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IMP Reference Guide  develop.cd20b1e321,2019/12/14
The Integrative Modeling Platform
IMP.pmi1.output Namespace Reference

Classes for writing output files and processing them. More...

Detailed Description

Classes for writing output files and processing them.

Classes

class  Cluster
 A container for models organized into clusters. More...
 
class  DataEntry
 A class to store data associated to a model. More...
 
class  Output
 Class for easy writing of PDBs, RMFs, and stat files. More...
 
class  OutputStatistics
 Collect statistics from ProcessOutput.get_fields(). More...
 
class  ProcessOutput
 A class for reading stat files (either rmf or ascii v1 and v2) More...
 
class  ProtocolOutput
 Base class for capturing a modeling protocol. More...
 
class  RMFHierarchyHandler
 class to allow more advanced handling of RMF files. More...
 
class  StatHierarchyHandler
 class to link stat files to several rmf files More...
 

Functions

def plot_field_histogram
 Plot a list of histograms from a value list. More...
 
def plot_fields_box_plots
 Plot time series as boxplots. More...
 

Function Documentation

def IMP.pmi1.output.plot_field_histogram (   name,
  values_lists,
  valuename = None,
  bins = 40,
  colors = None,
  format = 'png',
  reference_xline = None,
  yplotrange = None,
  xplotrange = None,
  normalized = True,
  leg_names = None 
)

Plot a list of histograms from a value list.

Parameters
namethe name of the plot
value_liststhe list of list of values eg: [[...],[...],[...]]
valuenamethe y-label
binsthe number of bins
colorsIf None, will use rainbow. Else will use specific list
formatoutput format
reference_xlineplot a reference line parallel to the y-axis
yplotrangethe range for the y-axis
normalizedwhether the histogram is normalized or not
leg_namesnames for the legend
Note
This function is only available in Python.

Definition at line 1579 of file /output.py.

def IMP.pmi1.output.plot_fields_box_plots (   name,
  values,
  positions,
  frequencies = None,
  valuename = 'None',
  positionname = 'None',
  xlabels = None,
  scale_plot_length = 1.0 
)

Plot time series as boxplots.

fields is a list of time series, positions are the x-values valuename is the y-label, positionname is the x-label

Note
This function is only available in Python.

Definition at line 1644 of file /output.py.