Mercurial > repos > matt-shirley > sra_tools
annotate sra_fetch.xml @ 35:a93bb9eb93c5 draft
properly end conditional statements
author | Matt Shirley <mdshw5@gmail.com> |
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date | Sun, 30 Jun 2013 19:23:07 -0400 |
parents | 423f3eb06428 |
children | 4da2d7f0128e |
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423f3eb06428
more fixes for sra datatype, added sra_pileup
Matt Shirley <mdshw5@gmail.com>
parents:
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1 <tool id="sra_fetch" name="Fetch sra run" version="1.0.3"> |
423f3eb06428
more fixes for sra datatype, added sra_pileup
Matt Shirley <mdshw5@gmail.com>
parents:
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2 <description> by accession from NCBI sra.</description> |
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078b8e168b0c
update tool wrapper and increment version
Matt Shirley <mdshw5@gmail.com>
parents:
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3 <command interpreter="python">sra_fetch.py --accession '$accession' --out '$output'</command> |
0
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
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4 <inputs> |
22
423f3eb06428
more fixes for sra datatype, added sra_pileup
Matt Shirley <mdshw5@gmail.com>
parents:
21
diff
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5 <param name="accession" size="13" type="text" value="SRR000001" label="sra run accession"/> |
0
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
6 </inputs> |
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
7 <outputs> |
22
423f3eb06428
more fixes for sra datatype, added sra_pileup
Matt Shirley <mdshw5@gmail.com>
parents:
21
diff
changeset
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8 <data format="sra" name="output" label="Fetch sra ${accession.value}"/> |
0
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
9 </outputs> |
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
10 <help> |
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423f3eb06428
more fixes for sra datatype, added sra_pileup
Matt Shirley <mdshw5@gmail.com>
parents:
21
diff
changeset
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11 This tool fetches sra archives by accession from NCBI over ftp. |
0
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
12 </help> |
ffdd41766195
Initial version - still need to test if datatype works correctly, and implement scripted download of SRA binaries.
matt-shirley <mdshw5@gmail.com>
parents:
diff
changeset
|
13 </tool> |