bogus implementation of a function to check if a string is a number

Regularized incomplete beta function. The method is taken from * Numerical Recipe in C, 2nd edition, section 6.4. The following web * page calculate

place ->fd at offset off

* Destroy the hash structure, but not the keys */

* Set a new key,value pair. On success returns the bin index, on * error -1 is returned. */

In windows, the first thing is to establish the TCP connection. */

* Used by cram_ref_load and cram_ref_get. The file handle will have * already been opened, so we can catch it. The ref_entry *e informs us * of whet

load a sequence file \param alphabet the alphabet used to encode the sequence data \param sequence_data the output sequence data \

return the local file name from a path

return the local file name from a path

For 80x86 and 680x0, an optimized version will be provided in match.asm or * match.S. The code will be functionally equivalent. */

count the number of leading zeros

MAKECRCH */ Generate tables for a byte-wise 32-bit CRC calculation on the polynomial: x^32+x^26+x^23+x^22+x^16+x^12+x^11+x^10+x^8+x^7+x^5+x^4+x^2+x+

* Quick and simple hash lookup for cram_map arrays */

maximum number of blocks per multiprocessor

* Reads the entirety of fp into memory. If 'fn' exists it is the filename * associated with fp. This will be used for more optimal reading (via a *

* Converts a FILE * to an mFILE *. * Use this for wrapper functions to turn external prototypes requring * FILE * as an argument into internal code

open a new file

pop the next work item from the queue

count the number of occurrences of a given 2-bit pattern in a given word

=========================================================================== * Restore the heap property by moving down the tree starting at node k,

process the next batch of suffixes

process a sparse set of suffixes

quality operator

quality operator

copy CIGARs into host memory

copy mapq back to the host

copy mapq back to the host

copy MD strings back to the host

copy scoring data to host, converting to io::AlignmentResult

* Loads a FAI file for a reference.fasta. * "is_err" indicates whether failure to load is worthy of emitting an * error message. In some cases (eg w

remove the dollar symbol

convert a 2-bit RNA symbol to its ASCII character

* Returns a unique ID from a base name. * * The value returned is valid until the next call to * this function. */

* Tokenises a SAM header into a hash table. * Also extracts a few bits on specific data types, such as @RG lines. * * Returns a SAM_hdr struct on s

* Reconstructs the kstring from the header hash table. * Returns 0 on success * -1 on failure */

* Adds or updates tag key,value pairs in a header line. * Eg for adding M5 tags to @SQ lines or updating sort order for the * @HD line (although use

Updates the hash tables in the SAM_hdr structure. * * Returns 0 on success; * -1 on failure */

=========================================================================== * Scan a literal or distance tree to determine the frequencies of the cod

=========================================================================== * Send a literal or distance tree in compressed form, using the codes in

set queue capacity. In this context, the queue capacity is the maximum amount of persistent threads used to run the stream. Limiting it might be usef

set the id