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youri
2015-11-16 23:09:44 +01:00
parent d40d384a86
commit 3df95ae9a6
1 changed files with 12 additions and 12 deletions
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lib/galaxy/datatypes/binary.py
+12 -12
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@@ -459,25 +459,25 @@ Binary.register_sniffable_binary_format("bam", "bam", Bam)
class CRAM( Binary ):
file_ext = "cram"
edam_format = "format_3462"
MetadataElement( name="cram_version", default=None, desc="CRAM Version", param=MetadataParameter, readonly=True, visible=False, optional=False, no_value=None )
def set_meta( self, dataset, overwrite=True, **kwd ):
try:
with open(dataset.file_name, "r") as fh:
header = fh.read(6)
dataset.metadata.cram_version = str(ord(header[4]))+"."+str(ord(header[5]))
dataset.metadata.cram_version = str(ord(header[4])) + "." + str(ord(header[5]))
except Exception as exc:
log.warn( '%s, set_meta Exception: %s', self, exc )
def set_peek( self, dataset, is_multi_byte=False ):
if not dataset.dataset.purged:
dataset.peek = 'CRAM binary alignment file'
dataset.blurb = 'binary data'
else:
dataset.peek = 'file does not exist'
dataset.blurb = 'file purged from disk'
def set_peek( self, dataset, is_multi_byte=False ):
if not dataset.dataset.purged:
dataset.peek = 'CRAM binary alignment file'
dataset.blurb = 'binary data'
else:
dataset.peek = 'file does not exist'
dataset.blurb = 'file purged from disk'
def sniff( self, filename ):
try:
header = open( filename ).read(4)