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README.CHARM.html
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README.CHARM.html
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<html>
<h1>Using TAU with charm++</h1>
<h2>(tested with 5.4 release 1)</h2>
<p>Note that when TAU is built with charm++, only charm++ programs can use the
resulting library. Additionally, no TAU calls can be made before the
ConverseInit call.
<p>When using TAU_COMPILER with charm++, the following change must be made to
charm/src/conv-core/converse.h :
<pre>
static __inline__ unsigned long long int rdtsc(void)
{
unsigned long long int x;
#ifdef CMK_IA64
__asm__ __volatile__("mov %0=ar.itc" : "=r"(x) :: "memory");
#else
__asm__ volatile (".byte 0x0f, 0x31" : "=A" (x));
#endif
return x;
}
</pre>
Must be changed to :
<pre>
static __inline__ unsigned long long int rdtsc(void)
{
unsigned long long int x;
<font color=red>#ifndef TAU_CHARM</font>
#ifdef CMK_IA64
__asm__ __volatile__("mov %0=ar.itc" : "=r"(x) :: "memory");
#else
__asm__ volatile (".byte 0x0f, 0x31" : "=A" (x));
#endif
<font color=red>#endif</font>
return x;
}
</pre>
This is due to the EDG front-end parse not parsing the __asm__ directive
properly.
<h2>Using TAU with NAMD</h2>
<h3>For NAMD version 2.6 and above see:
<a href="http://www.nic.uoregon.edu/tau-wiki/Guide:NAMDTAU">Building TAU with
NAMD</a></h3>
<p> this website should have the most up to date information on how to build NAMD
with TAU.</p>
<h3>For NAMD version 2.5 use these instructions:</h3>
Example: To build TAU for NAMD 2.5 (with automatic instrumentation) :
<ol>
<li> Download and install PDT
<pre>
wget http://www.cs.uoregon.edu/research/paracomp/proj/pdtoolkit/Download/pdt_latest.tar.gz
tar xzf pdt_latest.tar.gz
cd pdtoolkit-3.3.1
./configure ; make ; make install
</pre>
<li> Download and install TAU
<pre>
wget http://www.cs.uoregon.edu/research/paracomp/proj/tau/tauprofile/dist/tau_latest.tar.gz
tar xzf tau_latest.tar.gz
cd tau-2.14.3
./configure -pdt=<path to pdt> -charm=<path to charm>
</pre>
Note that TAU can be configure to use various options (-TRACE,
-PROFILECALLPATH, etc) with -PROFILE as the default.<br>
<li> Apply the TAU NAMD 2.5 patch
<pre>
cd NAMD_2.5_Source
patch < path/to/tau/examples/charm/namd-2.5.patch
</pre>
Alternatively see <a href=#manual>the manual patching instructions</a> below.
<li> Make the following changes to arch/Linux-i686-g++.arch (or your .arch file):
<ul>
<li> Add "include <path to tau>/include/Makefile"
<li> Change <pre>"CXX = ..."</pre> to <pre>"CXX = $(TAU_COMPILER) -optTauSelectFile=<path to select.tau> ..."</pre>
<li> Change <pre>"CC = ..."</pre> to <pre>"CC = $(TAU_COMPILER) -optTauSelectFile=<path to select.tau> ..."</pre>
</ul>
For example :
<pre>
<font color=red>include /home/amorris/tau2/include/Makefile</font>
NAMD_ARCH = Linux-i686
CHARMARCH = net-linux
CXX = <font color=red>$(TAU_COMPILER) -optTauSelectFile=/home/amorris/select.tau</font> g++ -DSOCKLEN_T=socklen_t -DNO_STRSTREAM_H
CXXOPTS = -O3 -march=pentiumpro -ffast-math -static
CC = <font color=red>$(TAU_COMPILER) -optTauSelectFile=/home/amorris/select.tau</font> gcc
COPTS = -O3 -march=pentiumpro -ffast-math -static
</pre>
<li> We recommend that you set the environment variables PROFILEDIR and TRACEDIR
<pre>
export PROFILEDIR=/tmp
export TRACEDIR=/tmp
</pre>
<li> After execution, you should file profile.X.X.X files in your $PROFILEDIR, view these wwith pprof or paraprof
</ol>
<a NAME="manual"><h2>Manual patching instructions</h2></a>
<ol>
<li> Make the above change to converse.h
<li> Create the selective instrumentation file. We have had success using the
following select.tau file :
<pre>
BEGIN_EXCLUDE_LIST
void Sequencer::thread#
void Controller::thread#
int NAMD_read_int#
void PDBDATA::scan#
Real PDBAtom::zcoor#
Real PDBAtom::ycoor#
Real PDBAtom::xcoor#
Bool Molocule::is_hydrogen#
END_EXCLUDE_LIST
BEGIN_FILE_EXCLUDE_LIST
*mainfunc.C
*memusage.C
*BackEnd.C
END_FILE_EXCLUDE_LIST
</pre>
<li> Make the following changes to Makefile :
<p>Add $(TAU_COMPILER) to the link phase, as shown
<pre>
namd2: $(INCDIR) $(DSTDIR) $(OBJS) $(LIBS)
$(MAKEBUILDINFO)
<font color=red>$(TAU_COMPILER)</font> $(CHARMC) -verbose -ld++-option \
"$(COPTI)$(CHARMINC) $(COPTI)$(INCDIR) $(COPTI)$(SRCDIR) $(CXXOPTS)" \
-module NeighborLB -module commlib -language charm++ \
$(BUILDINFO).o \
$(OBJS) \
$(DPMTALIB) \
$(DPMELIB) \
$(TCLLIB) \
$(FFTLIB) \
$(PLUGINLIB) \
-lm -o namd2
</pre>
<li> Make the following changes to BackEnd.C
<ul>
<li> Add the following to the top of BackEnd.C:
<pre>
<font color=red>#include <TAU.h>
extern "C" void Tau_create_top_level_timer_if_necessary(void);</font>
</pre>
<li> Change BackEnd::init as follows:
<pre>
void BackEnd::init(int argc, char **argv) {
ConverseInit(argc, argv, slave_init, 1, 1); // calls slave_init on others
<font color=red>TAU_PROFILE_SET_NODE(CmiMyPe());
Tau_create_top_level_timer_if_necessary();
TAU_PROFILE("BackEnd::init", "", TAU_DEFAULT);</font>
cpuTime_start = CmiCpuTimer();
wallTime_start = CmiWallTimer();
if ( CmiMyPe() ) {
slave_init(argc, argv); // for procs that call main
<font color=red>TAU_PROFILE_EXIT("Calling ConverseExit()");</font>
ConverseExit(); // should never return
}
all_init(argc, argv);
</pre>
</ul>
<li> Make the following changes to mainfunc.C
<ul>
<li> Add the following to the top of mainfun.C:
<pre>
<font color=red>#include <TAU.h></font>
</pre>
<li> Change main as follows:
<pre>
int main(int argc, char **argv) {
BackEnd::init(argc,argv);
<font color=red>TAU_PROFILE("int main(int, char**) C", " ", TAU_DEFAULT);</font>
ScriptTcl *script = new ScriptTcl;
Node::Object()->setScript(script);
...
<font color=red>TAU_PROFILE_EXIT("main exiting");</font>
BackEnd::exit();
return 0;
}
</pre>
</ul>
<li> Change Controller.C as follows:
<ul>
<li> Add the following to the top of Controller.C:
<pre>
<font color=red>#include <TAU.h></font>
</pre>
<li> Make the following change to ::threadRun
<pre>
void Controller::threadRun(Controller* arg)
{
<font color=red>TAU_REGISTER_THREAD();</font>
arg->algorithm();
}
</pre>
<li> Make the following change to ::terminate
<pre>
void Controller::terminate(void) {
<font color=red>TAU_PROFILE_EXIT("Controller::terminate");</font>
BackEnd::awaken();
CthFree(thread);
CthSuspend();
}
</pre>
</ul>
<li> Change Sequencer.C as follows:
<ul>
<li> Add the following to the top of Sequencer.C:
<pre>
<font color=red>#include <TAU.h></font>
</pre>
<li> Make the following change to ::threadRun
<pre>
void Sequencer::threadRun(Sequencer* arg)
{
<font color=red>TAU_REGISTER_THREAD();</font>
arg->algorithm();
}
</pre>
<li> Make the following change to ::terminate
<pre>
void Sequencer::terminate(void) {
<font color=red>TAU_PROFILE_EXIT("Sequencer::terminate");</font>
CthFree(thread);
CthSuspend();
}
</pre>
</ul>
</ol>
</html>