Mercurial > repos > jjohnson > qiime
comparison make_fastq.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="make_fastq" name="make_fastq" version="1.2.0"> | |
| 2 <description>Make fastq file for ERA submission from paired fasta and qual files</description> | |
| 3 <requirements> | |
| 4 <requirement type="binary">make_fastq.py</requirement> | |
| 5 </requirements> | |
| 6 <command interpreter="python"> | |
| 7 qiime_wrapper.py | |
| 8 --galaxy_tmpdir='$__new_file_path__' | |
| 9 make_fastq.py | |
| 10 --input_fasta_fp=$input_fasta_fp | |
| 11 --qual=$qual | |
| 12 --result_fp=$result_fp | |
| 13 $split | |
| 14 </command> | |
| 15 <inputs> | |
| 16 <param name="input_fasta_fp" type="data" format="fasta" label="input_fasta_fp" | |
| 17 help="path to the input fasta file [REQUIRED]"/> | |
| 18 <param name="qual" type="data" format="qual" label="qual" | |
| 19 help="names of qual files, comma-delimited [REQUIRED]"/> | |
| 20 <param name="result_fp" type="data" format="txt" label="result_fp" | |
| 21 help="Path to store results [default: {input_sequences_filename}.fastq]"/> | |
| 22 <param name="split" type="boolean" truevalue="--split" falsevalue="" checked="false" label="split" | |
| 23 help="make separate file for each library [default:False]"/> | |
| 24 </inputs> | |
| 25 <outputs> | |
| 26 | |
| 27 </outputs> | |
| 28 <tests> | |
| 29 </tests> | |
| 30 <help> | |
| 31 | |
| 32 </help> | |
| 33 </tool> | |
| 34 |