Mercurial > repos > gga > chado_expression_delete_all_biomaterials
changeset 2:d971894a31a3 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 11:09:06 -0500 |
| parents | df919ab21090 |
| children | c0e26f41c44e |
| files | chado.py expression_delete_all_biomaterials.xml macros.xml |
| diffstat | 3 files changed, 24 insertions(+), 18 deletions(-) [+] |
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--- a/chado.py Mon Nov 05 12:16:21 2018 -0500 +++ b/chado.py Fri Nov 23 11:09:06 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/expression_delete_all_biomaterials.xml Mon Nov 05 12:16:21 2018 -0500 +++ b/expression_delete_all_biomaterials.xml Fri Nov 23 11:09:06 2018 -0500 @@ -1,11 +1,11 @@ <?xml version="1.0"?> <tool id="expression_delete_all_biomaterials" name="Chado biomaterials delete all" version="@WRAPPER_VERSION@.0"> - <description></description> - <macros> - <import>macros.xml</import> - </macros> - <expand macro="requirements"/> - <command detect_errors="aggressive"><![CDATA[ + <description></description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <command detect_errors="aggressive"><![CDATA[ @AUTH@ chakin expression delete_all_biomaterials @@ -14,18 +14,18 @@ > $results ]]></command> - <inputs> - <!-- options --> - <param name="confirm" label="Confirm" argument="confirm" type="boolean" truevalue="--confirm" falsevalue="" help="Confirm that you really do want to delete ALL of the biomaterials." /> + <inputs> + <!-- options --> + <param name="confirm" label="Confirm" argument="confirm" type="boolean" truevalue="--confirm" falsevalue="" help="Confirm that you really do want to delete ALL of the biomaterials." /> - <expand macro="wait_for"/> - </inputs> - <outputs> - <data format="txt" name="results"/> - </outputs> - <help> + <expand macro="wait_for"/> + </inputs> + <outputs> + <data format="txt" name="results"/> + </outputs> + <help> Delete all biomaterials @HELP@ - </help> + </help> </tool>
--- a/macros.xml Mon Nov 05 12:16:21 2018 -0500 +++ b/macros.xml Fri Nov 23 11:09:06 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>