Mercurial > repos > iuc > seqcomplexity
annotate seqcomplexity.xml @ 1:054c3355458d draft default tip
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 3c77e032f5e4a3ec4bf3828e5179d7a598d8a006
author | iuc |
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date | Fri, 30 Sep 2022 17:50:57 +0000 |
parents | f14a21f3d5b1 |
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f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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1 <?xml version="1.0"?> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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2 <tool id="seqcomplexity" name="Calculate sequence complexity" version="@TOOL_VERSION@" profile="21.05"> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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3 <description>total and per read</description> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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4 <macros> |
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054c3355458d
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 3c77e032f5e4a3ec4bf3828e5179d7a598d8a006
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5 <token name="@TOOL_VERSION@">0.1.2</token> |
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f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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6 </macros> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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7 <requirements> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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8 <requirement type="package" version="@TOOL_VERSION@">seqcomplexity</requirement> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
iuc
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9 </requirements> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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10 <command detect_errors="exit_code"><![CDATA[ |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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11 seqcomplexity --fastq '$input_fastq' > '$output_json' |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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12 ]]></command> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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13 <inputs> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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14 <param name="input_fastq" type="data" format="fastq" label="Input reads in FASTQ format"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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15 </inputs> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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16 <outputs> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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17 <data name="output_json" format="json"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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18 </outputs> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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19 <tests> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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20 <test> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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21 <param name="input_fastq" value="example.fastqsanger"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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22 <output name="output_json"> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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23 <assert_contents> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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24 <has_text_matching expression="complexity"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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25 </assert_contents> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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26 </output> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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27 </test> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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28 <test> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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29 <param name="input_fastq" value="example.fastq.gz"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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30 <output name="output_json"> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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31 <assert_contents> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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32 <has_text_matching expression="complexity"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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33 </assert_contents> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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34 </output> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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35 </test> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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36 <test> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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37 <param name="input_fastq" value="example.fastq.notgzextension"/> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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38 <output name="output_json"> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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39 <assert_contents> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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40 <has_text_matching expression="complexity"/> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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41 </assert_contents> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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42 </output> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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43 </test> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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44 </tests> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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45 <help><![CDATA[ |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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46 Calculates Per-Read and Total Sequence Complexity from FastQ file. Complexity is the number of base pairs of unique or nonrepeating DNA in a given segment of DNA, or component of the genome. |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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47 ]]></help> |
f14a21f3d5b1
planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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48 <citations> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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49 </citations> |
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planemo upload for repository https://github.com/stephenshank/tools-iuc/tree/seqcomplexity/tools/seqcomplexity/ commit 44f29b11508c8d407212ef000c16eda0e22922f0
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50 </tool> |