Mercurial > repos > peterjc > blastxml_to_top_descr
changeset 7:a7add03a44fd draft
Uploaded v0.0.6, checks return code for error handling
| author | peterjc |
|---|---|
| date | Wed, 17 Apr 2013 11:46:03 -0400 |
| parents | 8a0771c5e236 |
| children | a8ef75aab1f9 |
| files | tools/ncbi_blast_plus/blastxml_to_top_descr.txt tools/ncbi_blast_plus/blastxml_to_top_descr.xml |
| diffstat | 2 files changed, 7 insertions(+), 2 deletions(-) [+] |
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--- a/tools/ncbi_blast_plus/blastxml_to_top_descr.txt Wed Apr 17 10:53:58 2013 -0400 +++ b/tools/ncbi_blast_plus/blastxml_to_top_descr.txt Wed Apr 17 11:46:03 2013 -0400 @@ -20,7 +20,6 @@ 'blast_datatypes' dependency. - Manual Installation =================== @@ -53,6 +52,7 @@ v0.0.3 - Include the test files required to run the unit tests v0.0.4 - Quote filenames in case they contain spaces (internal change) v0.0.5 - Include number of queries with BLAST matches in stdout (peek text) +v0.0.6 - Check for errors via the script's return code (internal change) Developers
--- a/tools/ncbi_blast_plus/blastxml_to_top_descr.xml Wed Apr 17 10:53:58 2013 -0400 +++ b/tools/ncbi_blast_plus/blastxml_to_top_descr.xml Wed Apr 17 11:46:03 2013 -0400 @@ -1,9 +1,14 @@ -<tool id="blastxml_to_top_descr" name="BLAST top hit descriptions" version="0.0.5"> +<tool id="blastxml_to_top_descr" name="BLAST top hit descriptions" version="0.0.6"> <description>Make a table from BLAST XML</description> <version_command interpreter="python">blastxml_to_top_descr.py --version</version_command> <command interpreter="python"> blastxml_to_top_descr.py "${blastxml_file}" "${tabular_file}" ${topN} </command> + <stdio> + <!-- Assume anything other than zero is an error --> + <exit_code range="1:" /> + <exit_code range=":-1" /> + </stdio> <inputs> <param name="blastxml_file" type="data" format="blastxml" label="BLAST results as XML"/> <param name="topN" type="integer" min="1" max="100" optional="false" label="Number of descriptions" value="3"/>