Mercurial > repos > chrisw > data_manager_monorail_index_fetcher
changeset 23:ef7b73b35985 draft
Uploaded
| author | chrisw |
|---|---|
| date | Thu, 14 Nov 2019 06:22:54 +0000 |
| parents | f7a05c747a44 |
| children | 2a1516230b45 |
| files | data_manager_monorail_index/data_manager/data_manager.py data_manager_monorail_index/tool-data/monorail_index.loc.sample data_manager_monorail_index/tool_data_table_conf.xml.sample |
| diffstat | 3 files changed, 3 insertions(+), 5 deletions(-) [+] |
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--- a/data_manager_monorail_index/data_manager/data_manager.py Thu Nov 14 04:54:19 2019 +0000 +++ b/data_manager_monorail_index/data_manager/data_manager.py Thu Nov 14 06:22:54 2019 +0000 @@ -28,7 +28,7 @@ version = url_comps[-2] data_manager_entry['dbkey'] = ref.lower() data_manager_entry['value'] = ref.lower() - data_manager_entry['name'] = ref.upper() + data_manager_entry['name'] = ref.lower() jsonin = open(args.config).read() params = json.loads(jsonin) #target_directory = params['output_data'][0]['extra_files_path']
--- a/data_manager_monorail_index/tool-data/monorail_index.loc.sample Thu Nov 14 04:54:19 2019 +0000 +++ b/data_manager_monorail_index/tool-data/monorail_index.loc.sample Thu Nov 14 06:22:54 2019 +0000 @@ -21,5 +21,3 @@ #create indices without annotations and then specify an annotation file and #maximum read length (minus 1) when running STAR. # -#hg19 hg19 hg19 full /mnt/galaxyIndices/genomes/hg19/rnastar 0 2.7.1a -#hg19Ensembl hg19Ensembl hg19 full with Ensembl annotation /mnt/galaxyIndices/genomes/hg19Ensembl/rnastar 1 2.7.1a
--- a/data_manager_monorail_index/tool_data_table_conf.xml.sample Thu Nov 14 04:54:19 2019 +0000 +++ b/data_manager_monorail_index/tool_data_table_conf.xml.sample Thu Nov 14 06:22:54 2019 +0000 @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tables> - <table name="monorail_index" comment_char="#"> - <columns>value, dbkey, name, path</columns> + <table allow_duplicate_entries="False" name="monorail_index" comment_char="#"> + <columns>value, dbkey, name, path, exons_path, version</columns> <file path="tool-data/monorail_index.loc" /> </table> </tables>