Mercurial > repos > rnateam > data_manager_sortmerna_database_downloader
changeset 1:30bb49887172 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_sortmerna_database_downloader commit 044a991b45c9135339daf138929887cd8e93a1bf
| author | rnateam |
|---|---|
| date | Tue, 06 Jun 2017 13:40:27 -0400 |
| parents | 765f4ec851f0 |
| children | 7d2252852f96 |
| files | data_manager/data_manager_sortmerna_download.py data_manager/data_manager_sortmerna_download.xml data_manager_conf.xml tool-data/rRNA_databases.loc.sample tool_data_table_conf.xml.sample |
| diffstat | 5 files changed, 5 insertions(+), 7 deletions(-) [+] |
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--- a/data_manager/data_manager_sortmerna_download.py Wed May 31 14:53:00 2017 -0400 +++ b/data_manager/data_manager_sortmerna_download.py Tue Jun 06 13:40:27 2017 -0400 @@ -140,7 +140,6 @@ data_tables, "rRNA_databases", dict( - dbkey=db_name, value=version, name=db_name, path=output_filepath))
--- a/data_manager/data_manager_sortmerna_download.xml Wed May 31 14:53:00 2017 -0400 +++ b/data_manager/data_manager_sortmerna_download.xml Tue Jun 06 13:40:27 2017 -0400 @@ -1,4 +1,4 @@ -<tool id="data_manager_sortmerna_download" name="Download SortMeRNA" version="@VERSION@.0" tool_type="manage_data"> +<tool id="data_manager_sortmerna_download" name="Download SortMeRNA" version="@VERSION@.1" tool_type="manage_data"> <description>reference databases</description> <macros> <import>macros.xml</import>
--- a/data_manager_conf.xml Wed May 31 14:53:00 2017 -0400 +++ b/data_manager_conf.xml Tue Jun 06 13:40:27 2017 -0400 @@ -5,13 +5,12 @@ <output> <!-- Handle the output of the Data Manager Tool --> <column name="value" /> <!-- columns that are going to be specified by the Data Manager Tool --> <column name="name" /> <!-- columns that are going to be specified by the Data Manager Tool --> - <column name="dbkey" /> <!-- columns that are going to be specified by the Data Manager Tool --> <column name="path" output_ref="out_file" > <move type="file"> <source>${path}</source> - <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">rRNA_databases/${dbkey}</target> + <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">rRNA_databases/${name}</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/rRNA_databases/${dbkey}</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/rRNA_databases/${name}</value_translation> <value_translation type="function">abspath</value_translation> </column> </output>
--- a/tool-data/rRNA_databases.loc.sample Wed May 31 14:53:00 2017 -0400 +++ b/tool-data/rRNA_databases.loc.sample Tue Jun 06 13:40:27 2017 -0400 @@ -1,2 +1,2 @@ -#<unique_id> <database_caption> <name> <fasta_file_path> +#<unique_id> <database_caption> <fasta_file_path>
--- a/tool_data_table_conf.xml.sample Wed May 31 14:53:00 2017 -0400 +++ b/tool_data_table_conf.xml.sample Tue Jun 06 13:40:27 2017 -0400 @@ -1,6 +1,6 @@ <tables> <table name="rRNA_databases" comment_char="#"> - <columns>value, name, dbkey, path</columns> + <columns>value, name, path</columns> <file path="tool-data/rRNA_databases.loc" /> </table> </tables> \ No newline at end of file