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add support for python 3 #101

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add support for python 3 #101

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8 changes: 4 additions & 4 deletions docs/conf.py
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Original file line number Diff line number Diff line change
Expand Up @@ -41,8 +41,8 @@
master_doc = 'index'

# General information about the project.
project = u'poretools'
copyright = u'2014'
project = 'poretools'
copyright = '2014'

# The version info for the project you're documenting, acts as replacement for
# |version| and |release|, also used in various other places throughout the
Expand Down Expand Up @@ -185,7 +185,7 @@
# Grouping the document tree into LaTeX files. List of tuples
# (source start file, target name, title, author, documentclass [howto/manual]).
latex_documents = [
('index', 'poretools.tex', u'poretools Documentation', u'Nick Loman and Aaron Quinlan', 'manual'),
('index', 'poretools.tex', 'poretools Documentation', 'Nick Loman and Aaron Quinlan', 'manual'),
]

# The name of an image file (relative to this directory) to place at the top of
Expand Down Expand Up @@ -217,7 +217,7 @@
# One entry per manual page. List of tuples
# (source start file, name, description, authors, manual section).
man_pages = [
('index', 'gemini', u'poretools Documentation', [u'Nick Loman and Aaron Quinlan'], 1)
('index', 'gemini', 'poretools Documentation', ['Nick Loman and Aaron Quinlan'], 1)
]


Expand Down
144 changes: 72 additions & 72 deletions poretools/Event.py
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Original file line number Diff line number Diff line change
@@ -1,74 +1,74 @@
class Event(object):
"""
Very basic class to represent a nanopore
translocation event for a single pore
based upon data in the Events table of
a Oxford Nanopore FAST5 (HDF5) file
"""
def __init__(self, row):
self.row = row
try:
self.mean = row['mean']
except Exception:
self.mean = ""
try:
self.start = row['start']
except Exception:
self.start = ""
try:
self.stdv = row['stdv']
except Exception:
self.stdv = ""
try:
self.length = row['length']
except Exception:
self.length = ""
try:
self.model_state = row['model_state']
except Exception:
self.model_state = ""
try:
self.model_level = row['model_level']
except Exception:
self.model_level = ""
try:
self.move = row['move']
except Exception:
self.move = ""
try:
self.p_model_state = row['p_model_state']
except Exception:
self.p_model_state = ""
try:
self.mp_state = row['mp_state']
except Exception:
self.mp_state = ""
try:
self.p_mp_state = row['p_mp_state']
except Exception:
self.p_mp_state = ""
try:
self.p_A = row['p_A']
except Exception:
self.p_A = ""
try:
self.p_C = row['p_C']
except Exception:
self.p_C = ""
try:
self.p_G = row['p_G']
except Exception:
self.p_G = ""
try:
self.p_T = row['p_T']
except Exception:
self.p_T = ""
"""
Very basic class to represent a nanopore
translocation event for a single pore
based upon data in the Events table of
a Oxford Nanopore FAST5 (HDF5) file
"""
def __init__(self, row):
self.row = row
try:
self.mean = row['mean']
except Exception:
self.mean = ""
try:
self.start = row['start']
except Exception:
self.start = ""
try:
self.stdv = row['stdv']
except Exception:
self.stdv = ""
try:
self.length = row['length']
except Exception:
self.length = ""
try:
self.model_state = row['model_state']
except Exception:
self.model_state = ""
try:
self.model_level = row['model_level']
except Exception:
self.model_level = ""
try:
self.move = row['move']
except Exception:
self.move = ""
try:
self.p_model_state = row['p_model_state']
except Exception:
self.p_model_state = ""
try:
self.mp_state = row['mp_state']
except Exception:
self.mp_state = ""
try:
self.p_mp_state = row['p_mp_state']
except Exception:
self.p_mp_state = ""
try:
self.p_A = row['p_A']
except Exception:
self.p_A = ""
try:
self.p_C = row['p_C']
except Exception:
self.p_C = ""
try:
self.p_G = row['p_G']
except Exception:
self.p_G = ""
try:
self.p_T = row['p_T']
except Exception:
self.p_T = ""

def __repr__(self):
return '\t'.join([str(s) for s in [self.mean, self.start, self.stdv,
self.length, self.model_state,
self.model_level, self.move,
self.p_model_state,
self.mp_state, self.p_mp_state,
self.p_A, self.p_C,
self.p_G, self.p_T]])
def __repr__(self):
return '\t'.join([str(s) for s in [self.mean, self.start, self.stdv,
self.length, self.model_state,
self.model_level, self.move,
self.p_model_state,
self.mp_state, self.p_mp_state,
self.p_A, self.p_C,
self.p_G, self.p_T]])