Mercurial > repos > devteam > kraken_filter
changeset 1:f093ba52debe draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken_filter/ commit cb1743eafd4ca98be0148d557770ef8635cc8d4c-dirty
| author | devteam |
|---|---|
| date | Tue, 19 May 2015 16:42:21 -0400 |
| parents | 60d9479c58d6 |
| children | 317726be0703 |
| files | kraken-filter.xml macros.xml tool_dependencies.xml |
| diffstat | 3 files changed, 4 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/kraken-filter.xml Wed Apr 22 13:03:54 2015 -0400 +++ b/kraken-filter.xml Tue May 19 16:42:21 2015 -0400 @@ -7,6 +7,7 @@ </macros> <command> <![CDATA[ + @SET_DATABASE_PATH@ && kraken-filter @INPUT_DATABASE@ --threshold $threshold "${input}" > "$filtered_output" ]]> </command>
--- a/macros.xml Wed Apr 22 13:03:54 2015 -0400 +++ b/macros.xml Tue May 19 16:42:21 2015 -0400 @@ -25,5 +25,6 @@ <citation type="doi">10.1186/gb-2014-15-3-r46</citation> </citations> </xml> - <token name="@INPUT_DATABASE@">--db ${kraken_database.fields.path}/${kraken_database.fields.name}</token> + <token name="@INPUT_DATABASE@">--db ${kraken_database.fields.name}</token> + <token name="@SET_DATABASE_PATH@">export KRAKEN_DB_PATH="${kraken_database.fields.path}"</token> </macros> \ No newline at end of file
--- a/tool_dependencies.xml Wed Apr 22 13:03:54 2015 -0400 +++ b/tool_dependencies.xml Tue May 19 16:42:21 2015 -0400 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> <package name="kraken" version="0.10.5"> - <repository changeset_revision="c949a8bd92ec" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="e79fee8f87fa" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> </tool_dependency>