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ChangeLog
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ChangeLog
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2023-10-03: Ver. 0.5-1
* Fix warnings related to gcc-13 and lang-13.
2023-09-09: Ver. 0.5-0
* Alter system environment variables "TMPDIR" to where R tempdir() is
such as "Rtmp..." since newer OpenMPI dumps some temporary directories and
files to "TMPDIR" (or "-mca orte_tmpdir_base") when it runs.
* Add ".pbd_env$MPI.TYPE" in the initial function .mpiopt_init() to export
the "mpi.type" with default "OPENMPIxi"'.
2023-09-03: Ver. 0.5-0
* Remove meta data from man.
* Put vignette pdf back.
* Modify CITATION.
2023-08-31: Ver. 0.5-0
* Managed RNG streams now use comm.set.seed() and comm.set.stream() for
resource-independent (rank and core) guaranteed reproducibility
* Added capability in comm.chunk() can set up managed RNG streams
* Unmanaged RNG now defaults to R/base: likely different streams but not
guaranteed
* Imports L'Ecuyer-CMRG from `parallel` package instead of `rlecuyer`
* demo/seed.r replaced with demo/seed_rank.r and demo/seed_vec.r
* Various documentation updates
2022-11-20: Ver. 0.4-7
* Some doc and minor code changes.
2022-08-06: Ver. 0.4-6
* comm.chunk() function added for more data chunking options.
* Replace class() with inherits() for "try-error".
* Modify "appveyor.yml".
* Fix "strict-prototype" warnings.
2022-03-10: Ver. 0.4-6
* Fixed "info" interaction with slurm functions on some HPC systems.
* Rename global variables by adding "global_spmd_" to variables that
may be potentially affected.
2022-03-07: Ver. 0.4-5
* Initialize/free some fake info and avoid MPI_INFO_NULL.
2021-11-05: Ver. 0.4-4
* Update autoconf to 2.71.
2020-01-26: Ver. 0.4-3
* Change "execmpi()" to finalize current mpi first.
2019-12-01: Ver. 0.4-2
* Fix multiple definition warnings due to "-fno-common" as default in gcc-10.
2019-11-21: Ver. 0.4-1
* Remove "00LOCK-pbdMPI/00new/" from Makeconf generated by Makevars.win for
64bit MS-MPI library only.
2019-11-17: Ver. 0.4-0
* Fix `isend()` by adding `spmd.check.type.send()` which is needed
by `recv()` for handshaking.
2019-05-07: Ver. 0.4-0
* Fix check type for send/recv long vectors.
2019-04-07: Ver. 0.4-0
* Add "inst/mpi_valgrind" for checking and comparing memory lost, etc.
2019-02-23: Ver. 0.3-9
* Add IBM MPI support for Summit supercomputer.
2019-01-20: Ver. 0.3-9
* Migrate float32 class to float package via import in NAMESPACE.
* Export `get.conf()`, `get.lib()`, and `get.sysenv()`.
2018-09-21: Ver. 0.3-9
* Adjust "get.mpi.comm.ptr()" and "addr.mpi.comm.ptr()" and their C codes.
* Add a test example "inst/tests/mpi_comm_ptr.r".
2018-08-22: Ver. 0.3-9
* Fix examples and add man helps for the new "send()" and "recv()".
2018-08-21: Ver. 0.3-9
* Add more "check.type()" for flexible "send()" and "recv()".
* Change examples in "inst/" to force "check.type" as FALSE wherever
"send/recv" and "isend/irecv" are involved.
2018-08-12: Ver. 0.3-9
* Add "get.mpi.comm.ptr()" and "addr.mpi.comm.ptr()" to get MPI_COMM pointers.
* Add C combine R example in "inst/".
* Add more flexible "send()" and "recv()".
2018-08-03: Ver. 0.3-8
* Fedora28 use "module load mpi/openmpi-x86_64" to obtain mpiexec.
* Roll back partially to Ver. 0.3-6 because pkg-config may give linking order
differently that may trigger some dynamic loading problems.
2018-07-29: Ver. 0.3-7
* Add "pkg-config" to "configure.ac".
* Check "OpenMPI" and "MPICH2" with "pkg-config".
2018-05-18: Ver. 0.3-6
* Move "rlecuyer" to Imports.
2018-04-30: Ver. 0.3-6
* Change some problems related UTF-8, latin1 TeX inputs, especially for
TeXLive 2018.
2018-02-25: Ver. 0.3-5
* Fix execmpi().
* system(wait = FALSE) doesn't work with MPI correctly in Unix-alike systems.
* Execute MPI in background and dump the results to the log file.
* Read the results back in from the log file when the job is complete.
* Windows system can not do the background job, but wait = TRUE is fine.
2018-02-17: Ver. 0.3-5
* Add execmpi().
2017-12-12: Ver. 0.3-4
* Added comm.localrank().
2017-12-02: Ver. 0.3-4
* Fix a "spmd.gatherv_array()" bug.
2017-11-16: Ver. 0.3-4
* Added "spmd.allreduce.float()" and "spmd.reduce.float()".
2017-09-24: Ver. 0.3-4
* Fix man help regarding "task.pull()".
2017-07-04: Ver. 0.3-4
* Fix a finalize bug in "spmd.finalize()" C code.
2016-12-17: Ver. 0.3-3
* Change web address.
2016-10-08: Ver. 0.3-3
* Add .travis.yml.
2016-09-25: Ver. 0.3-3
* Change to "https://cran.r-project.org/...".
2016-07-17: Ver. 0.3-3
* Improve Makevars.win for both MS-MPI HPC package and SDK package.
2016-07-14: Ver. 0.3-2
* Use Rtools34.
* Use MS-MPI v7.1.12437 published on 06/22/2016.
2016-01-27: Ver. 0.3-2
* Drop initialization of .pbd_env.
* Migrate to R-3.3.* and R-3.4.*.
* Use Rtools33.
2015-12-30: Ver. 0.3-1
* Drop pbdCS temporarily.
2015-12-19: Ver. 0.3-1
* Add pbd_opt().
2015-11-03: Ver. 0.3-0
* Simplify global options.
2015-10-24: Ver. 0.3-0
* Change to common environment, but this will create masking, overwritting,
and texting problems when other pbdR pacakges are loading.
* Change again to .pbd_env, .mpiopt_set(), .mpiopt_get(), and
.mpiopt_init() with huge options rewritting.
2015-10-22: Ver. 0.3-0
* Fix comm.set.seed problem.
2015-10-17: Ver. 0.3-0
* Drop "data/envir.r".
2015-09-05: Ver. 0.3-0
* Check with ZMQ and CS.
* Rename global Env again.
2015-08-30: Ver. 0.3-0
* Reversion to 0.3.
* Change option controlling method. Move from data to new.env.
2015-08-16: Ver. 0.2-6
* Add barrier to task.pull, pbdLapply, pbdSapply, and pbdApply.
2015-08-10: Ver. 0.2-6
* Add alltoall and alltoallv, example, manual.
2015-07-21: Ver. 0.2-6
* Modify Description.
* Hide spmd_comm_spawn if MPI2 is not defined (needed for impi).
2015-07-03: Ver. 0.2-6
* Check autoloaded MPI symbol for mac.
* Change NAMESPACE for --as-cran.
* Change zzz.r.in for dyn.load() using local=FALSE.
2015-05-30: Ver. 0.2-6
* Register comm.sort in S3method.
* Modify Description.
2014-03-20: Ver. 0.2-6
* Add bcast message.
2014-12-07: Ver. 0.2-6
* Merge R_CallMethodDef for speeding up dynload problems.
2014-10-19: Ver. 0.2-6
* Add is.finalized() for the CS problem.
2014-10-02: Ver. 0.2-5
* Fix no visible binding for global variable problem.
2014-09-xx: Ver. 0.2-5
* Implement two stages allreduce and allgather.
2014-08-23: Ver. 0.2-5
* Add vignettes FAQ solution for MacOS 10.9.4, OpenMPI 1.8.1 and R 3.1.1.
2014-07-28: Ver. 0.2-5
* Add comm.split.by.node().
* Add comm.within and comm.between.
2014-06-30: Ver. 0.2-5
* Add divide.job.vector() and divide.job.list().
* Add LD_LIB_PATH to configure.ac and zzz.r.in.
2014-06-21: Ver. 0.2-5
* Drop jss.cls and jss.bst.
2014-05-27: Ver. 0.2-4
* Change to MPI_Comm_set_errhandler().
* Fix Makevars.win logic.
2014-05-24: Ver. 0.2-3
* Start official migration to MS-MPI.
2014-05-10: Ver. 0.2-3
* Add logical and bit-wise AND, OR, XOR to allreduce() and reduce().
* Improve comm.allcommon().
2014-05-04: Ver. 0.2-3
* Add comm.as.gbd(), comm.pairwise(), and comm.dist().
* The isend() non-blocking problems solved via buffering.
2014-04-01: Ver. 0.2-3
* Fix a bcast() bug of unbalance call stack by switching to spmd.bcast.default
for vectors of integer and double.
2014-03-22: Ver. 0.2-3
* Adjust configure.ac and Makeconf for pbdSSLAP.
2014-03-11: Ver. 0.2-3
* Add try options to task.pull().
2014-01-28: Ver. 0.2-3
* Fix bcast() bugs.
* Fix spmd.scatter.array() bugs.
* Fix seed problem again.
2014-01-25: Ver. 0.2-2
* Add comm.read.table(), comm.read.csv(), and comm.read.csv2(), and
man pages and a section to vignettes.
* Fix get.jid() option.
* Fix bugs in comm.write.csv() and comm.write.csv2().
2014-01-20: Ver. 0.2-2
* More tests on downstream pbdR package with MS-MPI.
2014-01-12: Ver. 0.2-2
* Add Prof. Brian Ripley's trick to MS-MPI's 64bits support.
* Move system requirements from MPICH2 to MS-MPI as Windows standard MPI.
2014-01-05: Ver. 0.2-2
* Add Intel Miscrosoft HPC Pack 2012 (MS-MPI) support.
* Add FreeBSD support suggested by Christian Heckendorf.
* Fix seed problems.
2013-12-03: Ver. 0.2-2
* Add Intel MPI support.
2013-12-01: Ver. 0.2-2
* Add comm.range(), comm.max(), and comm.min().
* Add comm.which(), comm.which.max(), and comm.which.min().
* Add comm.length(), comm.sum(), comm.mean(), comm.var(), and comm.sd().
2013-11-26: Ver. 0.2-2
* Disable seg. fault of overloading .RData and .RHistory.
2013-11-02: Ver. 0.2-2
* Fix some bugs and add gathering for task.pull(), pbdLapply(), and
pbdSapply().
* Add comm.Rprof().
2013-10-02: Ver. 0.2-2
* Add comm.write(), comm.write.table(), comm.rite.csv(), and
comm.write.csv2().
* Add comm.split(), intercomm.merge() and intercomm.create().
2013-09-21: Ver. 0.2-1
* Fix pbdPROF configure problem.
2013-09-14: Ver. 0.2-1
* Add Comm_connect, Comm_accept, Open_port, Close_port, Publish_name,
Unpublish_name, and Lookup_name.
* Add Client/Server examples.
2013-09-03: Ver. 0.2-1
* Simply replace LENGTH by XLENGTH does not solve the longer vector problem.
Follow R/src/main/memory.c to support longer vectors since int is 32-bit
for both of i386 and x86_64 systems.
* Add MPI_PROC_NULL to sendrecv() and sendrecv.replace().
2013-08-01: Ver. 0.2-1
* Fix i.lib problem in "R/zzz.r.in".
* Remove --with-Rmpi-* from configure.ac.
* Add MPICH for MPICH version 3 or later.
* Replace LENGTH by XLENGTH in all src/*.c to support longer vectors.
2013-07-24: Ver. 0.2-0
* Move fpmpi to pbdPROF and link with it's static library.
* Add mpiP and TAU.
* Move pbdDEMO::timer() to pbdMPI::comm.timer().
2013-07-05: Ver. 0.1-9 (unreleased and merged to Ver. 0.2-0)
* Change spmd.isend.default() to blocking send.
2013-07-03: Ver. 0.1-8
* Move inst/doc/vignettes/ to vignettes/.
* Add fpmpi license.
2013-07-02: Ver. 0.1-7
* Fix man page.
* Fix pbdApply.
* Add messages to interactive mode.
* Drop some barrier in comm.print and comm.cat.
* Add FAQ to vignette.
* Add fpmpi.
* Add task pull parallelism.
* Move vignettes.
2013-03-24: Ver. 0.1-6
* License changed.
* Add "block0" to get.jid and fix its bug.
* Add FPMPI for profiling.
2013-03-11: Ver. 0.1-5
* Add and fix comm.stop and comm.warning.
* Add set.seed in .onLoad to give a default set.
* Fix symbol.rds problem.
2013-01-17: Ver. 0.1-4
* Add control to comm.print and comm.cat.
* Fix .Last.lib problem.
* Fix comm.all and comm.any na.rm bug.
2012-12-13: Ver. 0.1-3
* Fix Mac OSX dynamic loading problem.
* Fix .GlobalEnv problem.
* Fix multi-arch problem.
* Add copyright to vignette.
2012-10-30: Ver. 0.1-2
* Add comm.all and comm.any, and rename g.sort to comm.sort.
2012-10-02: Ver. 0.1-1
* Make changes for Nautilus. Drop "pbdMPI:::* ideas" for other pbd packages.
* Make changes for pbdSLAP, pbdBASE, and pbdDMAT.
* Add seed functions.
* Add global sorting functions.
* Modify configure.ac and Makevars.in for Solaris and pbdSLAP, pbdBASE, and pbdDMAT.
======================= Log Before Release =====================================
2012-09-01:
* Rename to 'pbdMPI'.
* Add 'apply'-alike functions.
* Adjust "Makevars.win".
2012-08-11:
* Convert configure.ac back to Rmpi's version.
* Add "mpicc --showme" for OpenMPI and "mpicc -show" for MPICH2 in
configure.ac to automatically detect header files and shared library.
* Rewrite HPSC website.
2012-07-28:
* Rewrite configure.ac.
* MPICH2 is working on Windows 32/64bit. (OpenMPI 1.6 64bit can not run.)
2012-07-07:
* Minor adjustments for RmpiBLACS.
* Change major support to OpenMPI.
2012-06-25:
* Write vignette.
* Build binaries for Windows with OpenMPI and MPICH2.
2012-06-06:
* Write examples and codes for performance test.
* Add methods for array/matrix types.
2012-05-17:
* Build RmpiSPMD preliminary.
* Rewrite all C and R codes.
* Build in S4 methods.
* Move Master/Workers to RmpiMW.
2012-05-15:
* First try for Master/Workers.
* Build Rmpi2 preliminary.
* Try S3 methods.
* New remote exec/cmds by sending text strings.
2012-03-21:
* First try for Rmpi_0.6-0.
* First try for Rmpi2.
* Add controls for MPI pointers.
2011-10-xx:
* First try for Master/Slaves in Rmpi.