Mercurial > repos > devteam > fastx_reverse_complement
annotate macros.xml @ 3:3f1017d3f785 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
author | iuc |
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date | Tue, 08 May 2018 13:28:22 -0400 |
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children | 0c2907307ba4 |
rev | line source |
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3
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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1 <?xml version="1.0"?> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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2 <macros> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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3 <token name="@CATS@"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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4 #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'): |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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5 zcat -f '$input' | |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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6 #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'): |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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7 bzcat -f '$input' | |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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8 #else: |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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9 cat '$input' | |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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10 #end if |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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11 </token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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12 <token name="@FQQUAL@"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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13 <![CDATA[ |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
parents:
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14 #if $input.is_of_type('fastqsanger', 'fastqsanger.gz', 'fastqsanger.bz2'): |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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15 -Q 33 |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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16 #elif $input.is_of_type('fastqsolexa', 'fastqsolexa.gz', 'fastqsolexa.bz2', 'fastqillumina', 'fastqillumina.gz', 'fastqillumina.bz2'): |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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17 -Q 64 |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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18 #end if |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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19 ]]> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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20 </token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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21 <xml name="requirements"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
parents:
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changeset
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22 <requirements> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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23 <requirement type="package" version="@VERSION@">fastx_toolkit</requirement> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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24 <yield /> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
parents:
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25 </requirements> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
parents:
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26 </xml> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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27 <token name="@VERSION@">0.0.14</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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28 <token name="@SANGER@">fastqsanger,fastqsanger.gz,fastqsanger.bz2</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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29 <token name="@SOLEXA@">fastqsolexa,fastqsolexa.gz,fastqsolexa.bz2</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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30 <token name="@ILLUMINA@">fastqillumina,fastqillumina.gz,fastqillumina.bz2</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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31 <token name="@FASTQS@">@SANGER@,@SOLEXA@,@ILLUMINA@</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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32 <token name="@FASTAS@">fasta,fasta.gz</token> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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33 <xml name="citations"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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34 <citations> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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35 <citation type="bibtex"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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36 @UNPUBLISHED{agordon, |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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37 author = "Assaf Gordon", |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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38 title = "FASTQ/A short-reads pre-processing tools", |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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39 year = "2010", |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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40 note = "http://hannonlab.cshl.edu/fastx_toolkit/", |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
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41 url = "http://hannonlab.cshl.edu/fastx_toolkit/"} |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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42 </citation> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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43 </citations> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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44 </xml> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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45 <xml name="fasta_input"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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46 <param name="input" type="data" format="@FASTAS@" label="Input FASTA file" /> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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47 </xml> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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48 <xml name="fastq_input"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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49 <param name="input" type="data" format="@FASTQS@" label="Input FASTQ file" /> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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50 </xml> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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51 <xml name="fastx_input"> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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52 <param name="input" type="data" format="@FASTAS@,@FASTQS@" label="Input file in FASTA or FASTQ format" /> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
iuc
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53 </xml> |
3f1017d3f785
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_reverse_complement commit bbb2e6b6769b03602a8ab97001f88fbec52080a1
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54 </macros> |