Merge branch 'master' of 'gitclone' into svn trunk

The following changes were merged:
commit 02942597253216bdf58b5c7f2f9a5288ce274777
Author: Max Sagebaum <sagebaum@mathcces.rwth-aachen.de>
Date:   Wed Apr 3 10:55:33 2013 +0200

    Allow adouble objects to be initialized late

    This functionality is specially required for large codes that allocate
    memory using malloc/calloc and we only wish to substitute the double
    datatype with adouble for tracing purposes. With malloc/calloc the
    adouble constructor is not called, creating problems later in the code.
    Late initialization defers some of the initialization to the first use
    of an allocated space as an adouble object. This is only possible because
    the class heirarchy in ADOL-C does not require polymorphism, and virtual
    tables to be allocated, which can only be done in a chained superclass
    constructor call.

    The functionality is disabled by default and can be enabled by a configure
    switch --enable-lateinit

    This code is experimental and has only be tested with particular codes.

    From: Max Sagebaum <sagebaum@mathcces.rwth-aachen.de>
    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>
    CC: Andrea Walther <andrea.walther@uni-paderborn.de>
    CC: Nicolas Gauger <gauger@mathcces.rwth-aachen.de>

commit 768851025e58a7605f0e9b6a65f51bfc3c2977f4
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue Apr 2 11:14:50 2013 +0200

    add dvi file to gitignore

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 80357742a527a4f4b9ef6323553279eb260cc7df
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue Apr 2 11:14:37 2013 +0200

    remove as many compiler warnings from gcc -Wall as possible

    only -Wunused-value remains, as we do indeed ignore some
    values computed when we are in INDO, NONL_IND or
    INT_FOR, INT_REV modes.

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@427 94ac48a7-3327-4b6a-8511-9a4036a20e83
get rid of fmin/fmax for doubles in traceless case

this is the traceless companion of git commit

  1da1fa5bc7f5b9eada18c25026fd8ff25c8a91bb


Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@428 94ac48a7-3327-4b6a-8511-9a4036a20e83
merge branch 'new_traceless' into svn 'trunk'

Also update the tapeless_scalar and tapeless_vector examples updated

The following commits have been merged:

commit b8092a92979317d8c4926a2f01799e3f86493b87
Merge: b883461 d1739a3
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue Apr 30 14:31:20 2013 +0200

    Merge branch 'master' into new_traceless


    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit b883461efcdf7ac54268e37884b7d48f94362dad
Author: Benjamin Letschert <letschi@mail.upb.de>
Date:   Fri Aug 31 13:35:30 2012 +0200

    correct all assignment operators to return this

commit abadb57fb63c5ebe58603313a477d5c62bd75a23
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Fri Jun 8 11:32:52 2012 +0200

    use inlining again as much as possible

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 72159664f51564d898a4e8cf24c00169991d43ab
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Mon Jun 4 18:20:33 2012 +0200

    bugfixes and efficiency fixes for new traceless mode

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit b3139b5123a9e177bb02c93588cd6b48ed365873
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue May 29 16:23:38 2012 +0200

    get rid of compilation errors

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 9ffa38f804f69f9e2162020aa29adb791fa2966e
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue May 29 15:57:48 2012 +0200

    add files to build system

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 288b0b568c6b7b10d0eddc649e8c79c65600f62e
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue May 29 15:50:31 2012 +0200

    reimplement tapeless mode

    due to larger functions required with sparsity pattern detection, the
    preprocessor based implementation of the tapeless mode was bad. now it
    is a runtime based implementation.

    the user does
    #include <adolc/adtl.h>

    using namespace adtl;

    there is no more need for ADOLC_TAPELESS_UNIQUE_INTERNALS.

    the user needs to call setNumDir(n) for n>1
    and setMode(ADTL_INDO) for sparsity detection
    then later setMode(ADTL_FOV) for getting derivatives

    one could also do setMode(ADTL_FOV_INDO) for both simultaneously.

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit c5bb5abcb3aceeb9ca7e4ac99b3f50e0ae6ac8db
Author: Benjamin Letschert <letschi@mail.upb.de>
Date:   Fri Mar 30 13:15:03 2012 +0200

    Adding control variable for ADOLC_Init_sparse_pattern

commit b5ae7415cb4bb90d80a1f0cfbcc53197cff7939e
Author: Benjamin Letschert <letschi@mail.upb.de>
Date:   Thu Mar 29 18:24:42 2012 +0200

    Adding ADOLC_TRACELESS_SPARSE_PATTERN in traceless mode

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@429 94ac48a7-3327-4b6a-8511-9a4036a20e83
Make it easier to debug location problems

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@430 94ac48a7-3327-4b6a-8511-9a4036a20e83
Fix example compilation

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@431 94ac48a7-3327-4b6a-8511-9a4036a20e83
don't call free_loc() on unintialized locations

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@432 94ac48a7-3327-4b6a-8511-9a4036a20e83
Copy constructor of adub should never be called.

badouble copy constructor is called via adouble but all the work is done
in adouble so don't do anything in badouble. Copying the location is
definitely the wrong thing to do here.

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@433 94ac48a7-3327-4b6a-8511-9a4036a20e83
Obly bring freed block to front if it isn't already there

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@434 94ac48a7-3327-4b6a-8511-9a4036a20e83
less work in free_loc() for StoreManagerLocintBlock

but work still needs to be done in ensure_block()

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@435 94ac48a7-3327-4b6a-8511-9a4036a20e83
add adolc_ namespace to generic defines in dvlparms.h

otherwise it is possible that they cause define conflicts.

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@436 94ac48a7-3327-4b6a-8511-9a4036a20e83
fix compilation under visual studio

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@437 94ac48a7-3327-4b6a-8511-9a4036a20e83
Initialize SubBufferElements to zero by default

SubBufferElements may not be initialized with zeros automatically as many
recent systems do not initialize allocated memory automatically to zero.
Since we check later for zero we must initialize them in the default case
to be zero.

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@438 94ac48a7-3327-4b6a-8511-9a4036a20e83
Merged 'ampi' changes from Jean Utke <utke@mcs.anl.gov>

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>
Acked-by: Andrea Walther <andrea.walther@uni-paderborn.de>

The following commits were merged:

commit a08916181e7dbe9608cab4419ad70c057f485270
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Thu Nov 7 12:37:44 2013 +0100

    If built with AMPI support rename the output library to libadolc_ampi

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>
    Acked-by: Andrea Walther <andrea.walther@uni-paderborn.de>

commit 34c092c8a47c6c0d52bdc685164398b867a549ef
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Thu Nov 7 09:25:55 2013 +0100

    Revert "separate out AMPI implementation from the traditional library"

    This may cause problems with incompatible versions of the compiler
    that is behind mpicc/mpicxx and $CC/$CXX. (Although in my opinion
    this is a broken setup).

    This reverts commit 10253b63f309d4e858e9cab6a803be112b46b818.

commit 10253b63f309d4e858e9cab6a803be112b46b818
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Wed Nov 6 15:41:19 2013 +0100

    separate out AMPI implementation from the traditional library

    this allows for compilation with ampi enabled, but still be able to
    use the library for non-mpi/ampi applications by simply linking to
    libadolc. For mpi/ampi the user should link to libadolc_ampi and libadolc

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 48922378ec069ed08d732ef8f30f0b751381714e
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue Nov 5 13:16:09 2013 +0100

    Add authorships and missing file preambles

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 69bfc3eb6618891bdbeb0e4990da971c3bd52c04
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Oct 23 15:19:30 2013 -0500

    adapt to interface changes done by Laurent

commit 8752b2db8b7d341e11d53fdc1eba85d28e7ff4b3
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Oct 23 11:29:13 2013 -0500

    flip to order so as to not try to access (potentially uninitialized) buffer when count is 0

commit 926d5f5fc68ccebadc4b6c4a842c23fd4beaa5bd
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Oct 21 22:25:30 2013 -0500

    cleanup these types

commit 44e478edf30c7e2abb8fc25c44baa3c23f983a17
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Oct 21 15:39:34 2013 -0500

    fix memory leak

commit fc1154661cd3558dedbfa199d0be81403ddabbf5
Merge: ea3e23a 5c5e99f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Oct 9 09:50:59 2013 -0500

    Merge branch 'master' into ampi

commit ea3e23ae020d1953b8730a50f1c79a90f9e6928c
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Oct 8 23:13:38 2013 -0500

    should not use C++ style comments in C files

commit cfc83b0f48f18921b97ac315710340fdd3269cfa
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Oct 8 22:49:49 2013 -0500

    an immediate problem is the use of C++ style comments  "//" in a header file included by C sources.
    while removing this problem we also simplify the logic.

commit 30e873e7b26314b784276b42c7de5dff99f6d560
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Oct 8 14:37:29 2013 -0500

    without this additional case the wrong "fixes" are applied to the clang compiler regardless if one is under cygwin or not - somebody who builds on cygwin should try to find out if these libtool "fixes" below still are truly needed...

commit ab0dbe49d5c328cff38a59dc484e9cc55120b050
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Oct 4 15:43:20 2013 -0500

    fix (un)packing for fos_forward and indentation

commit d74625e07355b3eead19f7347d098ee7d4f0ad5f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Oct 4 15:42:32 2013 -0500

    set work modes

commit 97d60945babadd17a1d6f1d7163a2b40fb058429
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Oct 4 11:06:38 2013 -0500

    provide a setup for forward mode MPI_PROD and some logic for operation creation

commit b5e9158a4f94a448a4ee89bcb40c5c7f29b8694f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Oct 3 14:59:41 2013 -0500

    need to deref ...

commit 440b728a2a464e416d24dfb2860e12ac832c3d45
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Oct 3 11:33:48 2013 -0500

    first stab at implementation

commit 6188fa5a97d3c128766b0239961fb5ee2280db64
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Oct 3 11:33:06 2013 -0500

    refactor taylor_begin to make sure the tape infos always have the buffer pointer for the forward run (and associated dimensions) regarless of Taylors being kept or not

commit 3b95b9d906bf4d0583c24aecf7d94440ed09a582
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Oct 3 11:31:21 2013 -0500

    comments only

commit af477e37a356d3c1c1bcc8fd7d9b59d80b395077
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Oct 2 01:06:19 2013 -0500

    ADOLC_TLM versions for forward mode

commit 2ce670537a2e2960ecf6c24b533f817c1c630307
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Oct 1 16:12:52 2013 -0500

    improve the logic to avoid consolidation and add some debugging info to gauge how frequently consolidation happens

commit 8a1b237c3c20208f0f72a4406c48a536305bc2eb
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Oct 1 11:08:07 2013 -0500

    don't leave bad pointer values around

commit 4e04dbe83f222cd434b967a5876b28137c50ed02
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Sep 30 15:45:44 2013 -0500

    without these a build  in a separate build directory fails because the preprocessor cannot find adolc/adolc_settings.h

commit 57fdb4f40899c34936d442d2d8880c42668aebe2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Sep 27 12:16:01 2013 -0500

    add logic to prevent any attempts to clean up tape/trace files which can be useful if file operations take a long time, e.g. on slow parallel file systems

commit e2b09cf9dba2b48897a3ffac68af007c1aaf5317
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 24 16:00:08 2013 -0500

    first stab at adding some control logic to the way the garbage collection works for free locations

commit d94bb3a5cef3abae2a56837fc276f2ada01d9fe5
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 17 13:24:03 2013 -0500

    fix printing logic

commit de44b3d7a14d34fa9102b37bdf5fa7663bab9048
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 17 13:23:45 2013 -0500

    typo

commit e90b19dc764e0de8620a45e997c68baebdfb4077
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 17 01:37:13 2013 -0500

    because we have the guards in place avoiding the access of values that have not been set in the MPI_IN_PLACE case (shown by valgrind)  we do not need to use calloc here

commit 908d9aefe2cb8fec12d747f8e67f9181e919f77c
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Sep 16 21:59:34 2013 -0500

    avoid writing uninitialized values to file

commit 7b925083fdf9cb8e465a0984942e1769055b0ae3
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Sep 16 21:59:06 2013 -0500

    get the proper output here

commit b5a4c1da51f55c8b0711940f9f58373a3ece1017
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Sep 16 21:48:31 2013 -0500

    if this is not zeroed out and we have MPI_IN_PLACE then for that root
    segment the temp buffer will not receive anything but later on we will
    do an adjoint increment which could go wrong;  the alternative would be
    to preempt the adjoint increment for that segment.

commit bb6cbecafbc3be1d783861dd764662b9d64bf8e2
Merge: 2d4a680 a2d2de1
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Sep 12 15:05:50 2013 -0500

    Merge commit 'a2d2de1c5def616fc04e15f624211856656e68a3' into ampi

    Conflicts:
    	ADOL-C/src/ampisupport.cpp

commit 2d4a6801a51714e2c76b74fa857e1e3599d3a773
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Sep 11 22:15:43 2013 -0500

    change to avoid writing uninitialized data in the remainder part to the file - valgrind marks this - shouldn't be an actual problem but it doesn't cost much to make this clean

commit 086fd3030e9488ddfc7895cc9841ab84c3f05257
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Sep 11 13:19:15 2013 -0500

    avoid looking at the location for the all -null case when the buffer may be invalid

commit 722b71770bae88ca565a5e412260f6637d88f735
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 10 14:56:38 2013 -0500

    take care of the all null counts case

commit f8529cdd961c0afd01c6a6bc493ae6bb2637841a
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 10 13:51:12 2013 -0500

    make sense of the bit counts

commit da156dbe72f0b5e6cbba9fb9f9848c224c9f4502
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Sep 10 13:39:40 2013 -0500

    refactor assertion logic (done only for cases with non-userdefined types)

commit 47236cdc38958c8ee7dc51a6e87cf2b470e76335
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Sep 9 10:29:11 2013 -0500

    mpi_in_place is allowed only for rank root - openmpi complains and fails without this fix

commit d6f9c7196ebb4089e2e09ea125c8e33b6030039b
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Sep 6 12:41:32 2013 -0500

    replicate MPI_IN_PLACE chnages previously done for gather/scatter now for gatherv/scatterv

commit d4f5217add03d572660d7c094b0d30eab02eb091
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Sep 6 10:02:04 2013 -0500

    logic to deal with MPI_IN_PLACE

commit e1ae70b5c52ff9e99df79b63f06ca4a9655ad5b2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Sep 6 08:56:11 2013 -0500

    various fixes to the tapedoc so the ouput makes actual sense

commit a2d2de1c5def616fc04e15f624211856656e68a3
Author: Anton Bovin <fatherdeus@gmail.com>
Date:   Fri Sep 6 00:51:42 2013 -0500

    support for embedding structs in other structs

commit 4d58d15e603eb3f35c22d00b80e56ab27c16df84
Merge: bb6e202 128b649
Author: Anton Bovin <fatherdeus@gmail.com>
Date:   Fri Sep 6 00:39:42 2013 -0500

    Merge branch 'ampi' of http://git.mcs.anl.gov/adol-c into ampi

commit bb6e20218a68a31e3a30392af4ac63bf2bfaeb60
Author: Anton Bovin <fatherdeus@gmail.com>
Date:   Wed Sep 4 14:26:45 2013 -0500

    changed some code for efficiency and neatness, fixed allocateTempActiveBuf, implemented releaseTempActiveBuf

commit 128b649f628ed0d59641b70e95f652930d635ee7
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 28 22:37:06 2013 -0500

    tapedoc forward / reverse implementation

commit 847f3f83d2ae109e44d613b68ad1441c09951096
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 28 22:35:55 2013 -0500

    can't enforce the locint in the interface - it is defined to be unsigned and that may not match right away to the use; have to hope that locint size matches int size

commit 57b0b0c0cdcc326eca307ccbc923ea5fe3da83e1
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 27 17:42:12 2013 -0500

    implement (part I) the  variant to the external function with an expanded signature
    - remove crud from BUFFER template - locking down the first pointer type just gives trouble in the implementation and doesn't really add any more sanity to the buffer class
    - remove crud from the edf initialization
    - adapt checkpointing to the above
    - refactor the edf call to share prior and post call logic of the plain EDF variant with the newly expanded one

commit 36523c6e5c4284498b3309447e17866767a50b15
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 27 17:38:34 2013 -0500

    add a variant to the external function with an expanded signature

commit 749a20f85d5722aa7b28ec2343ce5db98925521e
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 27 17:37:49 2013 -0500

    allow for a putting a specified number of locations and thus make sure we have enough space...

commit 5e95f0533a68b8457fce2b479af902dffaddbee4
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 27 17:36:50 2013 -0500

    add a variant to the external function with an expanded signature

commit be68973e63698c93f6f03b336b387ff67571db17
Author: ubuntu <fatherdeus@fatherdeus.(none)>
Date:   Wed Aug 21 14:38:21 2013 -0500

    function pointers for active buffer functions

commit 5f8137dc79155b59f0f72ba864604c585ab3dc2d
Merge: 452b268 309fc69
Author: ubuntu <fatherdeus@fatherdeus.(none)>
Date:   Wed Aug 21 11:29:48 2013 -0500

    Merge branch 'ampi' of http://git.mcs.anl.gov/adol-c into ampi

commit 452b26882f0d27bc393bbaa71a4b0751e1d34f7a
Author: ubuntu <fatherdeus@fatherdeus.(none)>
Date:   Wed Aug 21 11:29:22 2013 -0500

    functions to allocate and copy buffers containing active values

commit 309fc69e68a3c0a9cf9840cbdc72432180a0dcf7
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 21 00:31:02 2013 -0500

    remaining function pointers

commit 4338c2042d4e6b8ad1d12f3426546cf19492e516
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 21 00:05:42 2013 -0500

    8 more function pointers

commit 6eebfd181d5810e1d409f3972550397328e54e12
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 20 23:40:21 2013 -0500

    9 more function pointers

commit 393ca02a79ed7dc362892855feb57c6924d986b3
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 20 18:02:05 2013 -0500

    6 more function pointers

commit 45751dcfb55c2035c208bbde1dfc4ba57e2d67cf
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 20 17:39:13 2013 -0500

    12 more function pointers used

commit 25730c27ce1f62e2ca6546be13bfbb2af10955f7
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 20 15:50:53 2013 -0500

    start using the function pointers - here done for the bcast push/pop as a sanity test before we expand to all of them.

commit 3b18d41c7024881aa79c7a6b38c7452841e2494a
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Fri Aug 16 15:47:15 2013 -0500

    testing function for temp adouble buffer

commit 2685286e7e355b63aaa6fa7e95f3d85cbbe78265
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Fri Aug 16 13:30:17 2013 -0500

    removed MPI_LB/UB, shortened type-mapping function names

commit 3f8441b1125cda2837fbe145cced1df8623c7ae2
Merge: d8d5114 20cb519
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Aug 15 13:30:20 2013 -0500

    Merge branch 'ampi' of http://git.mcs.anl.gov/adol-c into ampi

commit d8d51145a61710a0a7cf0bfc68e7627e14314273
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Aug 15 13:29:23 2013 -0500

    MPI_LB in pack/unpack, functions to map types for MPI transfer, derived types in getAdjointCount and pushBcastInfo

commit 20cb519f2f9b1b3d4b3a4a02c049a5d88c5fa32c
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 14 17:24:18 2013 -0500

    barrier implementation

commit ac8ecf84328d445aafcd89eaee135cfb0297fcb1
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Aug 14 01:05:10 2013 -0500

    allreduce implementation

commit e6c42d9d7a3013bc4399af538ad581cfd33c853a
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 16:48:28 2013 -0500

    allgatherv

commit 2781198180e1a5b8eed05fb6e495f8dc85420469
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 15:14:41 2013 -0500

    adapt to interface change

commit f0b3cc09bc68bd50a72c5e804dca22e88b952163
Merge: 19f3a87 c8feb7d
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 13:09:30 2013 -0500

    Merge branch 'ampi' of ssh://login.mcs.anl.gov/home/utke/GitMain/CodeReps/adolc into ampi

commit 19f3a87916a9b1e5f66dee1d40d5c0aa70a8d7de
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 13:09:05 2013 -0500

    all gather implementation in tapedoc fo_rev

commit 2ee66f85083514a5c8734ccbd22f05a6562edbe9
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 13:08:45 2013 -0500

    allgather support

commit cc09426611e2233d328904f086382ae2a5dccc3b
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 13 13:08:17 2013 -0500

    op code of allgather

commit c8feb7d8b40d27dc971389c04df1e7cdc69ac92b
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Tue Aug 13 13:03:28 2013 -0500

    rawData_DType inputs, split popReduceInfo

commit 5d02100e8aba88d9a0164c69a536d0e1f8cd3802
Merge: 2f3a3b6 50e4db6
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Mon Aug 12 14:29:11 2013 -0500

    Merge branch 'ampi' of http://git.mcs.anl.gov/adol-c into ampi

commit 2f3a3b6811cb15dcc4bb53f554670c4111bf83ba
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Mon Aug 12 12:01:00 2013 -0500

    equality operation on buffers

commit 50e4db6227d7bf55d1aaf2b57117b2e0acbb61b4
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Aug 12 10:13:47 2013 -0500

    gather/scatter tapedoc

commit f352d54b1d50ddbfa4402b3b1ce6455a92deb8e5
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Aug 12 10:13:33 2013 -0500

    gather/scatter reverse mode

commit 849fbd87c3bb9ee8a210122dc9ab94fe65b724f7
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Aug 12 10:13:12 2013 -0500

    G/S push pop;   renamed ADTOOL_AMPI_popGSVcommSizeForRootOrNull to ADTOOL_AMPI_popGScommSizeForRootOrNull following the AMPI change; op code mapping and gather/scatter forward implementation

commit 81c81a81dc382adfee32c16e4d616cc4d4f499c3
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Aug 12 10:11:24 2013 -0500

    add gather/scatter opcodes

commit 9236071e0f2bbeb2c2bafafc620c32499b13d4ca
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Aug 9 12:41:11 2013 -0500

    unify the AMPI tape resets in taping.c  - can remove from tapedoc

commit cc0f25695026e5b18fede40a913239c543da172d
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Aug 9 11:32:15 2013 -0500

    need to reorder includes to get config.h

commit 8d8af07a872c79185d9ef6ef098627214a91e8fd
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Aug 9 10:15:53 2013 -0500

    wrap this

commit a27587851798129d7a1b53ecba10649a8e1b2067
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Aug 8 14:00:54 2013 -0500

    make execution of  all push code conditional on
    if (ADOLC_CURRENT_TAPE_INFOS.traceFlag) {

commit 78931b814d30d12fdcdc123654aef6b2bc418b45
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Wed Aug 7 11:03:09 2013 -0500

    moved type definitions here from AdjoinableMPI

commit 956af6b1405fa7809d564e40c47bc3d76a28c317
Merge: a340b5a a46e84a
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 6 15:58:14 2013 -0500

    Merge branch 'ampi' into newAmpi

commit a340b5a7881eb3f628956ec7b757ae1eb5452f7f
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Tue Aug 6 15:30:38 2013 -0500

    added support for derived types

commit a46e84ab7d80300e4e3b8ae5e1590099876d96af
Merge: c20ab6a 4f5f245
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 6 14:28:29 2013 -0500

    Merge branch 'master' into ampi

commit c20ab6aa59954fcf5f14111065b3c053a991052a
Merge: 6e3d93c dedbda2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Aug 6 14:20:49 2013 -0500

    Merge branch 'ampi' of git.mcs.anl.gov:adol-c into ampi

    Conflicts:
    	ADOL-C/src/ampisupport.cpp
    	ADOL-C/src/fo_rev.c
    	ADOL-C/src/oplate.h
    	ADOL-C/src/tapedoc/tapedoc.c

commit 6e3d93c40409549d59cf68a210780599fabfd990
Merge: 121013a 889d1d2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Jul 12 15:32:33 2013 -0500

    Merge commit '889d1d22d15f0f198e6477cabfc70e247bfefd42' into HEAD

    Conflicts:
    	ADOL-C/src/ampisupport.cpp
    	ADOL-C/src/fo_rev.c
    	ADOL-C/src/oplate.h
    	ADOL-C/src/tapedoc/tapedoc.c

commit dedbda2f8fdde0a636014995a78de2e65531ba84
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Fri Jul 12 15:01:20 2013 -0500

    conflicting defs in fo_rev fixed

commit 3102a1e1f1be083800ff37f891e77b3f1d604d1e
Merge: e2c8379 121013a
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Jul 11 17:22:35 2013 -0500

    commit again after merge

commit e2c837904af0a90f8188ebc367935c80b76eeb93
Merge: 889d1d2 d1739a3
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Jul 11 17:10:46 2013 -0500

    Merge ssh://login.mcs.anl.gov/home/utke/GitMain/CodeReps/adolc into ampi

commit 889d1d22d15f0f198e6477cabfc70e247bfefd42
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Jul 11 16:50:48 2013 -0500

    removed int rank from tapedoc.c

commit 550bc68878cd2b2a3058ae8c0602058676609603
Author: loremipsum14 <fatherdeus@gmail.com>
Date:   Thu Jul 11 16:26:50 2013 -0500

    Functions for Bcast+Reduce, cases for fo_rev.c, cases for tapedoc.c, opcodes for oplate.h

commit 121013af05b9f5695142a568be82d5475ce5e042
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Jul 9 15:32:43 2013 -0500

    gatherv/scatterv

commit a854ae8c0d95783a8a1ba7febef62243e17aa0cf
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Jul 9 15:32:19 2013 -0500

    implementation for new ADTOOL interfaces and reference to new opcodes

commit c7d0709360ddbaeaef7d56b23c8f68558ef6535f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Jul 9 15:31:38 2013 -0500

    new opcodes

commit d44dd7d2fbbbdd50d01eff25425815132bc29938
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Mar 13 12:13:07 2013 -0500

    replace active flag with active type

commit 8e638844f395784b619870e279380d0bab1849bb
Author: Michel Schanen <schanen@stce.rwth-aachen.de>
Date:   Wed Feb 27 09:53:31 2013 +0100

    Fix to the popSRinfo signature

commit 46e8b0208497d260b69ff631f0c43b062fb7672e
Author: Michel Schanen <schanen@stce.rwth-aachen.de>
Date:   Wed Feb 27 09:47:00 2013 +0100

    AMPI interface changes due to dco

commit 6411cf3d8fdecb6703996b49422f8cc5742a543a
Merge: 36d5c8c 86aa51a
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Jan 25 09:29:34 2013 -0600

    Merge branch '2.3.x_ISSM' into ampi

commit 36d5c8cdb76f1694465957dfdad9b8e397c9a298
Merge: d891bd7 fc0e23e
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Jan 25 09:22:26 2013 -0600

    Merge branch 'master' into ampi

commit d891bd7432731a3777226a21e0c4fe5284b829d6
Merge: 120a0ba 032b76f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Fri Jan 25 08:58:55 2013 -0600

    Merge branch '2.3.x_ISSM' into ampi

commit 120a0ba02bf99bf2a04e312510e60702e1c4b164
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Jan 24 14:36:55 2013 -0600

    be consistent about using the adjointBuf

commit f899a455d1bd53faf0326976522238ca4ee72c66
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Jan 24 12:13:09 2013 -0600

    additions or irecv-send-wait

commit ac36a673810f5926be10eb66508eb01a72fce35f
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Thu Jan 24 10:02:38 2013 -0600

    adapt for modified adtools interfaces; use the generic tape to keep MPI opaque types opaque

commit a0389f9f53849bfff2094621fa262c0bf68d87c9
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Jan 2 17:15:37 2013 -0600

    it is rp_A  (not rp_T)  and of course we needed the implementation of the increment and the decrement

commit ea9b3cd404ad4dd7e2d47a12e30d4b17496c8f8c
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Jan 2 17:14:32 2013 -0600

    we put more on the trace now

commit 2ac3e09235779a60e348483bde31496e84addca6
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Jan 2 17:14:13 2013 -0600

    undo a previous change

commit d51e220310d57285af9d667ef590215ac88b4f66
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Jan 2 16:01:49 2013 -0600

    need to set the count - of course

commit 903ab9374046ba9f7e4be44cf95d1d66e0942e84
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:47:17 2012 -0600

    need to get the request in tapedoc too

commit 37d8b9a62a7d98a050fe3f718fb670f4366bc36a
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:46:34 2012 -0600

    trace the request as an identifier to retrieve the AMPI request from the book keeping

commit 7c6cdbb18e92a3b0c7ee1c970f0d635cc9c6b895
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:43:37 2012 -0600

    provide the declarations at one spot

commit 099a86d565e53a0afba519897c905fc313100dd5
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:41:23 2012 -0600

    always set this because ampisupport needs it to get a hold of the buffer

commit ed510c7268d528e755de572bbd8c340be4d4f1d2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:40:09 2012 -0600

    use predefine locs count and defend against 0 alloc

commit 6b01cb33829b53099733086535b8c4b02e55f9af
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:30:41 2012 -0600

    need this lib now

commit f2d4e3d1a7ce3f59e53d5b77c260621190f3e7be
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:30:08 2012 -0600

    define the max locations per op code as a constant variable

commit f991c57c7a986d780f93d7203fdf34fad6628a86
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 19 12:27:27 2012 -0600

    make this a little bit safer by enforcing NULL values for 0 size memory allocation;
    the standard is noncommittal on this but offers NULL return as a possibility

commit f7863e21a6b98972d2239d268867ded147c8be9b
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 18 12:46:46 2012 -0600

    fix up the output

commit 1cca12375b30cad22a96b04e45cdf369a011a9f2
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 18 12:46:28 2012 -0600

    implement these

commit 8f023ffc33d70e21d6c9e3bfe4336b59244a7552
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 18 01:41:56 2012 -0600

    cannot lump things into a placeholder opcode

commit 431fe76495a46dc97966a3a8503db288537832d6
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Mon Dec 17 16:12:03 2012 -0600

    tapedoc conditional for AMPI and replace local hardwired macro with a configured macro

commit fbc846618106386e994c2bc661db1df9ace8930c
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 12 17:01:36 2012 -0600

    baseline AMPI interpretation

commit 44bd31406cfffb2d84ac9af8cc447d9f11c7daaa
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 12 16:54:04 2012 -0600

    add a preprocessor macro - make the checks dependent on the enable-ampi

commit 9c0f564ff64bfbc4eb06a4e9bc39cebc4590bca8
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 12 16:22:05 2012 -0600

    increase the locint  head space from 5 to 10 to allow for extra info

commit cf3aadbb3bbe1636e8b41241350814495257f215
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 12 16:21:27 2012 -0600

    push the opcode and get raw data pointer

commit 2f8cd8603d411bf741fbedeb48bf59916bb7b37b
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Wed Dec 12 08:53:34 2012 -0600

    extras

commit dd349bfdb2d91e163d3124a5ed5f03d5d6581e98
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 11 18:08:24 2012 -0600

    ampi support in configuration output

commit feecf333d1785fbeb514a774ecfae2b380a2d317
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 11 18:03:54 2012 -0600

    debug should be with opt level 0

commit f909b4bd395616d576aa37e6ddd61a4a75486312
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 11 11:54:34 2012 -0600

    baseline

commit a7e6d0695be7910ec3c7ed2e3757a8d62e6f6fac
Author: Jean Utke <utke@mcs.anl.gov>
Date:   Tue Dec 11 11:52:49 2012 -0600

    ignoring things

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@439 94ac48a7-3327-4b6a-8511-9a4036a20e83
check for libColPack in lib64 and lib

some strange systems insist on putting 64bit libraries in lib

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@440 94ac48a7-3327-4b6a-8511-9a4036a20e83
Merge branch 'abs-normal' of 'gitclone' into svn

Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

The following changes were merged:

commit cc9e28194c6c4ed02242752f2c77474c8d22479a
Merge: 78f3e25 4ca940a
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Mon Dec 2 16:37:30 2013 +0100

    Merge branch 'master' into abs-normal

    Conflicts: (solved)
    	ADOL-C/include/adolc/taping.h
    	ADOL-C/src/Makefile.am
    	ADOL-C/src/tape_handling.cpp
    	ADOL-C/src/uni5_for.c

commit 78f3e252cf2c646a36507b9edc5b7e137db95b3e
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Thu Oct 31 15:22:28 2013 +0100

    return the switch arguments themselves

    and rename the function to zos_an_forward instead of get_signature

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 5b17a4e47cf939203a72978c34ab1b0591c4cd99
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Wed Oct 30 17:20:01 2013 +0100

    Add fos_an_reverse() to compute one abs-normal row at a time

    interface is
    enableMinMaxUsingAbs();
    trace_on(tag,...);
    ...
    trace_off();

    sw = get_num_switches(tag);
    get_signature(tag,m,n,sw,x,y,sig);
    fo_an_reverse(tag,m,n,sw,rownum,rowvals);


    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 0bf35bd968d6f6a638ad3ce3dc89808b9cda4a9d
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Wed Oct 30 15:22:21 2013 +0100

    allocate and deallocate signature for a tape only once.

    the number of switches remains the same always. Also the switch
    locations need not be stored extra at all.

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 6a60313b3c17367c0d47a9f5bc8b52888c0c4c8d
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Tue Oct 29 14:22:34 2013 +0100

    Setting the signature is unnecessary it seems.

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

commit 096a33a6063d0eca4c6f137561f518c28390721b
Author: Kshitij Kulshreshtha <kshitij@math.upb.de>
Date:   Fri Oct 25 16:30:02 2013 +0200

    Add interface for getting and setting of signature vectors

    this takes into account that min and max should be computed using
    abs but does not handle discontinuous elementary functions
    only forward mode takes the user set signatures into account right now

    Signed-off-by: Kshitij Kulshreshtha <kshitij@math.upb.de>

git-svn-id: https://projects.coin-or.org/svn/ADOL-C/trunk@441 94ac48a7-3327-4b6a-8511-9a4036a20e83