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Fix for cor2 tool functional test, also set columns and column-types meta data attributes to be invisible for all tabular data types.

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This commit is contained in:
Greg Von Kuster
2007-10-01 14:07:34 +00:00
parent 698e2eb0e1
commit 7cb1bb2e47
2 changed files with 6 additions and 6 deletions
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lib/galaxy/datatypes/interval.py
+5 -5
View File
@@ -220,7 +220,7 @@ class Bed( Interval ):
MetadataElement( name="startCol", default=2, desc="Start column", param=metadata.ColumnParameter )
MetadataElement( name="endCol", default=3, desc="End column", param=metadata.ColumnParameter )
MetadataElement( name="strandCol", desc="Strand column (click box & select)", param=metadata.ColumnParameter, optional=True, no_value=0 )
MetadataElement( name="columns", default=3, desc="Number of columns", readonly=True )
MetadataElement( name="columns", default=3, desc="Number of columns", readonly=True, visible=False )
def missing_meta( self, dataset ):
"""Checks for empty meta values"""
@@ -380,8 +380,8 @@ class Gff( Tabular ):
file_ext = "gff"
"""Add metadata elements"""
MetadataElement( name="columns", default=9, desc="Number of columns", readonly=True )
MetadataElement( name="column_types", default=['str','str','str','int','int','int','str','str','str'], desc="Column types", readonly=True )
MetadataElement( name="columns", default=9, desc="Number of columns", readonly=True, visible=False )
MetadataElement( name="column_types", default=['str','str','str','int','int','int','str','str','str'], desc="Column types", readonly=True, visible=False )
def __init__(self, **kwd):
"""Initialize datatype, by adding GBrowse display app"""
@@ -504,7 +504,7 @@ class Gff3( Gff ):
valid_gff3_phase = ['.', '0', '1', '2']
"""Add metadata elements"""
MetadataElement( name="column_types", default=['str','str','str','int','int','float','str','int','list'], desc="Column types", readonly=True )
MetadataElement( name="column_types", default=['str','str','str','int','int','float','str','int','list'], desc="Column types", readonly=True, visible=False )
def __init__(self, **kwd):
"""Initialize datatype, by adding GBrowse display app"""
@@ -602,7 +602,7 @@ class Wiggle( Tabular ):
"""Tab delimited data in wiggle format"""
file_ext = "wig"
MetadataElement( name="columns", default=3, desc="Number of columns", readonly=True )
MetadataElement( name="columns", default=3, desc="Number of columns", readonly=True, visible=False )
def make_html_table(self, data):
return Tabular.make_html_table(self, data, skipchar='#')
lib/galaxy/datatypes/tabular.py
+1 -1
View File
@@ -32,7 +32,7 @@ class Tabular( data.Text ):
return True
return False
def set_meta( self, dataset, skip=0 ):
def set_meta( self, dataset, skip=1 ):
"""
Tries to determine the number of columns as well as those columns
that contain numerical values in the dataset. A skip parameter is