Mercurial > repos > sanbi-uwc > ctb_report_datatypes
changeset 1:0921bdf0f5e1 draft
planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/datatypes/neo4j_datatypes commit 4acac74a669ec2a4c6b4d4c1c3c227ab61ebbed7
| author | sanbi-uwc |
|---|---|
| date | Tue, 07 Jun 2016 10:11:48 -0400 |
| parents | 86807766529b |
| children | c02722db3c8d |
| files | ctb_report.py |
| diffstat | 1 files changed, 6 insertions(+), 82 deletions(-) [+] |
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--- a/ctb_report.py Tue Jun 07 10:05:14 2016 -0400 +++ b/ctb_report.py Tue Jun 07 10:11:48 2016 -0400 @@ -5,7 +5,7 @@ import sys from galaxy.datatypes.data import Data -from galaxy.datatypes.images import Html +#from galaxy.datatypes.images import Html gal_Log = logging.getLogger(__name__) verbose = True @@ -63,89 +63,13 @@ return "<html><head><title>%s</title></head><body><pre>%s</pre></body></html>" % (title, msg) -class CtbReportsNeo4j(CtbReport, Data): - """Class for neo4jDB database files.""" - file_ext = 'ctbreportneo4j' +class CtbReportSet(CtbReport, Data): + """Class for Ctb Report Set files.""" + file_ext = 'ctbreport' composite_type = 'basic' allow_datatype_change = False def __init__(self, **kwd): Data.__init__(self, **kwd) - self.add_composite_file('neostore', substitute_name_with_metadata='neostore', is_binary=True) - self.add_composite_file('neostore.id', substitute_name_with_metadata='neostore', is_binary=True) - self.add_composite_file('neostore.counts.db.a', substitute_name_with_metadata='neostore_count_file', - is_binary=True) - self.add_composite_file('neostore.counts.db.b', substitute_name_with_metadata='neostore_count_file', - is_binary=True) - self.add_composite_file('neostore.labeltokenstore.db', - substitute_name_with_metadata='neostore_labeltokenstore_db_file', is_binary=True) - self.add_composite_file('neostore.labeltokenstore.db.id', - substitute_name_with_metadata='neostore_labeltokenstore_db_file', is_binary=True) - self.add_composite_file('neostore.labeltokenstore.db.names', - substitute_name_with_metadata='neostore_labeltokenstore_db_file', is_binary=True) - self.add_composite_file('neostore.labeltokenstore.db.names.id', - substitute_name_with_metadata='neostore_labeltokenstore_db_file', is_binary=True) - self.add_composite_file('neostore.nodestore.db', substitute_name_with_metadata='neostore_nodestore_file', - is_binary=True) - self.add_composite_file('neostore.nodestore.db.id', substitute_name_with_metadata='neostore_nodestore_file', - is_binary=True) - self.add_composite_file('neostore.nodestore.db.labels', substitute_name_with_metadata='neostore_nodestore_file', - is_binary=True) - self.add_composite_file('neostore.nodestore.db.labels.id', - substitute_name_with_metadata='neostore_nodestore_file', is_binary=True) - - self.add_composite_file('neostore.propertystore.db', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.id', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.arrays', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.arrays.id', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.index', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.index.id', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.index.keys', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.index.keys.id', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.strings', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - self.add_composite_file('neostore.propertystore.db.strings.id', - substitute_name_with_metadata='neostore_propertystore_file', is_binary=True) - - self.add_composite_file('neostore.relationshipgroupstore.db', - substitute_name_with_metadata='neostore_relationship_group_file', is_binary=True) - self.add_composite_file('neostore.relationshipgroupstore.db.id', - substitute_name_with_metadata='neostore_relationship_group_file', is_binary=True) - self.add_composite_file('neostore.relationshipstore.db', - substitute_name_with_metadata='neostore_relationship_file', is_binary=True) - self.add_composite_file('neostore.relationshipstore.db.id', - substitute_name_with_metadata='neostore_relationship_file', is_binary=True) - self.add_composite_file('neostore.relationshiptypestore.db.names', - substitute_name_with_metadata='neostore_relationship_type_file', is_binary=True) - self.add_composite_file('neostore.relationshiptypestore.db.names.id', - substitute_name_with_metadata='neostore_relationship_type_file', is_binary=True) - self.add_composite_file('neostore.schemastore.db', substitute_name_with_metadata='neostore_schema_store_file', - is_binary=True) - self.add_composite_file('neostore.schemastore.db.id', - substitute_name_with_metadata='neostore_schema_store_file', is_binary=True) - self.add_composite_file('neostore.transaction.db.0', substitute_name_with_metadata='neostore_count_file', - is_binary=True) - - -class CtbReportsJBrowse(CtbReport, Html): - """Class for ctb report jbrowse files.""" - file_ext = 'ctbreportjbrowse' - composite_type = 'basic' - allow_datatype_change = False - - def __init__(self, **kwd): - Html.__init__(self, **kwd) - - -if __name__ == '__main__': - import doctest - - doctest.testmod(sys.modules[__name__]) + self.add_composite_file('neo4j/', is_binary=True) + self.add_composite_file('jbrowser/', is_binary=True)