RatCAVE_Round2_Backup/Code/WallAnalysis/scripts/dodo.py

from glob import glob
import os
from os import path
import itertools as it

fname_merged = '../data/VRCliff_AllData.h5'
def task_merge_sessions():
  loadpath = '/home/nickdg/labshare/Projects/VRExperiments_Round2/Data/motion_tracking/processed'
  fnames = glob(loadpath + '/VRWall*/*.h5', recursive=True)
  print(len(fnames))
  return {
      'actions': ['python merge_data.py'],
      'file_dep': [sorted(fnames)[0]],
      'targets': [fname_merged],
      'verbosity': 2,
  }


# fname_clean = '../data/VRCliff_AllData_cleaned.h5'
# def task_process_cliffdata():
#   return {
#       'actions': ['python cleaning.py'],
#       'file_dep': [fname_merged],
#       'targets': [fname_clean],
#       'verbosity': 0,
#   }


# Write the notebook filenames in the order you want them to be run.
notebooks = [
    'Merge Data and Label Phases.ipynb',
    'Calculate and Transform Data.ipynb',
    'Crossings Deflections Analysis By Distance2.ipynb',
    'Movement Direction Analysis2.ipynb',
]

def task_update_and_export_notebooks():
    for basename in notebooks:
        notebook = '../notebooks/{}'.format(basename)
        yield {
            'actions': ['jupyter nbconvert --config=/home/nickdg/.ipython/profile_default/ipython_nbconvert_config.py --execute "%(dependencies)s" '],
            'file_dep': [notebook],
            'name': 'run_notebook: {}'.format(path.basename(notebook)),
            # 'verbosity': 2,
        }

        for output in ['html', 'latex']:
            pdf_dirname = path.join(path.dirname(notebook), output)
            if not path.exists(pdf_dirname):
                os.mkdir(pdf_dirname)
            yield {
                'actions': ['jupyter nbconvert "%(dependencies)s" --to {} --output-dir "{}"'.format(output, path.abspath(pdf_dirname))],
                'file_dep': [path.abspath(notebook)],
                'targets': [path.join(pdf_dirname, path.splitext(path.basename(notebook))[0] + '.' + output)],
                'name': 'convert_to_{}: {}'.format(output, path.basename(notebook)),
                'verbosity': 2


            }