| Previous changeset 1:f96cbb663aa9 (2020-02-28) Next changeset 3:bfbfc24c5af2 (2020-11-20) |
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Commit message:
"planemo upload for repository https://github.com/arpcard/rgi commit 481838067117d0c8ae84bc92ee58f47cfc18aa5f" |
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modified:
data_managers/data_manager_conf.xml data_managers/data_manager_rgi_build_db/data_manager/rgi_database_builder.xml data_managers/data_manager_rgi_build_db/tool_data_table_conf.xml.sample rgi.xml |
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| diff -r f96cbb663aa9 -r a671367c326e data_managers/data_manager_conf.xml --- a/data_managers/data_manager_conf.xml Fri Feb 28 13:38:11 2020 -0500 +++ b/data_managers/data_manager_conf.xml Tue Nov 17 00:23:36 2020 +0000 |
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| @@ -1,6 +1,6 @@ <?xml version="1.0"?> <data_managers> - <data_manager tool_file="data_manager_rgi_build_db/data_manager/rgi_database_builder.xml" id="rgi_database_builder" version="1.0.0"> + <data_manager tool_file="data_manager_rgi_build_db/data_manager/rgi_database_builder.xml" id="rgi_database_builder" version="1.1.0"> <!-- Defines a Data Table to be modified --> <data_table name="rgi_databases"> <!-- Handle the output of the Data Manager Tool --> |
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| diff -r f96cbb663aa9 -r a671367c326e data_managers/data_manager_rgi_build_db/data_manager/rgi_database_builder.xml --- a/data_managers/data_manager_rgi_build_db/data_manager/rgi_database_builder.xml Fri Feb 28 13:38:11 2020 -0500 +++ b/data_managers/data_manager_rgi_build_db/data_manager/rgi_database_builder.xml Tue Nov 17 00:23:36 2020 +0000 |
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| @@ -1,15 +1,15 @@ <?xml version="1.0"?> -<tool id="rgi_database_builder" name="RGI Database Builder" tool_type="manage_data" version="1.0.0"> +<tool id="rgi_database_builder" name="RGI Database Builder" tool_type="manage_data" version="1.1.0"> <description>Download and build the CARD database for RGI</description> <requirements> - <requirement type="package" version="5.1.0">rgi</requirement> + <requirement type="package" version="5.1.1">rgi</requirement> </requirements> <stdio> <exit_code description="Error" level="fatal" range="1:" /> </stdio> - <command interpreter="python3"> + <command> <![CDATA[ - rgi_database_builder.py --out "${out_file}" + python3 rgi_database_builder.py --out "${out_file}" #if $name: --name "${name}" #end if |
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| diff -r f96cbb663aa9 -r a671367c326e data_managers/data_manager_rgi_build_db/tool_data_table_conf.xml.sample --- a/data_managers/data_manager_rgi_build_db/tool_data_table_conf.xml.sample Fri Feb 28 13:38:11 2020 -0500 +++ b/data_managers/data_manager_rgi_build_db/tool_data_table_conf.xml.sample Tue Nov 17 00:23:36 2020 +0000 |
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| @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tables> <!-- Locations of RGI database in the required format --> - <table name="rgi_databases" comment_char="#"> + <table name="rgi_databases" comment_char="#" allow_duplicate_entries="False"> <columns>value, name, path</columns> <file path="tool-data/rgi_databases.loc" /> </table> |
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| diff -r f96cbb663aa9 -r a671367c326e rgi.xml --- a/rgi.xml Fri Feb 28 13:38:11 2020 -0500 +++ b/rgi.xml Tue Nov 17 00:23:36 2020 +0000 |
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| @@ -1,7 +1,7 @@ -<tool id="rgi" name="Resistance Gene Identifier (RGI)" version="5.1.0"> +<tool id="rgi" name="Resistance Gene Identifier (RGI)" version="5.1.1"> <description>This tool predicts resistome(s) from protein or nucleotide data based on homology and SNP models.</description> <requirements> - <requirement type="package" version="5.1.0">rgi</requirement> + <requirement type="package" version="5.1.1">rgi</requirement> </requirements> <stdio> <exit_code range="1:" /> |