Class BM_fileInfo

Default constructor.

Inputs:
 coverages - (C x B) array of floats; C = num contigs and B = num bams
 contigLengths -(C) array of ints storing contig lengths
 numBams - The number of BAMs the instance is managing ( == B )
 numContigs - The number of unique contigs across all BAMs ( == C )
 contigNames - (C) array of strings storing long contig names
 bamFiles - (B) array of BM_BamFile instances
 links - { uid, BM_linkPair }, all links joining the contigs, uid made
         by BM_BM_linkPair.makeKey()

Outputs:
 None

Overrides: object.__init__

Merge another BFI's internals with this one

You should destory the merged BFI after merging to avoid
duplication of results

Inputs:
 BFIb, BM_fileInfo, that will be merged

Outputs:
 None

Write bam type information to the given filehandle or stdout

used for printing output to types file

Inputs:
 fileHandle - open FILE, == None implies writing to stdout

Outputs:
 None

Write coverage profile information to the given filehandle or stdout

used for printing output to types file

Inputs:
 fileHandle - open FILE, == None implies writing to stdout

Outputs:
 None

Write contig linking information to the given filehandle or stdout

used for printing output to types file

Inputs:
 bamFileNames - { bamId : string }, storage for long bam file names
 fileHandle - open FILE, == None implies writing to stdout

Outputs:
 None

Override basic string function

calls printBamTypes, printCoverages and printLinks

Overrides: object.__str__