Index: test-suite/trunk/LICENSE.TXT
===================================================================
--- test-suite/trunk/LICENSE.TXT
+++ test-suite/trunk/LICENSE.TXT
@@ -84,6 +84,7 @@
llvm-test/MultiSource/Benchmarks/ASC_Sequoia/sphot
smg2000: llvm-test/MultiSource/Benchmarks/ASCI_Purple/SMG2000
miniAMR: llvm-test/MultiSource/Benchmarks/DOE-ProxyApps-C/miniAMR
+Pathfinder: llvm-test/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder
XSBench: llvm-test/MultiSource/Benchmarks/DOE-ProxyApps-C/XSBench
HPCCG: llvm-test/MultiSource/Benchmarks/DOE-ProxyApps-C++/HPCCG
PENNANT: llvm-test/MultiSource/Benchmarks/DOE-ProxyApps-C++/PENNANT
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/CMakeLists.txt
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/CMakeLists.txt
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/CMakeLists.txt
@@ -1,2 +1,3 @@
add_subdirectory(XSBench)
+add_subdirectory(Pathfinder)
add_subdirectory(miniAMR)
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Makefile
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Makefile
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Makefile
@@ -2,7 +2,7 @@
LEVEL = ../../..
PARALLEL_DIRS = XSBench \
- miniAMR
-
+ miniAMR \
+ Pathfinder
include $(LEVEL)/Makefile.programs
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/CMakeLists.txt
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/CMakeLists.txt
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/CMakeLists.txt
@@ -0,0 +1,4 @@
+set(PROG PathFinder)
+list(APPEND LDFLAGS -lm)
+set(RUN_OPTIONS -x ${CMAKE_CURRENT_SOURCE_DIR}/medsmall1.adj_list)
+llvm_multisource()
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING
@@ -0,0 +1,674 @@
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+combination as such.
+
+ 14. Revised Versions of this License.
+
+ The Free Software Foundation may publish revised and/or new versions of
+the GNU General Public License from time to time. Such new versions will
+be similar in spirit to the present version, but may differ in detail to
+address new problems or concerns.
+
+ Each version is given a distinguishing version number. If the
+Program specifies that a certain numbered version of the GNU General
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+version or of any later version published by the Free Software
+Foundation. If the Program does not specify a version number of the
+GNU General Public License, you may choose any version ever published
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+ 17. Interpretation of Sections 15 and 16.
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+an absolute waiver of all civil liability in connection with the
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+
+ How to Apply These Terms to Your New Programs
+
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+to attach them to the start of each source file to most effectively
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+ (at your option) any later version.
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+ but WITHOUT ANY WARRANTY; without even the implied warranty of
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+
+Also add information on how to contact you by electronic and paper mail.
+
+ If the program does terminal interaction, make it output a short
+notice like this when it starts in an interactive mode:
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+ Copyright (C)
+ This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
+ This is free software, and you are welcome to redistribute it
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+
+The hypothetical commands `show w' and `show c' should show the appropriate
+parts of the General Public License. Of course, your program's commands
+might be different; for a GUI interface, you would use an "about box".
+
+ You should also get your employer (if you work as a programmer) or school,
+if any, to sign a "copyright disclaimer" for the program, if necessary.
+For more information on this, and how to apply and follow the GNU GPL, see
+.
+
+ The GNU General Public License does not permit incorporating your program
+into proprietary programs. If your program is a subroutine library, you
+may consider it more useful to permit linking proprietary applications with
+the library. If this is what you want to do, use the GNU Lesser General
+Public License instead of this License. But first, please read
+.
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING.LESSER
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING.LESSER
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/COPYING.LESSER
@@ -0,0 +1,165 @@
+ GNU LESSER GENERAL PUBLIC LICENSE
+ Version 3, 29 June 2007
+
+ Copyright (C) 2007 Free Software Foundation, Inc.
+ Everyone is permitted to copy and distribute verbatim copies
+ of this license document, but changing it is not allowed.
+
+
+ This version of the GNU Lesser General Public License incorporates
+the terms and conditions of version 3 of the GNU General Public
+License, supplemented by the additional permissions listed below.
+
+ 0. Additional Definitions.
+
+ As used herein, "this License" refers to version 3 of the GNU Lesser
+General Public License, and the "GNU GPL" refers to version 3 of the GNU
+General Public License.
+
+ "The Library" refers to a covered work governed by this License,
+other than an Application or a Combined Work as defined below.
+
+ An "Application" is any work that makes use of an interface provided
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+ The "Corresponding Application Code" for a Combined Work means the
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+
+ 1. Exception to Section 3 of the GNU GPL.
+
+ You may convey a covered work under sections 3 and 4 of this License
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+ 2. Conveying Modified Versions.
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+ 5. Combined Libraries.
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+ is a work based on the Library, and explaining where to find the
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+
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+
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+versions will be similar in spirit to the present version, but may
+differ in detail to address new problems or concerns.
+
+ Each version is given a distinguishing version number. If the
+Library as you received it specifies that a certain numbered version
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+applies to it, you have the option of following the terms and
+conditions either of that published version or of any later version
+published by the Free Software Foundation. If the Library as you
+received it does not specify a version number of the GNU Lesser
+General Public License, you may choose any version of the GNU Lesser
+General Public License ever published by the Free Software Foundation.
+
+ If the Library as you received it specifies that a proxy can decide
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+apply, that proxy's public statement of acceptance of any version is
+permanent authorization for you to choose that version for the
+Library.
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/Makefile
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/Makefile
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/Makefile
@@ -0,0 +1,6 @@
+LEVEL = ../../../..
+
+PROG = PathFinder
+LDFLAGS = -lm
+RUN_OPTIONS = -x $(PROJ_SRC_DIR)/medsmall1.adj_list
+include $(LEVEL)/MultiSource/Makefile.multisrc
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/PathFinder.reference_output
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/PathFinder.reference_output
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/PathFinder.reference_output
@@ -0,0 +1,28 @@
+
+
+ PathFinder: finding a series of labeled nodes within a
+ two-layer directed, cyclic graph.
+ Copyright (2013) Sandia Corporation
+
+ Sandia National Laboratories is a multi-program laboratory managed and
+ operated by Sandia Corporation, a wholly owned subsidiary of Lockheed
+ Martin Corporation, for the U.S. Department of Energy's National Nuclear
+ Security Administration under terms of Contract DE-AC04-94AL85000,
+ there is a non-exclusive license for use of this work by or on behalf
+ of the U.S. Government. Export of this program may require a license
+ from the United States Government.
+
+
+ 500 functions specified
+ 3463 basic blocks specified
+ 371 total System Call Map elements
+ ...parsing complete.
+Immediately before parallel
+
+
+44669 found out of 137641 searches. Overall Time: 0:0:0.000
+
+
+Total 44669 legs found
+
+exit 0
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/README
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/README
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/README
@@ -0,0 +1,220 @@
+**************************************************************************
+LLVM Test-suite Note:
+**************************************************************************
+The original source is located at https://github.com/Mantevo/PathFinder.
+Beyond this paragraph is the original README contained with the source
+code. The Makefile refered to within is not utilized within the
+test-suite. The test-suite builds a serial version (openmp and
+mpi disabled) with its own cmake and make build system.
+**************************************************************************
+
+PathFinder graph pathway analysis mini-application
+
+------------------------------------
+Contents of this README file:
+1. PathFinder overview
+2. PathFinder versions
+3. Building PathFinder
+4. Running PathFinder
+5. PathFinder search algorithm/pseudo code
+------------------------------------
+
+------------------------------------
+1. PathFinder overview:
+
+PathFinder searches for "signatures" within graphs. Graphs being searched are
+directed and cyclic. Many, but not all nodes within the graph have labels. Any
+given node may have more than one label, and any label may be applied to more
+than one node. A signature is an orderd list of labels. PathFinder searches for
+paths between labels within the signature. PathFinder returns success if there
+is a path from a node with the first label in the signature that passes through
+nodes with each label in order, ultimately reaching a node with the last label
+in the signature. Labeled nodes need not be contiguous on any given path.
+
+At the current time, PathFinder does not do any pathway analysis (e.g. shortest
+path) for discovered signatures. PathFinder simply searches until a signature is
+satisfied or all pathways have been exhausted.
+
+------------------------------------
+2. PathFinder versions:
+
+- PathFinder_ref:
+ reference version: self-contained. Includes serial and OpenMP parallel
+ implementations. MPI is not yet supported.
+
+------------------------------------
+3. Building PathFinder:
+
+The standard build is to cd into the 'PathFinder_ref' directory and type 'make'.
+Doing so builds an OpenMP enabled version of PathFinder (named PathFinder.x). For
+serial execution, run it with the OMP_NUM_THREADS environment variable set to 1.
+
+Alternative build targets:
+ * clean -- removes all .o files
+ * realclean -- removes all .o and .x files
+ * debug -- PathFinder.x+dbg - serial executable with debug information
+ * mpi -- currently not implemented; prints an error message
+
+To verify execution, type 'make check' which builds a serial version, runs it
+against one of the known data sets and compares the results.
+
+------------------------------------
+4. Running PathFinder:
+
+The simplest execution is to simply type './PathFinder.x'. This will run
+PathFinder with a trivial graph (MicroTestData.adj_list in the source
+directory). It will find 6 legs out of 9 searches, by doing an "exhaustive"
+search on that graph.
+
+An exhaustive search is PathFinder determining if paths exist between any pair
+of labels for every label existing in the graph. Exhaustive searches are
+embarrassingly parallel, and can be quite time consuming depending on the size
+of the graph and number of labels. Running PathFinder exhaustively is done with
+the -x switch:
+ PathFinder.x -x
+ e.g. PathFinder.x -x ../scaleData/1kx750.adj_list
+
+To search for specific signatures, PathFinder can be run interactively or with
+a configuration file. To run interactively, use the -i switch:
+ PathFinder.x -i
+PathFinder will prompt the operator for a series of labels to define the
+signature for which PathFinder will search.
+
+Multiple data files and multiple signatures can be specified to PathFinder in a
+configuration file. A python script (config_builder.py) exists to assist the
+operator in creating a configuration file. A sample configuration file is
+included in the PathFinder source directory. To run PathFinder with a config
+file, use the -c switch:
+ PathFinder.x -c
+ e.g. PathFinder.x -c sampleConfig
+
+Typing 'PathFinder -h' will print a help message describing the available
+execution switches. Sample data files are provided in the 'data' and
+'generatedData' directories. The python script used to generate representative
+graph data is in the PathFinder_ref directory. It is named graph_gen.py.
+
+YAML output files can be generated by using the -y switch.
+
+Sample data sets are included in the "generatedData" and "scaleData"
+subdirectories. The scaleData files are intended for performance
+characterization. They are named with the convention:
+ x.adj_list
+For expected results, see scaleData/README
+
+------------------------------------
+5. PathFinder search algorithm / pseudo code
+
+PathFinder does a modified depth-first search through the graph. For each
+signature, PathFinder begins searching from the set of nodes which have the
+first label in the signature. From these nodes, it finds a path to any node that
+is labeled with the second label in the signature. This is repeated until a path
+is found to the last label in the signature. If at any point in the search a
+path to a label is not found, that search fails.
+
+Searches are done recursively. At each node, the target of each edge is checked
+to see if it is labeled with the next label in the signature. If a match is
+made, The search continues from the matched node and the subsequent label in the
+signature. If there are no remaining labels in the signature, the search has
+succeeded. If no direct edge from the current node matches, then the search
+continues recursively for the current label along each edge from the current
+node. If no match exists along any edge, the search fails.
+
+Pseudo code:
+
+For each file in config file:
+ Parse file into a Graph
+
+For each signature in config file:
+ Store for processing
+
+For each signature
+{
+ For each Graph
+ {
+ Make sure the graph contains at least one node labeled with every label
+ in the signature
+
+ Get set of nodes with signature[0], the first label in signature
+ for each Start node
+ {
+ // Recursive procedure to find remaining signature. Requires
+ // current node, the remaining unfound signature legs
+ // a result stack of nodes to store path traversed and
+ // a stack of nodes visited so far to detect cycles and
+ // redundant searches
+ Create empty result stack
+ Create empty visited stack
+ success = FindRemainingSignatureFromCurrentNode ( startNode,
+ &signature[1], result, visited )
+ } // end of for each Start node
+ } // end of for each Graph
+} // end of for each Signature
+
+
+// Recursive procedure to find remaining signature.
+// currentNode the node whose edges *might* reach the
+// next label in the signature
+// signature an array of pointers to C strings. These strings
+// are the labels being matched by the nodes being
+// searched. Each sequential pair of labels is a
+// leg of the search. The last pointer is NULL to
+// terminate the array.
+// result a stack of nodes containing the path currently
+// traversed to reach this node
+// visited a stack of ALL nodes searched during the attempt
+// to find the current label
+
+boolean FindRemainingSignatureFromCurrentNode ( currentNode, signature, result,
+ visited )
+{
+ If currentNode is in visited
+ return FALSE we have reached a cycle or a subgraph that has
+ already been searched
+ else
+ push currentNode onto visited stack
+
+ push currentNode onto result stack
+ For each edge from currentNode
+ {
+ If edge->targetNode->label == signature[0]
+ {
+ If signature[1] != NULL we have more legs in the search
+ Create nextResult for next leg search
+ Create nextVisited for next leg search
+ success = FindRemainingSignatureFromCurrentNode
+ ( edge->targetNode, &signature[1],
+ nextResult, nextVisited )
+ if success
+ result += nextResult
+ delete nextVisited
+ return TRUE, weve found the path
+ else
+ continue through edge checking
+ else signature[1] == NULL
+ push edge->targetNode onto result
+ return true, weve found the path
+ }
+ else
+ continue through edge checking
+ } // end of for each edge target compared against signature [0]
+
+ // If weve made it this far, none of the edges is a direct
+ // match to the current label, do a deeper search
+ For each edge from current node
+ {
+ success = FindRemainingSignatureFromCurrentNode ( edge->targetNode,
+ &signature[0], result, visited )
+ if success
+ return TRUE, weve found the path
+ else
+ continue through edge searching loop
+ }
+
+ // If weve made it this far, we have no path
+ pop currentNode off of result (but not off of visited)
+ return FALSE;
+} // end of find remaining signature
+
+
+
+
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.h
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.h
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.h
@@ -0,0 +1,69 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+#ifndef BITFIELD_H
+#define BITFIELD_H
+
+#include
+#include
+#include
+
+struct NodeStruct;
+
+/* --------
+ * Bitfield is a mask around a character pointer. An array of character
+ * pointers is allocated such that there is a sequence of available bits
+ * equal in length to the number of nodes in a given graph. Bitfield
+ * defines operations that check if a bit corresponding to a node index
+ * is set. This is used by the graph traversal path finding algorithms
+ * to determine if a node has been visited.
+ */
+
+typedef struct BitfieldStruct Bitfield;
+
+struct BitfieldStruct
+{
+ int bitsNeeded; /* in BYTES!!! */
+ char *bitfield;
+};
+
+
+Bitfield *Bitfield_new(int bitsNeeded); /* constructor */
+void Bitfield_delete(Bitfield *this); /* destructor */
+
+/* Returns true if the specified node has been visited */
+bool Bitfield_nodeVisited(Bitfield *this, struct NodeStruct *node);
+
+/* Makes a byte-by-byte copy of the "from" bitfield */
+Bitfield *Bitfield_copy(Bitfield *from);
+
+void Bitfield_clear();
+
+#endif
+
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/bitfield.c
@@ -0,0 +1,114 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+#include "bitfield.h"
+#include "node.h"
+#include
+
+
+/* --------
+ * Bitfield is a mask around a character pointer. An array of character
+ * pointers is allocated such that there is a sequence of available bits
+ * equal in length to the number of nodes in a given graph. Bitfield
+ * defines operations that check if a bit corresponding to a node index
+ * is set. This is used by the graph traversal path finding algorithms
+ * to determine if a node has been visited.
+ */
+
+
+/* constructor */
+Bitfield *Bitfield_new(int bitsNeeded)
+{
+ int size = (bitsNeeded+7) / 8; /* CHAR_BIT; */
+ Bitfield *new = malloc(sizeof(Bitfield));
+ if ( !new )
+ return(NULL);
+ new->bitfield = calloc(size, sizeof(char));
+ if ( !new->bitfield )
+ {
+ free(new);
+ return(NULL);
+ }
+
+ new->bitsNeeded = bitsNeeded;
+ return new;
+}
+
+/* destructor */
+void Bitfield_delete(Bitfield *this)
+{
+ if ( this )
+ {
+ if ( this->bitfield )
+ free(this->bitfield);
+ free(this);
+ }
+}
+
+/* Returns true if the specified node has been visited */
+bool Bitfield_nodeVisited(Bitfield *this, struct NodeStruct *node)
+{
+ int index = node->nodeCount >> 3;
+ char byte = this->bitfield[index];
+ char bit = 1 << (node->nodeCount & 0x07);
+ bool set = byte & bit;
+
+ this->bitfield[index] |= bit;
+
+ /* printf ( "Inside Bitfield nodeVisited: Node: %d, index %d, byte %x, bit: %x\n",
+ node->nodeCount, index, byte, bit ); */
+ return(set);
+}
+
+
+/* Makes a byte-by-byte copy of the "from" bitfield */
+Bitfield *Bitfield_copy(Bitfield *from)
+{
+ int i;
+
+ if ( !from )
+ return(NULL);
+
+ Bitfield *new = Bitfield_new(from->bitsNeeded);
+ if ( new )
+ {
+ for ( i = 0; i*8 < from->bitsNeeded; ++i )
+ new->bitfield[i] = from->bitfield[i];
+ return(new);
+ }
+ else
+ return(NULL);
+}
+
+
+void Bitfield_clear(Bitfield *this)
+{
+ int size = (this->bitsNeeded+7) / 8;
+ memset(this->bitfield, 0, size);
+}
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.h
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.h
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.h
@@ -0,0 +1,80 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+
+/*
+ * configuration.h
+ *
+ * Created on: October 1, 2013
+ * Author: Brian "Rig" Rigdon
+ */
+
+#ifndef CONFIGURATION_H_
+#define CONFIGURATION_H_
+
+#include
+#include "graph.h"
+#include "graphGen.h"
+
+/* I was hoping to avoid this - however because we are dealing with
+ * pointers to arrays of pointers, passing the address of an such
+ * a beast becomes really confusing: Graph *(**pointer)[]
+ * Ergo, I am building a structure to contain all the information
+ * necessary for a given running of this software. For lack of
+ * a better name, we are calling it the "configuration".
+ */
+
+/* A simple enum to define which search is to be done */
+typedef enum { treeSearch, diagramSearch } SearchType;
+
+typedef struct SearchOptionsStruct SearchOptions;
+struct SearchOptionsStruct
+{
+ SearchType searchType;
+ bool multiThreaded;
+ bool doStatistics;
+ bool writeOutputFile;
+ char *outputFile;
+ BuildType buildType;
+};
+
+SearchOptions * SearchOptions_new();
+
+typedef struct ConfigurationStruct Configuration;
+struct ConfigurationStruct
+{
+ Graph **graphs; /* a pointer to a NULL terminated array of pointers */
+ Signature *signatures; /* a pointer to a NULL terminated array of Signatures */
+ SearchOptions *searchOptions;
+ int qThreadCount; /* recursion depth to STOP spawning new tasks */
+};
+
+Configuration* Configuration_new();
+
+#endif /* CONFIGURATION_H_ */
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/configuration.c
@@ -0,0 +1,69 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+/*
+ * configuration.c
+ *
+ * Created on: October 1, 2013
+ * Author: Brian "Rig" Rigdon
+ */
+
+#include
+ #include "configuration.h"
+
+ SearchOptions* SearchOptions_new()
+ {
+ SearchOptions *options = malloc(sizeof(SearchOptions));
+ if ( !options )
+ return(NULL);
+ options->searchType = treeSearch;
+ options->multiThreaded = false;
+ options->doStatistics = false;
+ options->writeOutputFile = false;
+ options->outputFile = NULL;
+ options->buildType = endNodesOnly;
+ return(options);
+ }
+
+ Configuration* Configuration_new()
+ {
+ Configuration *new = malloc(sizeof(Configuration));
+ SearchOptions *options = malloc(sizeof(SearchOptions));
+ if ( !new || !options )
+ {
+ if ( new ) free(new);
+ if ( options ) free(options);
+ return(NULL);
+ }
+ new->graphs = NULL;
+ new->signatures = NULL;
+ new->searchOptions = options;
+ new->qThreadCount = 0;
+ return(new);
+ }
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/gettime.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/gettime.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/gettime.c
@@ -0,0 +1,43 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+#include
+#ifdef USE_OMP
+#include
+#endif
+
+extern double currentTime()
+{
+#ifdef USE_OMP
+ return omp_get_wtime();
+#else
+ return 0;
+#endif
+}
+
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.h
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.h
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.h
@@ -0,0 +1,101 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+
+/*
+ * Graph.h
+ *
+ * Created on: Jan 9, 2013
+ * Author: Brian "Rig" Rigdon, Marcus Smith, Samuel Mulder
+ */
+
+
+/* --------
+ * Graphs are made up of nodes and edges. Nodes hold data and edges
+ * connect nodes to each other. In this representation, edges are
+ * directional (they lead from one node to the next) and may create
+ * looped paths. The data sets from which these graphs are defined
+ * define two-layered graphs. The outer layer may contain one or
+ * more interior nodes. These interior nodes may be linked among each
+ * other. Each containing node may have up to two "entrance" nodes;
+ * that is, an edge goes from the containing node to its entrance node.
+ *
+ * As mentioned above, the graphs are defined in data files. The graph
+ * data structure contains the file name, a count of nodes, a list of
+ * exterior nodes, and structures that assist in the searching through
+ * the graph for "signatures"
+ */
+
+#ifndef GRAPH_H_
+#define GRAPH_H_
+
+#include /* bool is no longer part of the C language */
+#include "node.h"
+#include "searchDiagram.h"
+#include "systemCallMap.h"
+
+
+/* -------------------------------------------
+ * Graph Definitions
+ *
+ */
+
+typedef struct GraphStruct Graph;
+
+struct GraphStruct
+{
+ char *fileName; /* the file parsed to give us this graph */
+ int totalNodes; /* Nodes, both outer and interior */
+ NodeList *outerNodes; /* The Linked-List capture of the node data */
+ SearchDiagram *searchDiagram; /* The compressed Node/Edge search structures */
+ SystemCallMap *systemCallMap;
+};
+
+
+/* "methods" */
+
+Graph *Graph_new(); /* Graph constructor */
+void Graph_delete( Graph *trash ); /* Destructor - erases current graph */
+bool Graph_addOuterNode( Graph *graph, Node *newOuterNode );
+/* Finds a node within the graph. If deep is true, we check interior nodes as well.
+ * If deep is false, we only check to see if the id is an outer node. This does NOT
+ * find the path to the node.
+ */
+Node *Graph_findNode( Graph *graph, int id, bool deep );
+
+
+
+/* Determine if a given node contains the node specified by id. If this problem extended
+ * beyond two layers, this method would be recursive. Returns NULL if node is not contained.
+ * This does NOT find the path to the node.
+ */
+Node *Graph_findContainedNode( Node *node, int id );
+
+
+#endif /* GRAPH_H_ */
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graph.c
@@ -0,0 +1,186 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+/*
+ * graph.c
+ *
+ * Created on: Jan 9, 2013
+ * Author: Brian "Rig" Rigdon, Marcus Smith, Samuel Mulder
+ */
+
+/* --------
+ * Graphs are made up of nodes and edges. Nodes hold data and edges
+ * connect nodes to each other. In this representation, edges are
+ * directional (they lead from one node to the next) and may create
+ * looped paths. The data sets from which these graphs are defined
+ * define two-layered graphs. The outer layer may contain one or
+ * more interior nodes. These interior nodes may be linked among each
+ * other. Each containing node may have up to two "entrance" nodes;
+ * that is, an edge goes from the containing node to its entrance node.
+ *
+ * As mentioned above, the graphs are defined in data files. The graph
+ * data structure contains the file name, a count of nodes, a list of
+ * exterior nodes, and structures that assist in the searching through
+ * the graph for "signatures"
+ */
+
+#include
+#include
+#include
+#include
+#include
+
+#ifdef USE_OMP
+#include
+#endif
+
+#include "graph.h"
+#include "systemCallMap.h"
+#include "bitfield.h"
+#include "utils.h"
+
+
+
+
+/* -------------------------------------------
+ * Graph Method Definitions
+ *
+ */
+/* We deleted the code that made a graph singleton. Now we may have
+ * more than one graph. Ergo, the main method (or whatever) will maintain
+ * the graph pointer.
+ */
+
+Graph *Graph_new()
+{
+ Graph *graph= NULL;
+ graph = malloc( sizeof( Graph ));
+ if ( graph )
+ {
+ /* The malloc worked! */
+ graph->fileName = NULL;
+ graph->totalNodes = 0;
+ graph->outerNodes = NULL;
+ graph->searchDiagram = NULL;
+ }
+
+ return( graph );
+}
+
+/* Destructor - erases current graph, sets singleton to NULL */
+void Graph_delete( Graph *trash )
+{
+ SearchDiagram *element;
+ if ( trash )
+ {
+ free( trash->fileName );
+ NodeList_clear( trash->outerNodes, true );
+ if ( trash->searchDiagram ) {
+ for ( element = trash->searchDiagram; element->node != NULL; ++element )
+ {
+ free( element->edgeReferenceArray );
+ }
+ free( trash->searchDiagram );
+ }
+ free( trash );
+ }
+}
+
+bool Graph_addOuterNode( Graph *graph, Node *newOuterNode )
+{
+ /* a little basic error checking */
+ if ( !graph || !newOuterNode )
+ return (false);
+
+ /* Is this the first outer node? */
+ if ( graph->outerNodes == NULL ) /* Allocates singletonGraph if it's not there */
+ {
+ graph->outerNodes = NodeList_new();
+ if ( !graph->outerNodes )
+ return( false ); /* the malloc failed */
+ graph->outerNodes->node = newOuterNode;
+ return( true );
+ }
+
+ /* Otherwise, insert the new node at the tail of the singleton graph */
+ return( NodeList_insertBack( graph->outerNodes, newOuterNode ));
+}
+
+
+/* Finds a node within the graph. If deep is true, we check interior nodes as well.
+ * If deep is false, we only check to see if the id is an outer node. This does NOT
+ * find the path to the node.
+ */
+Node *Graph_findNode( Graph *graph, int id, bool deep )
+{
+ NodeList *nodes;
+ Node *node;
+
+ for ( nodes = graph->outerNodes; nodes != NULL; nodes = nodes->nextNode )
+ {
+ if ( nodes->node->id == id )
+ return( nodes->node );
+ /* If that wasn't the node, and we're going deep, see if it's there. */
+ if ( deep )
+ {
+ node = Graph_findContainedNode( nodes->node, id );
+ if ( node )
+ return( node );
+ }
+ }
+
+ return( NULL );
+}
+
+
+
+
+/* Determine if a given node contains the node specified by id. If this problem extended
+ * beyond two layers, this method would be recursive. Returns NULL if node is not contained.
+ * This does NOT find the path to the node.
+ */
+Node *Graph_findContainedNode( Node *node, int id )
+{
+ NodeList *nodes;
+
+ for ( nodes = node->interiorNodes; nodes != NULL; nodes = nodes->nextNode )
+ {
+ if ( nodes->node->id == id )
+ return( nodes->node );
+ }
+
+ return( NULL );
+}
+
+
+
+
+
+
+/* Search Algorithms */
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.h
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.h
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.h
@@ -0,0 +1,52 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+/*
+ * graphGen.h
+ *
+ * Created on: Aug 2, 2013
+ * Author: J. Brian Rigdon
+ */
+
+#ifndef GRAPHGEN_H
+#define GRAPHGEN_H
+
+#include "graph.h"
+
+typedef enum { endNodesOnly, labeledNodes, completePath } BuildType;
+
+Graph *buildGraphFromPaths(NodeVecVec **pathList, BuildType build);
+
+/* Write the given graph to a file */
+bool exportGraph(Graph *graph, char *fileName);
+
+
+
+
+#endif /* GRAPHGEN_H_ */
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/graphGen.c
@@ -0,0 +1,195 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+/*
+ * graphGen.c
+ *
+ * Created on: Aug 2, 2013
+ * Author: jbrigdo
+ */
+
+#include
+#include
+#include "graphGen.h"
+#include "vectorUtils.h"
+
+
+/* getDuplicateNodeForGraph takes a node from another graph and sees if
+ * a duplicate has previously been created for this graph. If not, it tries
+ * to create and insert a new duplicate. If that fails, we're out of memory.
+ * In that circumstance, we have a significant error condition. It is
+ * time to delete the graph being built and report that error to the
+ * calling method (buildGraphFromPaths).
+ */
+static Node *getDuplicateNodeForGraph(Graph *graph, Node *from)
+{
+ Node *newNode = Graph_findNode(graph, from->id, true); /* true == deep search */
+ if ( newNode )
+ return(newNode);
+
+ /* else */
+ newNode = Node_duplicate(from, graph->totalNodes++ ); /* POST increment */
+ if ( newNode )
+ {
+ Graph_addOuterNode(graph,newNode); /* all nodes are exterior in this graph */
+ newNode->type = exteriorNode;
+ return(newNode);
+ }
+
+ /* else */
+ Graph_delete(graph); /* Failure is DESTRUCTIVE at this point */
+ return NULL;
+}
+
+
+Graph *buildGraphFromPaths(NodeVecVec **pathList, BuildType build)
+{
+ Graph *newGraph = Graph_new();
+ Node *pathNode; /* The node we're looking at in the path */
+ Node *currentNode;
+ Node *nextNode;
+ int i; /* Iterator through the path List array */
+ int j; /* Iterator through each path List */
+ int k; /* Iterator through each path in the path List */
+
+ if ( !pathList || !newGraph )
+ return(NULL);
+
+ for ( i = 0; pathList[i] ; ++i )
+ {
+ for (j = 0; j < pathList[i]->contentSize; ++j)
+ {
+ pathNode = pathList[i]->vector[j]->vector[0];
+ currentNode = getDuplicateNodeForGraph(newGraph, pathNode);
+ if ( !currentNode )
+ return(NULL); /* out of memory: crashing! newGraph has already been cleaned up */
+
+ for ( k = 1; k < pathList[i]->vector[j]->contentSize; ++k /*also incremented below*/ )
+ {
+ if ( build == endNodesOnly )
+ {
+ k = pathList[i]->vector[j]->contentSize - 1;
+ }
+ else if ( build == labeledNodes )
+ {
+ while ( pathList[i]->vector[j]->vector[k]->labelIdx < 0 )
+ ++k;
+ }
+ /* else if ( build == completePath ) no-op */
+
+ pathNode = pathList[i]->vector[j]->vector[k];
+ nextNode = getDuplicateNodeForGraph(newGraph, pathNode);
+ if ( !nextNode )
+ return(NULL); /* out of memory: crashing! newGraph has already been cleaned up */
+ Node_addEdgeToNode(currentNode, nextNode);
+ // printf ( "Adding edge: %d ==> %d\n", currentNode->id, nextNode->id );
+ currentNode = nextNode;
+ }
+ }
+ }
+
+ return(newGraph);
+}
+
+
+/* Write the given graph to a file */
+bool exportGraph(Graph *graph, char *fileName)
+{
+ FILE *out = NULL;
+ NodeList *nodes = NULL;
+ EdgeList *edges = NULL;
+ int nodeCount = 0;
+
+ if ( !graph || !fileName ) /* A little basic error checking */
+ return(false);
+
+ out = fopen(fileName, "w");
+
+ if ( !out ) /* A little more basic error checking */
+ return(false);
+
+ /* Write out the header */
+ /* ... find out how many functions (outer nodes) the graph holds */
+ for ( nodes = graph->outerNodes; nodes != NULL; nodes = nodes->nextNode )
+ {
+ ++nodeCount;
+ }
+ fprintf(out, "Functions: %d\n", nodeCount);
+ fprintf(out, "Basic blocks: %d\n\n", graph->totalNodes);
+
+ /* First, write out the graph's outer nodes */
+ for ( nodes = graph->outerNodes; nodes != NULL; nodes = nodes->nextNode )
+ {
+ fprintf(out, "%d ", nodes->node->id);
+ //printf("Node: %d ", nodes->node->id);
+ if ( nodes->node->edges )
+ {
+ nodeCount = 0;
+ /* Wow is this inefficient, but two passes is the easiest way to do it. */
+ for ( edges = nodes->node->edges; edges != NULL; edges = edges->nextEdge )
+ {
+ if ( edges->targetNode->type == exteriorNode )
+ ++nodeCount;
+ }
+ fprintf(out, "%d ", nodeCount);
+ //printf("has %d edges: ", nodeCount);
+ for ( edges = nodes->node->edges; edges != NULL; edges = edges->nextEdge )
+ {
+ if ( edges->targetNode->type == exteriorNode )
+ {
+ fprintf(out, "%d ", edges->targetNodeId);
+ //printf("%d, ", edges->targetNodeId);
+ }
+ }
+ fprintf(out, "\n");
+ //printf("\n");
+ }
+ else
+ {
+ fprintf(out, "0 \n" );
+ //printf(" no edges.\n");
+ }
+ }
+
+ /* then, for each of the outer nodes, write out its interior nodes (if any) */
+ /* We are skipping this for the time being. This currently is being called with flat graphs. */
+
+ /* Finally, write out the labels. */
+ fprintf(out, "-------------------------------------------- \nSYSTEM CALLS \n\n");
+
+ for ( nodes = graph->outerNodes; nodes != NULL; nodes = nodes->nextNode )
+ {
+ if ( nodes->node->label != NULL )
+ fprintf(out, "%d %s \n", nodes->node->id, nodes->node->label );
+ /* If we were worried about interior nodes, we'd need a duplicate loop here. */
+ }
+
+ return(true);
+
+}
Index: test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/main.c
===================================================================
--- test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/main.c
+++ test-suite/trunk/MultiSource/Benchmarks/DOE-ProxyApps-C/Pathfinder/main.c
@@ -0,0 +1,361 @@
+/*************************************************************************
+ *
+ * PathFinder: finding a series of labeled nodes within a
+ * two-layer directed, cyclic graph.
+ * Copyright (2013) Sandia Corporation
+ *
+ * Copyright (2013) Sandia Corporation. Under the terms of Contract
+ * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
+ * retains certain rights in this software.
+ *
+ * This file is part of PathFinder.
+ *
+ * PathFinder is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU Lesser General Public License as
+ * published by the Free Software Foundation, either version 3 of the
+ * License, or (at your option) any later version.
+ *
+ * PathFinder is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with PathFinder. If not, see .
+ *
+ * Questions? Contact J. Brian Rigdon (jbrigdo@sandia.gov)
+ *
+ */
+
+/*
+ * main.c
+ *
+ * Created on: Jan 9, 2013
+ * Author: Brian "Rig" Rigdon, Marcus Smith, Samuel Mulder
+ */
+
+
+#include
+#include
+#include
+#include
+#include
+#include
+#include
+#include "parsing.h"
+#include "utils.h"
+#include "searchAlgorithms.h"
+#include "vectorUtils.h"
+#include "statistics.h"
+#include "configuration.h"
+
+#ifdef QT
+ #include "qThreadSearch.h"
+#endif /* QT */
+
+extern double currentTime();
+
+#define helpString "\nUsage: PathFinder.exe [OPTIONS] []\n\n\
+ Operation:\n\
+ -c use configuration file\n\
+ -i interactive search of specified data file\n\
+ -x exhaustive leg search (any label to any label) of data file\n\n\
+ Other:\n\
+ -o