Mercurial > repos > matt-shirley > sra_tools
changeset 23:064f4fb1af40 draft
added vdb-validate tool
| author | Matt Shirley <mdshw5@gmail.com> |
|---|---|
| date | Wed, 19 Jun 2013 16:44:33 -0400 |
| parents | 423f3eb06428 |
| children | 4985f8c00366 |
| files | sra_validate.xml |
| diffstat | 1 files changed, 22 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/sra_validate.xml Wed Jun 19 16:44:33 2013 -0400 @@ -0,0 +1,22 @@ +<tool id="sra_validate" name="Validate sra" version="1.0.2"> + <description> and report any errors.</description> + <command>vdb-validate -md5 '$input' 2> $output </command> + <version_string>vdb-validate --version</version_string> + <inputs> + <param format="sra" name="input" type="data" label="sra archive"/> + </inputs> + <outputs> + <data format="text" name="output"/> + </outputs> + <stdio> + <exit_code range="127" level="fatal" description="Cannot find vdb-validate binary"/> + </stdio> + <requirements> + <requirement type="package" version="2.3.2-4">sra_toolkit</requirement> + </requirements> + <help> + This tool checks the data integrity of an sra archive using vdb-validate. + The vdb-validate program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software. + Contact Matt Shirley at mdshw5@gmail.com for support and bug reports. + </help> +</tool>