19 help="Minimum quality score to be considered acceptable. Used to draw dotted line on histogram for easy visualization of poor quality scores. [default: 25]"/> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 | |
| 23 </outputs> | |
| 24 <tests> | |
| 25 </tests> | |
| 26 <help> | |
| 27 | |
| 28 </help> | |
| 29 </tool> | |
| 30 |