# HG changeset patch
# User sanbi-uwc
# Date 1466899385 14400
# Node ID c48ea98bd3b2cae3f840e216a68ea0ca95e6fa88
# Parent 45b969e6ff9ac86b370dcb438cbf15288d544d0d
planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/datatypes/neo4j_datatypes commit 84f212526ffc0d9206dcabc86d214860c2c03db5
diff -r 45b969e6ff9a -r c48ea98bd3b2 neo4j.py
--- a/neo4j.py Thu Jun 09 07:50:13 2016 -0400
+++ b/neo4j.py Sat Jun 25 20:03:05 2016 -0400
@@ -20,6 +20,8 @@
derived from html - composite datatype elements
stored in extra files path
"""
+ def __init__(self):
+ Html.__init__( self, **kwd )
def get_mime(self):
"""Returns the mime type of the datatype"""
@@ -46,26 +48,38 @@
"""Documented as an old display method, but still gets called via tests etc
This allows us to format the data shown in the central pane via the "eye" icon.
"""
- trans.response.set_content_type(data.get_mime())
- trans.log_event( "Display dataset id: %s" % str( data.id ) )
+ if preview == False:
+ trans.response.set_content_type(data.get_mime())
+ trans.log_event( "Display dataset id: %s" % str( data.id ) )
+
+ # the target directory name
+ dir_name = str(os.path.dirname( trans.app.object_store.get_filename(data.dataset) )) + '/dataset_{}_files/neo4jdb'.format( data.dataset.id )
- # the target directory name
- dir_name = str(os.path.dirname( trans.app.object_store.get_filename(data.dataset) )) + '/dataset_{}_files/neo4jdb'.format( data.dataset.id )
+ # generate unique filename for this dataset
+ valid_chars = '.,^_-()[]0123456789abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ'
+ fname = ''.join(c in valid_chars and c or '_' for c in data.name)[0:150]
- # generate unique filename for this dataset
- valid_chars = '.,^_-()[]0123456789abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ'
- fname = ''.join(c in valid_chars and c or '_' for c in data.name)[0:150]
+ # zip the target directory (dir_name) using the fname
+ shutil.make_archive(fname, 'zip', dir_name)
+ download_zip = fname + '.zip'
- # zip the target directory (dir_name) using the fname
- shutil.make_archive(fname, 'zip', dir_name)
- download_zip = fname + '.zip'
+ # setup headers for the download
+ trans.response.headers['Content-Length'] = int( os.stat( download_zip ).st_size )
+ trans.response.set_content_type( "application/octet-stream" ) # force octet-stream so Safari doesn't append mime extensions to filename
+ trans.response.headers["Content-Disposition"] = 'attachment; filename="Galaxy%s-[%s].%s"' % (data.hid, download_zip , "zip")
- # setup headers for the download
- trans.response.headers['Content-Length'] = int( os.stat( download_zip ).st_size )
- trans.response.set_content_type( "application/octet-stream" ) # force octet-stream so Safari doesn't append mime extensions to filename
- trans.response.headers["Content-Disposition"] = 'attachment; filename="Galaxy%s-[%s].%s"' % (data.hid, download_zip , "zip")
-
- return open( download_zip )
+ return open( download_zip )
+ else:
+ rval = [
+ 'Files for Composite Dataset (%s)\
+ This composite dataset is composed of the following files:' % (self.file_ext)]
+ for composite_name, composite_file in self.get_composite_files(dataset=data).iteritems():
+ opt_text = ''
+ if composite_file.optional:
+ opt_text = ' (optional)'
+ rval.append('- %s%s' % (composite_name, composite_name, opt_text))
+ rval.append('
')
+ return "\n".join(rval)
class Neo4jDB(Neo4j, Data):
"""Class for neo4jDB database files."""