Mercurial > repos > gga > chado_export_export_gbk
changeset 7:db753046224c draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit f5c5d81fc9781371e12b91c0d609b9201587cda5
| author | gga |
|---|---|
| date | Fri, 23 Nov 2018 11:04:58 -0500 |
| parents | a2d36826d1fd |
| children | d1e2773c8907 |
| files | chado.py export_export_gbk.xml macros.xml |
| diffstat | 3 files changed, 28 insertions(+), 22 deletions(-) [+] |
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--- a/chado.py Mon Nov 05 12:14:18 2018 -0500 +++ b/chado.py Fri Nov 23 11:04:58 2018 -0500 @@ -406,6 +406,7 @@ # there. data = _list_organisms(ci, *args, **kwargs) cache[cacheKey] = data + ci.session.close() return data try: # The cache key may or may not be in the cache at this point, it @@ -413,12 +414,14 @@ # when we checked above and now, so we reference the object from the # cache in preparation to return. data = cache[cacheKey] + ci.session.close() return data except KeyError: # If access fails due to eviction, we will fail over and can ensure that # data is inserted. data = _list_organisms(ci, *args, **kwargs) cache[cacheKey] = data + ci.session.close() return data @@ -447,6 +450,7 @@ data = _list_analyses(ci, *args, **kwargs) cache[cacheKey] = data + ci.session.close() return data try: # The cache key may or may not be in the cache at this point, it @@ -454,12 +458,14 @@ # when we checked above and now, so we reference the object from the # cache in preparation to return. data = cache[cacheKey] + ci.session.close() return data except KeyError: # If access fails due to eviction, we will fail over and can ensure that # data is inserted. data = _list_analyses(ci, *args, **kwargs) cache[cacheKey] = data + ci.session.close() return data
--- a/export_export_gbk.xml Mon Nov 05 12:14:18 2018 -0500 +++ b/export_export_gbk.xml Fri Nov 23 11:04:58 2018 -0500 @@ -1,12 +1,12 @@ <?xml version="1.0"?> <tool id="export_export_gbk" name="Chado export gbk" version="@WRAPPER_VERSION@.0"> - <description></description> - <macros> - <import>macros.xml</import> - </macros> - <expand macro="requirements"/> + <description></description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> <code file="chado.py"/> - <command detect_errors="aggressive"><![CDATA[ + <command detect_errors="aggressive"><![CDATA[ @AUTH@ chakin export export_gbk @@ -15,23 +15,23 @@ > $results ]]></command> - <inputs> - <!-- arguments --> - <param argument="--organism" - type="select" - dynamic_options="list_organisms()" - label="Organism" /> + <inputs> + <!-- arguments --> + <param argument="--organism" + type="select" + dynamic_options="list_organisms()" + label="Organism" /> - <!-- options --> - <expand macro="wait_for"/> + <!-- options --> + <expand macro="wait_for"/> - </inputs> - <outputs> - <data format="genbank" name="results"/> - </outputs> - <help> + </inputs> + <outputs> + <data format="genbank" name="results"/> + </outputs> + <help> Export organism features as genbank @HELP@ - </help> + </help> </tool>
--- a/macros.xml Mon Nov 05 12:14:18 2018 -0500 +++ b/macros.xml Fri Nov 23 11:04:58 2018 -0500 @@ -2,7 +2,7 @@ <macros> <xml name="requirements"> <requirements> - <requirement type="package" version="2.2.2">python-chado</requirement> + <requirement type="package" version="2.2.3">python-chado</requirement> <requirement type="package" version="1.5">jq</requirement> <yield/> </requirements> @@ -16,7 +16,7 @@ </stdio> </xml> - <token name="@WRAPPER_VERSION@">2.2.2</token> + <token name="@WRAPPER_VERSION@">2.2.3</token> <xml name="citation"> <citations>