Mercurial > repos > yating-l > jbrowsearchivecreator
view tracks/TrackDb.py @ 15:6464399df918 draft
planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit c69fafd096990eadcc380250703aefd919f80107
author | yating-l |
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date | Wed, 20 Jun 2018 17:43:26 -0400 |
parents | 3f9971a91096 |
children |
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#!/usr/bin/python """ Super Class of the tracks """ import os import abc from abc import ABCMeta import collections import json import logging from util import santitizer class TrackDb(object): """docstring for TrackDb""" __metaclass__ = ABCMeta def __init__(self, trackName, trackLabel, trackDataURL, trackType, dataType, extraSettings=None): #super(TrackDb, self).__init__() not_init_message = "The {0} is not initialized." if trackName is None: raise TypeError(not_init_message.format('trackName')) if trackLabel is None: raise TypeError(not_init_message.format('trackLabel')) if trackType is None: raise TypeError(not_init_message.format('trackType')) self.trackName = trackName self.trackLabel = trackLabel self.trackDataURL = trackDataURL self.trackType = trackType self.dataType = dataType self.extraSettings = extraSettings self.logger = logging.getLogger(__name__) #self.createTrackDb() def createTrackDb(self): self.track_db = collections.OrderedDict([("track",self.trackName), ("trackLabel",self.trackLabel), ("trackDataURL",self.trackDataURL), ("dataType", self.dataType), ("trackType", self.trackType)] ) self.track_db["nameIndex"] = self.extraSettings['nameIndex'] extraConfigs = self.prepareExtraSetting() self.logger.debug("Generate extraConfigs = %s", json.dumps(extraConfigs)) self.track_db["options"] = extraConfigs #print self.track_db self.logger.debug("TrackDb object is created track_db = %s ", json.dumps(self.track_db)) @abc.abstractmethod def prepareExtraSetting(self): """ set optional configurations for the track """