Mercurial > repos > cmonjeau > mapsembler2
diff GSV.py @ 0:f905f982ee3d
Imported from capsule None
author | cmonjeau |
---|---|
date | Fri, 05 Jun 2015 11:40:49 -0400 (2015-06-05) |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/GSV.py Fri Jun 05 11:40:49 2015 -0400 @@ -0,0 +1,66 @@ + +""" +GSV visualisation datatypes +""" + + +import logging, os, os.path, sys, time, tempfile, shutil, string, glob, re + +from galaxy.datatypes.sniff import * +from galaxy.datatypes import data +from galaxy.datatypes.metadata import MetadataElement +from galaxy.datatypes.xml import GenericXml + +log = logging.getLogger(__name__) + +class GenericMapJson( data.Text ): + """Base format class for any JSON file.""" + file_ext = "mapjson" + + def set_peek( self, dataset, is_multi_byte=False ): + """Set the peek and blurb text""" + if not dataset.dataset.purged: + dataset.peek = data.get_file_peek( dataset.file_name, is_multi_byte=is_multi_byte ) + dataset.blurb = 'Mapjson data' + else: + dataset.peek = 'file does not exist' + dataset.blurb = 'file purged from disk' + + def sniff( self, filename ): + """ + Determines whether the file is JSON or not + + >>> fname = get_test_fname( 'megablast_xml_parser_test1.blastxml' ) + >>> GenericMapJson().sniff( fname ) + True + >>> fname = get_test_fname( 'interval.interval' ) + >>> GenericMapJson().sniff( fname ) + False + """ + #TODO - Use a context manager on Python 2.5+ to close handle + handle = open(filename) + line = handle.readline() + handle.close() + + +class Gjson( GenericMapJson ): + """ + Resource Description Framework format (http://www.w3.org/RDF/). + """ + file_ext = "gjson" + + def sniff( self, filename ): + """ + Returns false and the user must manually set. + """ + return False + + def set_peek( self, dataset, is_multi_byte=False ): + """Set the peek and blurb text""" + if not dataset.dataset.purged: + dataset.peek = data.get_file_peek( dataset.file_name, is_multi_byte=is_multi_byte ) + dataset.blurb = 'GJSON data' + else: + dataset.peek = 'file does not exist' + dataset.blurb = 'file purged from disk' +