/usr/lib/R/site-library/BiocParallel/NEWS is in r-bioc-biocparallel 1.12.0-2.
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BUG FIXES
o (v. 1.11.1) Change registered backend initialization to first
invocation, rather than on load.
o (v 1.11.8) Ensure registry is initiailized before (public) use.
Issue #65
NEW FEATURES
o (v. 1.11.2) bpiterate() gains a progress counter.
o (v. 1.11.5) ipclock(), etc: inter-process locks and counters
CHANGES IN VERSION 1.9
----------------------
BUG FIXES
o (v. 1.9.6) use of logdir= no longer tries to double-close log
file.
CHANGES IN VERSION 1.7
----------------------
BUG FIXES
o (v. 1.7.4) Allow more than 125 MPI nodes,
https://github.com/Bioconductor/BiocParallel/issues/55
NEW FEATURES
o Throttle number of cores used on Bioconductor build systems
(with environment variable BBS_HOME set) to 4
CHANGES IN VERSION 1.5
----------------------
NEW FEATURES
o stop.on.error returns catchable 'remote_error'
o bplapply() signals a 'bplist_error' when any element is an error.
o 'bplist_error' includes an attribute 'result' containing
computed results; when stop.on.error = FALSE, the result vector
is parallel to (has the same geometry as) the input vector.
o bpvec() signals a 'bpvec_error' when length(FUN(X)) != length(X)
USER-VISIBLE CHANGES
o Rename bpslaveLoop to (S3 generic) bploop
o bpiterate() returns values consistent with REDUCE, rather than
wrapping in list()
o BatchJobsParam() passes more arguments to BatchJobs'
makeRegistry(), setConfig(), submitJobs()
BUG FIXES
o workers=1, tasks=0 assigns all elements of X in one chunk
o SerialParam() respects stop.on.error
o bpmapply,ANY,* methods did not honor all arguments, particularly
MoreArgs.
CHANGES IN VERSION 1.2.0
------------------------
NEW FEATURES
o Add support for iterative REDUCE in .bpiterate_serial()
o Refactor BiocParallelParam class:
- add 'log', 'tasks', 'threshold', 'logdir', 'resultdir' fields
- 'tasks' is used by SnowParam and MulticoreParam only
o MulticoreParam now uses SnowParam(..., type=FORK)
o Add bpvalidate()
MODIFICATIONS
o Add check to bipiterate() for Windows
o Invoke REDUCE without '...' in .bpiterate_serial()
o Update README and bpvec() man page
o Change default BPPARAM to SnowParam() for Windows
o Update bpiterate() man pages for Windows
o Add note to vignette re: module load in template file
from Thomas Girke
o SnowParam:
- bpmapply() now dispatches to bplapply()
- remove BPRESUME
- logging, gc ouput on worker
- write results or logs to file
- new error handling with futile.logger
o Lighten the NAMESPACE by importing only parallel, snow
o Modify which params are registered at load time:
- Windows: SnowParam(), SerialParam()
- Non-Windows: MulticoreParam(), SnowParam(), SerialParam()
o bpvalidate() looks for symbols in 'fun' environment, NAMESPACE
of loaded libraries, and the search path
BUG FIXES
o Bug fix in bpiterate_multicore(); update doc examples
o Bug fix in bpiterate() in ordering results from Martin
o Bug fix in .bpiterate_serial() when REDUCE is given
CHANGES IN VERSION 1.0.0
------------------------
NEW FEATURES
o Add vignette sections for cluster managers, AMI
o Add bpiterate generic and methods
o Add REDUCE to bpiterate()
o Add 'reduce.in.order' to bpiterate()
MODIFICATIONS
o Update vignette examples, reorganize sections
o Allow 'workers' in BiocParallelParam to be character or integer
o Enhance bpresume() man page; add examples
o Enhance register() man page; add examples
o Improve default registration for SnowParam:
- max 8 cores
- use detectcores() / mc.cores if available
o Modify .convertToSimpleError() to convert NULL to NA_character_
BUG FIXES
o Fix recursion problem for BPPARAM as list
o Modify bpaggregate() to run in parallel
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