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1 # -*- coding: utf-8 -*-
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2
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3
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3 #from galaxy.datatypes.json_datatyp import Json as JsonClass
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4 from galaxy.datatypes.data import Text
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5 from galaxy.datatypes.data import get_file_peek
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6 from galaxy import util
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7 import subprocess
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8 import tempfile
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3
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9 import logging
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10 import json
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11 import os
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12
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13 log = logging.getLogger(__name__)
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14
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15 #class Ipynb( JsonClass ):
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16 class Ipynb( Text ):
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17 file_ext = "ipynb"
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18
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19 def set_peek( self, dataset, is_multi_byte=False ):
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20 if not dataset.dataset.purged:
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21 dataset.peek = get_file_peek( dataset.file_name, is_multi_byte=is_multi_byte )
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22 dataset.blurb = "IPython Notebook"
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23 else:
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24 dataset.peek = 'file does not exist'
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25 dataset.blurb = 'file purged from disc'
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26
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27 def sniff( self, filename ):
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28 """
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29 Try to load the string with the json module. If successful it's a json file.
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30 """
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31 try:
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32 ipynb = json.load( open(filename) )
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33 if ipynb.get('nbformat', False) != False and ipynb.get('metadata', False):
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34 return True
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35 else:
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36 return False
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37 except:
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38 return False
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39
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40 def display_data(self, trans, dataset, preview=False, filename=None, to_ext=None, chunk=None, **kwd):
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41 preview = util.string_as_bool( preview )
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42 if chunk:
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43 return self.get_chunk(trans, dataset, chunk)
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44 elif to_ext or not preview:
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45 return self._serve_raw(trans, dataset, to_ext)
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46 else:
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47 ofile_handle = tempfile.NamedTemporaryFile(delete=False)
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48 ofilename = ofile_handle.name
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49 ofile_handle.close()
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50 try:
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51 cmd = 'ipython nbconvert --to html --template basic %s --output %s' % (dataset.file_name, ofilename)
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52 subprocess.call(cmd, shell=True)
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53 ofilename = '%s.html' % ofilename
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54 except:
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55 ofilename = dataset.file_name
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56 log.exception( 'Command "%s" failed. Could not convert the IPython Notebook to HTML, defaulting to plain text.' % cmd )
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57 return open( ofilename )
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58
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59 def set_meta( self, dataset, **kwd ):
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60 """
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61 Set the number of models in dataset.
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62 """
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63 pass
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64
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65
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