comparison tools/samtools/sam_merge_code.py @ 0:9071e359b9a3

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0:9071e359b9a3

from galaxy.tools.parameters import DataToolParameter

def validate_input( trans, error_map, param_values, page_param_map ):
    dbkeys = set()
    data_param_names = set()
    data_params = 0
    for name, param in page_param_map.iteritems():
        if isinstance( param, DataToolParameter ):
            # for each dataset parameter
            if param_values.get(name, None) != None:
                dbkeys.add( param_values[name].dbkey )
                data_params += 1
                # check meta data
#                try:
#                    param = param_values[name]
#                    startCol = int( param.metadata.startCol )
#                    endCol = int( param.metadata.endCol )
#                    chromCol = int( param.metadata.chromCol )
#                    if param.metadata.strandCol is not None:
#                        strandCol = int ( param.metadata.strandCol )
#                    else:
#                        strandCol = 0
#                except:
#                    error_msg = "The attributes of this dataset are not properly set. " + \
#                    "Click the pencil icon in the history item to set the chrom, start, end and strand columns."
#                    error_map[name] = error_msg
            data_param_names.add( name )
    if len( dbkeys ) > 1:
        for name in data_param_names:
            error_map[name] = "All datasets must belong to same genomic build, " \
                "this dataset is linked to build '%s'" % param_values[name].dbkey
    if data_params != len(data_param_names):
        for name in data_param_names:
            error_map[name] = "A dataset of the appropriate type is required"