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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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e5c3175506b7 Initial tool configs for qiime, most need work.
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1 <tool id="truncate_fasta_qual_files" name="truncate_fasta_qual_files" version="1.2.0">
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2 <description>Generates filtered fasta and quality score files by truncating at the specified base position.</description>
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3 <requirements>
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4 <requirement type="binary">truncate_fasta_qual_files.py</requirement>
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5 </requirements>
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6 <command interpreter="python">
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7 qiime_wrapper.py
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8 --galaxy_tmpdir='$__new_file_path__'
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9 truncate_fasta_qual_files.py
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10 --fasta_fp=$fasta_fp
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11 --qual_fp=$qual_fp
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12 --base_pos=$base_pos
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13 --output_dir=$__new_file_path__
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14 </command>
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15 <inputs>
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16 <param name="fasta_fp" type="data" format="fasta" label="fasta_fp"
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17 help="Fasta file. Needed to test for congruety between the number of nucleotides in the fasta file and quality scores in the qual file. [REQUIRED]"/>
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18 <param name="qual_fp" type="data" format="qual" label="qual_fp"
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19 help="Quality score file used to generate histogram data. [REQUIRED]"/>
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20 <param name="base_pos" type="text" label="base_pos"
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21 help="Nucleotide position to truncate the fasta and quality score files at. [REQUIRED]"/>
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22 </inputs>
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23 <outputs>
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25 </outputs>
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26 <tests>
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27 </tests>
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28 <help>
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29
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30 </help>
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31 </tool>
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