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Trackster: better comments and help text.

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This commit is contained in:
Jeremy Goecks
2012-05-21 12:42:53 -04:00
parent 9fbf9a4ab3
commit ba255221d3
2 changed files with 7 additions and 3 deletions
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lib/galaxy/visualization/tracks/summary.py
+5 -1
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@@ -21,9 +21,11 @@ class SummaryTree:
self.chrom_stats = {}
def find_block( self, num, level ):
""" Returns block that num is in for level. """
return ( num / self.block_size ** level )
def insert_range( self, chrom, start, end ):
""" Inserts a feature at chrom:start-end into the tree. """
if chrom in self.chrom_blocks:
blocks = self.chrom_blocks[ chrom ]
else:
@@ -44,7 +46,7 @@ class SummaryTree:
block_level[ block ] = 1
def finish( self ):
''' Checks for cutoff and only stores levels above it '''
""" Checks for cutoff and only stores levels above it """
for chrom, blocks in self.chrom_blocks.iteritems():
cur_best = 999
for level in range( self.levels, MIN_LEVEL-1, -1 ):
@@ -65,6 +67,7 @@ class SummaryTree:
self.chrom_blocks[ chrom ] = dict( [ ( key, value ) for key, value in blocks.iteritems() if key >= cur_best ] )
def query( self, chrom, start, end, level ):
""" Queries tree for data. """
if chrom in self.chrom_blocks:
stats = self.chrom_stats[ chrom ]
if "detail_level" in stats and level <= stats[ "detail_level" ]:
@@ -84,6 +87,7 @@ class SummaryTree:
return None
def write( self, filename ):
""" Writes tree to file. """
self.finish()
cPickle.dump( self, open( filename, 'wb' ), 2 )
static/scripts/trackster.js
+2 -2
View File
@@ -415,8 +415,8 @@ var
DATA_ERROR = "There was an error in indexing this dataset. ",
DATA_NOCONVERTER = "A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",
DATA_NONE = "No data for this chrom/contig.",
DATA_PENDING = "Preparing data. This is very fast for a small dataset but can take a long time for a large dataset. \
If visualization is saved and closed, preparation will continue in the background.",
DATA_PENDING = "Preparing data. This can take a while for a large dataset. \
If the visualization is saved and closed, preparation will continue in the background.",
DATA_CANNOT_RUN_TOOL = "Tool cannot be rerun: ",
DATA_LOADING = "Loading data...",
DATA_OK = "Ready for display",