List of all members.
Public Member Functions |
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def | __init__ |
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def | open |
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def | close |
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def | read |
| def | write |
Public Attributes |
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| separator |
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| intypes |
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| outtypes |
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| filehandle |
Detailed Description
Generic Track class for text files (extension ".txt" or ".text").
Additional attributes:
.. attribute:: separator
character separating fields in the file (default "\t").
.. attribute:: intypes
Dictionary with keys field names and values functions that will be called on each item when reading the file.
.. attribute:: outtypes
Dictionary with keys field names and values functions that will be called on each item when writing the file.
When reading a file, lines beginning with "browser", "track" or "#" are skipped.
The *info* attribute will be filled with "key=value" pairs found on a "track" line at the top of the file.
The *open" method takes the argument *mode" which can be *read* (default), *write*, *append* or *overwrite*.
Path can be a url, or a gzipped file.
Member Function Documentation
| def bbcflib::btrack::text::TextTrack::write |
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self, |
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source, |
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fields = None, |
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mode = 'write', |
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chrom = None, |
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kw | |
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Add data to the track. Effectively writes in the related file.
:param source: (FeatureStream) data to be added to the track.
:param fields: list of field names.
:param mode: (str) file opening mode - one of 'write','overwrite','append'. ['write']
:param chrom: (str) a chromosome name.
The documentation for this class was generated from the following file:
- /home/rougemon/Data/pipelines/libv2/bbcflib/bbcflib/btrack/text.py
1.7.1
