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authorphilblunsom <philblunsom@ec762483-ff6d-05da-a07a-a48fb63a330f>2010-07-19 18:33:29 +0000
committerphilblunsom <philblunsom@ec762483-ff6d-05da-a07a-a48fb63a330f>2010-07-19 18:33:29 +0000
commit0e4d1fc42b5f3707d81549d11fad8fcd4f9af89f (patch)
tree3e29ca6353b9eb8c48a7d47fc1f0aff70932260b
parent1eb8cf39863b166e87a3115c682e873dbe091582 (diff)
Vaguely working distributed implementation. Hierarchical topics doesn't yet work correctly.
git-svn-id: https://ws10smt.googlecode.com/svn/trunk@317 ec762483-ff6d-05da-a07a-a48fb63a330f
-rw-r--r--gi/pyp-topics/src/makefile.depend8102
-rw-r--r--gi/pyp-topics/src/mpi-pyp-topics.cc99
-rw-r--r--gi/pyp-topics/src/mpi-pyp-topics.hh10
-rw-r--r--gi/pyp-topics/src/mpi-pyp.hh277
-rw-r--r--gi/pyp-topics/src/mpi-train-contexts.cc113
-rw-r--r--gi/pyp-topics/src/pyp-topics.cc6
-rw-r--r--gi/pyp-topics/src/pyp.hh45
7 files changed, 4389 insertions, 4263 deletions
diff --git a/gi/pyp-topics/src/makefile.depend b/gi/pyp-topics/src/makefile.depend
index 88bc73c1..d8ef78d8 100644
--- a/gi/pyp-topics/src/makefile.depend
+++ b/gi/pyp-topics/src/makefile.depend
@@ -1,4089 +1,4037 @@
contexts_corpus.o: contexts_corpus.cc contexts_corpus.hh \
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+ /home/pblunsom/packages/include/boost/thread/pthread/condition_variable_fwd.hpp \
+ /home/pblunsom/packages/include/boost/thread/detail/thread.hpp \
+ /home/pblunsom/packages/include/boost/thread/detail/thread_heap_alloc.hpp \
+ /home/pblunsom/packages/include/boost/thread/pthread/thread_heap_alloc.hpp \
+ /home/pblunsom/packages/include/boost/thread/detail/thread_interruption.hpp \
+ /home/pblunsom/packages/include/boost/thread/detail/thread_group.hpp \
+ /home/pblunsom/packages/include/boost/thread/shared_mutex.hpp \
+ /home/pblunsom/packages/include/boost/thread/pthread/shared_mutex.hpp \
+ /home/pblunsom/packages/include/boost/thread/condition_variable.hpp \
+ /home/pblunsom/packages/include/boost/thread/pthread/condition_variable.hpp \
+ /home/pblunsom/packages/include/boost/thread/pthread/thread_data.hpp \
+ /home/pblunsom/packages/include/boost/thread/future.hpp \
+ /home/pblunsom/packages/include/boost/exception_ptr.hpp \
+ /home/pblunsom/packages/include/boost/exception/detail/exception_ptr.hpp \
+ /home/pblunsom/packages/include/boost/type_traits/is_fundamental.hpp \
+ /home/pblunsom/packages/include/boost/thread/condition.hpp timing.h \
+ clock_gettime_stub.c contexts_corpus.hh contexts_lexer.h \
+ ../../../decoder/dict.h \
+ /home/pblunsom/packages/include/boost/functional/hash.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/hash.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/hash_fwd.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/detail/hash_float.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/detail/float_functions.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/detail/limits.hpp \
+ /home/pblunsom/packages/include/boost/integer/static_log2.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/detail/hash_float_generic.hpp \
+ /home/pblunsom/packages/include/boost/functional/hash/extensions.hpp \
+ /home/pblunsom/packages/include/boost/detail/container_fwd.hpp \
+ ../../../decoder/wordid.h gzstream.hh
clock_gettime_stub.o: clock_gettime_stub.c
gammadist.o: gammadist.c gammadist.h mt19937ar.h
mt19937ar.o: mt19937ar.c mt19937ar.h
diff --git a/gi/pyp-topics/src/mpi-pyp-topics.cc b/gi/pyp-topics/src/mpi-pyp-topics.cc
index 4525302e..50db61c1 100644
--- a/gi/pyp-topics/src/mpi-pyp-topics.cc
+++ b/gi/pyp-topics/src/mpi-pyp-topics.cc
@@ -8,7 +8,6 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
int freq_cutoff_start, int freq_cutoff_end,
int freq_cutoff_interval,
int max_contexts_per_document) {
- std::cout << "I am process " << m_rank << " of " << m_size << "." << std::endl;
Timer timer;
std::cout << m_am_root << std::endl;
@@ -85,7 +84,7 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
F p0 = m_topic_pyp.prob(new_topic, m_topic_p0);
int table_delta = m_document_pyps.at(i).increment(new_topic, p0);
if (table_delta)
- m_topic_pyp.increment(new_topic, m_topic_p0);
+ m_topic_pyp.increment(new_topic, m_topic_p0, rnd);
}
else m_document_pyps.at(i).increment(new_topic, m_topic_p0);
}
@@ -95,23 +94,7 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
}
// Synchronise the topic->word counds across the processes.
- for (std::vector<MPIPYPs>::iterator levelIt=m_word_pyps.begin();
- levelIt != m_word_pyps.end(); ++levelIt) {
- for (MPIPYPs::iterator pypIt=levelIt->begin();
- pypIt != levelIt->end(); ++pypIt) {
- if (!m_am_root) boost::mpi::communicator().barrier();
- std::cerr << "Before Sync Process " << m_rank << ":";
- pypIt->debug_info(std::cerr); std::cerr << std::endl;
- if (m_am_root) boost::mpi::communicator().barrier();
-
- pypIt->synchronise();
-
- if (!m_am_root) boost::mpi::communicator().barrier();
- std::cerr << "After Sync Process " << m_rank << ":";
- pypIt->debug_info(std::cerr); std::cerr << std::endl;
- if (m_am_root) boost::mpi::communicator().barrier();
- }
- }
+ synchronise();
if (m_am_root) std::cerr << " Initialized in " << timer.Elapsed() << " seconds\n";
@@ -172,7 +155,7 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
int table_delta = m_document_pyps.at(doc_index).decrement(current_topic);
if (m_use_topic_pyp && table_delta < 0)
- m_topic_pyp.decrement(current_topic);
+ m_topic_pyp.decrement(current_topic, rnd);
}
// sample a new_topic
@@ -186,7 +169,7 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
F p0 = m_topic_pyp.prob(new_topic, m_topic_p0);
int table_delta = m_document_pyps.at(doc_index).increment(new_topic, p0);
if (table_delta)
- m_topic_pyp.increment(new_topic, m_topic_p0);
+ m_topic_pyp.increment(new_topic, m_topic_p0, rnd);
}
else m_document_pyps.at(doc_index).increment(new_topic, m_topic_p0);
}
@@ -194,19 +177,10 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
if (m_am_root) std::cerr << "."; std::cerr.flush();
}
}
- m_world.barrier();
+ std::cerr << "|"; std::cerr.flush();
+
// Synchronise the topic->word counds across the processes.
- for (std::vector<MPIPYPs>::iterator levelIt=m_word_pyps.begin();
- levelIt != m_word_pyps.end(); ++levelIt) {
- for (MPIPYPs::iterator pypIt=levelIt->begin();
- pypIt != levelIt->end(); ++pypIt) {
- std::cerr << "Before Sync Process " << m_rank << ":";
- pypIt->debug_info(std::cerr); std::cerr << std::endl;
- pypIt->synchronise();
- std::cerr << "After Sync Process " << m_rank << ":";
- pypIt->debug_info(std::cerr); std::cerr << std::endl;
- }
- }
+ synchronise();
if (m_am_root) std::cerr << " ||| sampled " << processed_terms << " terms.";
@@ -221,19 +195,19 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
levelIt != m_word_pyps.end(); ++levelIt) {
for (MPIPYPs::iterator pypIt=levelIt->begin();
pypIt != levelIt->end(); ++pypIt) {
- pypIt->resample_prior();
+ pypIt->resample_prior(rnd);
log_p += pypIt->log_restaurant_prob();
}
}
for (PYPs::iterator pypIt=m_document_pyps.begin();
pypIt != m_document_pyps.end(); ++pypIt) {
- pypIt->resample_prior();
+ pypIt->resample_prior(rnd);
log_p += pypIt->log_restaurant_prob();
}
if (m_use_topic_pyp) {
- m_topic_pyp.resample_prior();
+ m_topic_pyp.resample_prior(rnd);
log_p += m_topic_pyp.log_restaurant_prob();
}
@@ -257,10 +231,44 @@ void MPIPYPTopics::sample_corpus(const Corpus& corpus, int samples,
delete [] randomDocIndices;
}
+void MPIPYPTopics::synchronise() {
+ // Synchronise the topic->word counds across the processes.
+ //for (std::vector<MPIPYPs>::iterator levelIt=m_word_pyps.begin();
+ // levelIt != m_word_pyps.end(); ++levelIt) {
+// std::vector<MPIPYPs>::iterator levelIt=m_word_pyps.begin();
+// {
+// for (MPIPYPs::iterator pypIt=levelIt->begin(); pypIt != levelIt->end(); ++pypIt) {
+ for (size_t label=0; label < m_word_pyps.at(0).size(); ++label) {
+ MPIPYP<int>& pyp = m_word_pyps.at(0).at(label);
+
+ //if (!m_am_root) boost::mpi::communicator().barrier();
+ //std::cerr << "Before Sync Process " << m_rank << ":";
+ //pyp.debug_info(std::cerr); std::cerr << std::endl;
+ //if (m_am_root) boost::mpi::communicator().barrier();
+
+ MPIPYP<int>::dish_delta_type delta;
+ pyp.synchronise(&delta);
+
+ for (MPIPYP<int>::dish_delta_type::const_iterator it=delta.begin(); it != delta.end(); ++it) {
+ int count = it->second;
+ if (count > 0)
+ for (int i=0; i < count; ++i) increment(it->first, label);
+ if (count < 0)
+ for (int i=0; i > count; --i) decrement(it->first, label);
+ }
+ pyp.reset_deltas();
+
+ //if (!m_am_root) boost::mpi::communicator().barrier();
+ //std::cerr << "After Sync Process " << m_rank << ":";
+ //pyp.debug_info(std::cerr); std::cerr << std::endl;
+ //if (m_am_root) boost::mpi::communicator().barrier();
+ }
+// }
+}
void MPIPYPTopics::decrement(const Term& term, int topic, int level) {
//std::cerr << "MPIPYPTopics::decrement(" << term << "," << topic << "," << level << ")" << std::endl;
- m_word_pyps.at(level).at(topic).decrement(term);
+ m_word_pyps.at(level).at(topic).decrement(term, rnd);
if (m_backoff.get()) {
Term backoff_term = (*m_backoff)[term];
if (!m_backoff->is_null(backoff_term))
@@ -270,7 +278,7 @@ void MPIPYPTopics::decrement(const Term& term, int topic, int level) {
void MPIPYPTopics::increment(const Term& term, int topic, int level) {
//std::cerr << "MPIPYPTopics::increment(" << term << "," << topic << "," << level << ")" << std::endl;
- m_word_pyps.at(level).at(topic).increment(term, word_pyps_p0(term, topic, level));
+ m_word_pyps.at(level).at(topic).increment(term, word_pyps_p0(term, topic, level), rnd);
if (m_backoff.get()) {
Term backoff_term = (*m_backoff)[term];
@@ -301,6 +309,7 @@ int MPIPYPTopics::sample(const DocumentId& doc, const Term& term) {
if (cutoff <= sums[k])
return k;
}
+ std::cerr << cutoff << " " << sum << std::endl;
assert(false);
}
@@ -355,10 +364,11 @@ int MPIPYPTopics::max_topic() const {
return current_topic;
}
-int MPIPYPTopics::max(const DocumentId& doc) const {
+int MPIPYPTopics::max(const DocumentId& true_doc) const {
//std::cerr << "MPIPYPTopics::max(" << doc << "," << term << ")" << std::endl;
// collect probs
F current_max=0.0;
+ DocumentId local_doc = true_doc - m_mpi_start;
int current_topic=-1;
for (int k=0; k<m_num_topics; ++k) {
//F p_w_k = prob(term, k);
@@ -368,8 +378,8 @@ int MPIPYPTopics::max(const DocumentId& doc) const {
topic_prob = m_topic_pyp.prob(k, m_topic_p0);
F prob = 0;
- if (doc < 0) prob = topic_prob;
- else prob = m_document_pyps[doc].prob(k, topic_prob);
+ if (local_doc < 0) prob = topic_prob;
+ else prob = m_document_pyps.at(local_doc).prob(k, topic_prob);
if (prob > current_max) {
current_max = prob;
@@ -380,10 +390,11 @@ int MPIPYPTopics::max(const DocumentId& doc) const {
return current_topic;
}
-int MPIPYPTopics::max(const DocumentId& doc, const Term& term) const {
+int MPIPYPTopics::max(const DocumentId& true_doc, const Term& term) const {
//std::cerr << "MPIPYPTopics::max(" << doc << "," << term << ")" << std::endl;
// collect probs
F current_max=0.0;
+ DocumentId local_doc = true_doc - m_mpi_start;
int current_topic=-1;
for (int k=0; k<m_num_topics; ++k) {
F p_w_k = prob(term, k);
@@ -393,8 +404,8 @@ int MPIPYPTopics::max(const DocumentId& doc, const Term& term) const {
topic_prob = m_topic_pyp.prob(k, m_topic_p0);
F p_k_d = 0;
- if (doc < 0) p_k_d = topic_prob;
- else p_k_d = m_document_pyps[doc].prob(k, topic_prob);
+ if (local_doc < 0) p_k_d = topic_prob;
+ else p_k_d = m_document_pyps.at(local_doc).prob(k, topic_prob);
F prob = (p_w_k*p_k_d);
if (prob > current_max) {
diff --git a/gi/pyp-topics/src/mpi-pyp-topics.hh b/gi/pyp-topics/src/mpi-pyp-topics.hh
index a85a776d..4a4433e6 100644
--- a/gi/pyp-topics/src/mpi-pyp-topics.hh
+++ b/gi/pyp-topics/src/mpi-pyp-topics.hh
@@ -8,9 +8,13 @@
#include <boost/random/uniform_real.hpp>
#include <boost/random/variate_generator.hpp>
#include <boost/random/mersenne_twister.hpp>
+#include <boost/random/inversive_congruential.hpp>
+#include <boost/random/linear_congruential.hpp>
+#include <boost/random/lagged_fibonacci.hpp>
#include <boost/mpi/environment.hpp>
#include <boost/mpi/communicator.hpp>
+
#include "mpi-pyp.hh"
#include "corpus.hh"
@@ -62,6 +66,8 @@ public:
std::ostream& print_document_topics(std::ostream& out) const;
std::ostream& print_topic_terms(std::ostream& out) const;
+ void synchronise();
+
private:
F word_pyps_p0(const Term& term, int topic, int level) const;
@@ -78,7 +84,9 @@ private:
unsigned long m_seed;
- typedef boost::mt19937 base_generator_type;
+ //typedef boost::mt19937 base_generator_type;
+ //typedef boost::hellekalek1995 base_generator_type;
+ typedef boost::lagged_fibonacci607 base_generator_type;
typedef boost::uniform_real<> uni_dist_type;
typedef boost::variate_generator<base_generator_type&, uni_dist_type> gen_type;
diff --git a/gi/pyp-topics/src/mpi-pyp.hh b/gi/pyp-topics/src/mpi-pyp.hh
index 65358d20..0328b387 100644
--- a/gi/pyp-topics/src/mpi-pyp.hh
+++ b/gi/pyp-topics/src/mpi-pyp.hh
@@ -26,18 +26,21 @@
template <typename Dish, typename Hash=std::tr1::hash<Dish> >
class MPIPYP : public PYP<Dish, Hash> {
public:
+ typedef std::map<Dish, int> dish_delta_type;
+
MPIPYP(double a, double b, Hash hash=Hash());
- virtual int increment(Dish d, double p0);
- virtual int decrement(Dish d);
+ template < typename Uniform01 >
+ int increment(Dish d, double p0, Uniform01& rnd);
+ template < typename Uniform01 >
+ int decrement(Dish d, Uniform01& rnd);
void clear();
void reset_deltas();
- void synchronise();
+ void synchronise(dish_delta_type* result);
private:
- typedef std::map<Dish, int> dish_delta_type;
typedef std::map<Dish, typename PYP<Dish,Hash>::TableCounter> table_delta_type;
dish_delta_type m_count_delta;
@@ -49,8 +52,10 @@ MPIPYP<Dish,Hash>::MPIPYP(double a, double b, Hash h)
: PYP<Dish,Hash>(a, b, 0, h) {}
template <typename Dish, typename Hash>
+ template <typename Uniform01>
int
-MPIPYP<Dish,Hash>::increment(Dish dish, double p0) {
+MPIPYP<Dish,Hash>::increment(Dish dish, double p0, Uniform01& rnd) {
+ //std::cerr << "-----INCREMENT DISH " << dish << std::endl;
int delta = 0;
int table_joined=-1;
typename PYP<Dish,Hash>::TableCounter &tc = PYP<Dish,Hash>::_dish_tables[dish];
@@ -63,19 +68,23 @@ MPIPYP<Dish,Hash>::increment(Dish dish, double p0) {
double& b = PYP<Dish,Hash>::_b;
double pshare = (c > 0) ? (c - a*t) : 0.0;
double pnew = (b + a*T) * p0;
- assert (pshare >= 0.0);
+ if (pshare < 0.0) {
+ std::cerr << pshare << " " << c << " " << a << " " << t << std::endl;
+ assert(false);
+ }
- if (mt_genrand_res53() < pnew / (pshare + pnew)) {
+ if (rnd() < pnew / (pshare + pnew)) {
// assign to a new table
tc.tables += 1;
tc.table_histogram[1] += 1;
PYP<Dish,Hash>::_total_tables += 1;
delta = 1;
+ table_joined = 1;
}
else {
// randomly assign to an existing table
// remove constant denominator from inner loop
- double r = mt_genrand_res53() * (c - a*t);
+ double r = rnd() * (c - a*t);
for (std::map<int,int>::iterator
hit = tc.table_histogram.begin();
hit != tc.table_histogram.end(); ++hit) {
@@ -83,9 +92,9 @@ MPIPYP<Dish,Hash>::increment(Dish dish, double p0) {
if (r <= 0) {
tc.table_histogram[hit->first+1] += 1;
hit->second -= 1;
+ table_joined = hit->first+1;
if (hit->second == 0)
tc.table_histogram.erase(hit);
- table_joined = hit->first+1;
break;
}
}
@@ -112,32 +121,66 @@ MPIPYP<Dish,Hash>::increment(Dish dish, double p0) {
m_count_delta.erase(customer_it);
// increment the histogram bar for the table joined
- if (!delta) {
- assert (table_joined >= 0);
- std::map<int,int> &histogram = m_table_delta[dish].table_histogram;
- typename std::map<int,int>::iterator table_it; bool table_insert_result;
- boost::tie(table_it, table_insert_result) = histogram.insert(std::make_pair(table_joined,0));
- table_it->second += 1;
- if (table_it->second == 0) histogram.erase(table_it);
+ /*
+ typename PYP<Dish,Hash>::TableCounter &delta_tc = m_table_delta[dish];
+
+ std::map<int,int> &histogram = delta_tc.table_histogram;
+ assert (table_joined > 0);
+ typename std::map<int,int>::iterator table_it; bool table_insert_result;
+ boost::tie(table_it, table_insert_result) = histogram.insert(std::make_pair(table_joined,0));
+ table_it->second += 1;
+ if (delta == 0) {
// decrement the histogram bar for the table left
- boost::tie(table_it, table_insert_result) = histogram.insert(std::make_pair(table_joined-1,0));
- table_it->second -= 1;
- if (table_it->second == 0) histogram.erase(table_it);
+ typename std::map<int,int>::iterator left_table_it;
+ boost::tie(left_table_it, table_insert_result)
+ = histogram.insert(std::make_pair(table_joined-1,0));
+ left_table_it->second -= 1;
+ if (left_table_it->second == 0) histogram.erase(left_table_it);
}
- else {
- typename PYP<Dish,Hash>::TableCounter &delta_tc = m_table_delta[dish];
- delta_tc.tables += 1;
- delta_tc.table_histogram[1] += 1;
+ else delta_tc.tables += 1;
+
+ if (table_it->second == 0) histogram.erase(table_it);
+
+ //std::cerr << "Added (" << delta << ") " << dish << " to table " << table_joined << "\n";
+ //std::cerr << "Dish " << dish << " has " << count(dish) << " customers, and is sitting at " << PYP<Dish,Hash>::num_tables(dish) << " tables.\n";
+ //for (std::map<int,int>::const_iterator
+ // hit = delta_tc.table_histogram.begin();
+ // hit != delta_tc.table_histogram.end(); ++hit) {
+ // std::cerr << " " << hit->second << " tables with " << hit->first << " customers." << std::endl;
+ //}
+ //std::cerr << "Added (" << delta << ") " << dish << " to table " << table_joined << "\n";
+ //std::cerr << "Dish " << dish << " has " << count(dish) << " customers, and is sitting at " << PYP<Dish,Hash>::num_tables(dish) << " tables.\n";
+ int x_num_customers=0, x_num_table=0;
+ for (std::map<int,int>::const_iterator
+ hit = delta_tc.table_histogram.begin();
+ hit != delta_tc.table_histogram.end(); ++hit) {
+ x_num_table += hit->second;
+ x_num_customers += (hit->second*hit->first);
+ }
+ int tmp_c = PYP<Dish,Hash>::count(dish);
+ int tmp_t = PYP<Dish,Hash>::num_tables(dish);
+ assert (x_num_customers <= tmp_c);
+ assert (x_num_table <= tmp_t);
+
+ if (delta_tc.table_histogram.empty()) {
+ assert (delta_tc.tables == 0);
+ m_table_delta.erase(dish);
}
+ */
+
+ //PYP<Dish,Hash>::debug_info(std::cerr);
+ //std::cerr << " Dish " << dish << " has count " << PYP<Dish,Hash>::count(dish) << " tables " << PYP<Dish,Hash>::num_tables(dish) << std::endl;
return delta;
}
template <typename Dish, typename Hash>
+ template <typename Uniform01>
int
-MPIPYP<Dish,Hash>::decrement(Dish dish)
+MPIPYP<Dish,Hash>::decrement(Dish dish, Uniform01& rnd)
{
+ //std::cerr << "-----DECREMENT DISH " << dish << std::endl;
typename std::tr1::unordered_map<Dish, int>::iterator dcit = find(dish);
//typename google::sparse_hash_map<Dish, int>::iterator dcit = find(dish);
if (dcit == PYP<Dish,Hash>::end()) {
@@ -156,7 +199,7 @@ MPIPYP<Dish,Hash>::decrement(Dish dish)
}
typename PYP<Dish,Hash>::TableCounter &tc = dtit->second;
- double r = mt_genrand_res53() * PYP<Dish,Hash>::count(dish);
+ double r = rnd() * PYP<Dish,Hash>::count(dish);
for (std::map<int,int>::iterator hit = tc.table_histogram.begin();
hit != tc.table_histogram.end(); ++hit) {
r -= (hit->first * hit->second);
@@ -191,26 +234,54 @@ MPIPYP<Dish,Hash>::decrement(Dish dish)
PYP<Dish,Hash>::_dish_tables.erase(dtit);
}
+ // MPI Delta processing
typename dish_delta_type::iterator it;
bool insert_result;
boost::tie(it, insert_result) = m_count_delta.insert(std::make_pair(dish,0));
-
it->second -= 1;
+ if (it->second == 0) m_count_delta.erase(it);
- if (it->second == 0)
- m_count_delta.erase(it);
-
- assert (table_left >= 0);
+ assert (table_left > 0);
typename PYP<Dish,Hash>::TableCounter& delta_tc = m_table_delta[dish];
- if (table_left > 1)
- delta_tc.table_histogram[table_left-1] += 1;
+ if (table_left > 1) {
+ std::map<int,int>::iterator tit;
+ boost::tie(tit, insert_result) = delta_tc.table_histogram.insert(std::make_pair(table_left-1,0));
+ tit->second += 1;
+ if (tit->second == 0) delta_tc.table_histogram.erase(tit);
+ }
else delta_tc.tables -= 1;
- std::map<int,int>::iterator tit = delta_tc.table_histogram.find(table_left);
- //assert (tit != delta_tc.table_histogram.end());
+ std::map<int,int>::iterator tit;
+ boost::tie(tit, insert_result) = delta_tc.table_histogram.insert(std::make_pair(table_left,0));
tit->second -= 1;
if (tit->second == 0) delta_tc.table_histogram.erase(tit);
+ // std::cerr << "Dish " << dish << " has " << count(dish) << " customers, and is sitting at " << PYP<Dish,Hash>::num_tables(dish) << " tables.\n";
+ // for (std::map<int,int>::const_iterator
+ // hit = delta_tc.table_histogram.begin();
+ // hit != delta_tc.table_histogram.end(); ++hit) {
+ // std::cerr << " " << hit->second << " tables with " << hit->first << " customers." << std::endl;
+ // }
+ int x_num_customers=0, x_num_table=0;
+ for (std::map<int,int>::const_iterator
+ hit = delta_tc.table_histogram.begin();
+ hit != delta_tc.table_histogram.end(); ++hit) {
+ x_num_table += hit->second;
+ x_num_customers += (hit->second*hit->first);
+ }
+ int tmp_c = PYP<Dish,Hash>::count(dish);
+ int tmp_t = PYP<Dish,Hash>::num_tables(dish);
+ assert (x_num_customers <= tmp_c);
+ assert (x_num_table <= tmp_t);
+
+ if (delta_tc.table_histogram.empty()) {
+ // std::cerr << " DELETING " << dish << std::endl;
+ assert (delta_tc.tables == 0);
+ m_table_delta.erase(dish);
+ }
+
+ //PYP<Dish,Hash>::debug_info(std::cerr);
+ //std::cerr << " Dish " << dish << " has count " << PYP<Dish,Hash>::count(dish) << " tables " << PYP<Dish,Hash>::num_tables(dish) << std::endl;
return delta;
}
@@ -238,6 +309,16 @@ struct sum_maps {
}
};
+template <typename Dish>
+struct subtract_maps {
+ typedef std::map<Dish,int> map_type;
+ map_type& operator() (map_type& l, map_type const & r) const {
+ for (typename map_type::const_iterator it=r.begin(); it != r.end(); it++)
+ l[it->first] -= it->second;
+ return l;
+ }
+};
+
// Needed Boost definitions
namespace boost {
namespace mpi {
@@ -255,60 +336,110 @@ namespace boost {
} // namespace serialization
} // namespace boost
+template <typename A, typename B, typename C>
+struct triple {
+ triple() {}
+ triple(const A& a, const B& b, const C& c) : first(a), second(b), third(c) {}
+ A first;
+ B second;
+ C third;
+
+ template<class Archive>
+ void serialize(Archive &ar, const unsigned int version){
+ ar & first;
+ ar & second;
+ ar & third;
+ }
+};
+
template <typename Dish, typename Hash>
void
-MPIPYP<Dish,Hash>::synchronise() {
+MPIPYP<Dish,Hash>::synchronise(dish_delta_type* result) {
boost::mpi::communicator world;
- int rank = world.rank(), size = world.size();
+ //int rank = world.rank(), size = world.size();
+ boost::mpi::all_reduce(world, m_count_delta, *result, sum_maps<Dish>());
+ subtract_maps<Dish>()(*result, m_count_delta);
+
+/*
// communicate the customer count deltas
- dish_delta_type global_dish_delta; // the “merged” map
+ dish_delta_type global_dish_delta;
boost::mpi::all_reduce(world, m_count_delta, global_dish_delta, sum_maps<Dish>());
// update this restaurant
for (typename dish_delta_type::const_iterator it=global_dish_delta.begin();
it != global_dish_delta.end(); ++it) {
- std::tr1::unordered_map<Dish,int,Hash>::operator[](it->first) += (it->second - m_count_delta[it->first]);
+ int global_delta = it->second - m_count_delta[it->first];
+ if (global_delta == 0) continue;
+ typename std::tr1::unordered_map<Dish,int,Hash>::iterator dit; bool inserted;
+ boost::tie(dit, inserted)
+ = std::tr1::unordered_map<Dish,int,Hash>::insert(std::make_pair(it->first, 0));
+ dit->second += global_delta;
+ assert(dit->second >= 0);
+ if (dit->second == 0) {
+ std::tr1::unordered_map<Dish,int,Hash>::erase(dit);
+ }
+
PYP<Dish,Hash>::_total_customers += (it->second - m_count_delta[it->first]);
- //std::cerr << "Process " << rank << " adding " << (it->second - m_count_delta[it->first]) << " customers." << std::endl;
+ int tmp = PYP<Dish,Hash>::_total_customers;
+ assert(tmp >= 0);
+ //std::cerr << "Process " << rank << " adding " << (it->second - m_count_delta[it->first]) << " of customer " << it->first << std::endl;
}
-
+*/
+/*
// communicate the table count deltas
-// for (int process = 0; process < size; ++process) {
-// if (rank == process) {
-// // broadcast deltas
-// std::cerr << " -- Rank " << rank << " broadcasting -- " << std::endl;
-//
-// boost::mpi::broadcast(world, m_table_delta, process);
-//
-// std::cerr << " -- Rank " << rank << " done broadcasting -- " << std::endl;
-// }
-// else {
-// std::cerr << " -- Rank " << rank << " receiving -- " << std::endl;
-// // receive deltas
-// table_delta_type recv_table_delta;
-//
-// boost::mpi::broadcast(world, recv_table_delta, process);
-//
-// std::cerr << " -- Rank " << rank << " done receiving -- " << std::endl;
-//
-// for (typename table_delta_type::const_iterator dish_it=recv_table_delta.begin();
-// dish_it != recv_table_delta.end(); ++dish_it) {
-// typename PYP<Dish,Hash>::TableCounter &tc = PYP<Dish,Hash>::_dish_tables[dish_it->first];
-//
-// for (std::map<int,int>::const_iterator it=dish_it->second.table_histogram.begin();
-// it != dish_it->second.table_histogram.end(); ++it) {
-// tc.table_histogram[it->first] += it->second;
-// }
-// tc.tables += dish_it->second.tables;
-// PYP<Dish,Hash>::_total_tables += dish_it->second.tables;
-// }
-// }
-// }
-// std::cerr << " -- Done Reducing -- " << std::endl;
+ for (int process = 0; process < size; ++process) {
+ typename std::vector< triple<Dish, int, int> > message;
+ if (rank == process) {
+ // broadcast deltas
+ for (typename table_delta_type::const_iterator dish_it=m_table_delta.begin();
+ dish_it != m_table_delta.end(); ++dish_it) {
+ //assert (dish_it->second.tables > 0);
+ for (std::map<int,int>::const_iterator it=dish_it->second.table_histogram.begin();
+ it != dish_it->second.table_histogram.end(); ++it) {
+ triple<Dish, int, int> m(dish_it->first, it->first, it->second);
+ message.push_back(m);
+ }
+ // append a special message with the total table delta for this dish
+ triple<Dish, int, int> m(dish_it->first, -1, dish_it->second.tables);
+ message.push_back(m);
+ }
+ boost::mpi::broadcast(world, message, process);
+ }
+ else {
+ // receive deltas
+ boost::mpi::broadcast(world, message, process);
+ for (typename std::vector< triple<Dish, int, int> >::const_iterator it=message.begin(); it != message.end(); ++it) {
+ typename PYP<Dish,Hash>::TableCounter& tc = PYP<Dish,Hash>::_dish_tables[it->first];
+ if (it->second >= 0) {
+ std::map<int,int>::iterator tit; bool inserted;
+ boost::tie(tit, inserted) = tc.table_histogram.insert(std::make_pair(it->second, 0));
+ tit->second += it->third;
+ if (tit->second < 0) {
+ std::cerr << tit->first << " " << tit->second << " " << it->first << " " << it->second << " " << it->third << std::endl;
+ assert(tit->second >= 0);
+ }
+ if (tit->second == 0) {
+ tc.table_histogram.erase(tit);
+ }
+ }
+ else {
+ tc.tables += it->third;
+ PYP<Dish,Hash>::_total_tables += it->third;
+ assert(tc.tables >= 0);
+ if (tc.tables == 0) assert(tc.table_histogram.empty());
+ if (tc.table_histogram.empty()) {
+ assert (tc.tables == 0);
+ PYP<Dish,Hash>::_dish_tables.erase(it->first);
+ }
+ }
+ }
+ }
+ }
+*/
- reset_deltas();
+// reset_deltas();
}
#endif
diff --git a/gi/pyp-topics/src/mpi-train-contexts.cc b/gi/pyp-topics/src/mpi-train-contexts.cc
index 0651ecac..6e1e78a5 100644
--- a/gi/pyp-topics/src/mpi-train-contexts.cc
+++ b/gi/pyp-topics/src/mpi-train-contexts.cc
@@ -10,6 +10,7 @@
#include <boost/scoped_ptr.hpp>
#include <boost/mpi/environment.hpp>
#include <boost/mpi/communicator.hpp>
+#include <boost/lexical_cast.hpp>
// Local
#include "mpi-pyp-topics.hh"
@@ -28,9 +29,10 @@ int main(int argc, char **argv)
{
mpi::environment env(argc, argv);
mpi::communicator world;
- bool am_root = (world.rank() == 0);
- if (am_root) std::cout << "I am process " << world.rank() << " of " << world.size() << "." << std::endl;
+ int rank = world.rank();
+ bool am_root = rank;
if (am_root) cout << "Pitman Yor topic models: Copyright 2010 Phil Blunsom\n";
+ if (am_root) std::cout << "I am process " << world.rank() << " of " << world.size() << "." << std::endl;
if (am_root) cout << REVISION << '\n' <<endl;
////////////////////////////////////////////////////////////////////////////////////////////
@@ -117,60 +119,73 @@ int main(int argc, char **argv)
vm["freq-cutoff-interval"].as<int>(),
vm["max-contexts-per-document"].as<int>());
- if (world.rank() == 0) {
- if (vm.count("document-topics-out")) {
- ogzstream documents_out(vm["document-topics-out"].as<string>().c_str());
-
- int document_id=0;
- map<int,int> all_terms;
- for (Corpus::const_iterator corpusIt=contexts_corpus.begin();
- corpusIt != contexts_corpus.end(); ++corpusIt, ++document_id) {
- vector<int> unique_terms;
- for (Document::const_iterator docIt=corpusIt->begin();
- docIt != corpusIt->end(); ++docIt) {
- if (unique_terms.empty() || *docIt != unique_terms.back())
- unique_terms.push_back(*docIt);
- // increment this terms frequency
- pair<map<int,int>::iterator,bool> insert_result = all_terms.insert(make_pair(*docIt,1));
- if (!insert_result.second)
- all_terms[*docIt] = all_terms[*docIt] + 1;
- //insert_result.first++;
- }
- documents_out << contexts_corpus.key(document_id) << '\t';
- documents_out << model.max(document_id) << " " << corpusIt->size() << " ||| ";
- for (std::vector<int>::const_iterator termIt=unique_terms.begin();
- termIt != unique_terms.end(); ++termIt) {
- if (termIt != unique_terms.begin())
- documents_out << " ||| ";
- vector<std::string> strings = contexts_corpus.context2string(*termIt);
- copy(strings.begin(), strings.end(),ostream_iterator<std::string>(documents_out, " "));
- documents_out << "||| C=" << model.max(document_id, *termIt);
-
- }
- documents_out <<endl;
+ if (vm.count("document-topics-out")) {
+ std::ofstream documents_out((vm["document-topics-out"].as<string>() + ".pyp-process-" + boost::lexical_cast<std::string>(rank)).c_str());
+ int documents = contexts_corpus.num_documents();
+ int mpi_start = 0, mpi_end = documents;
+ if (world.size() != 1) {
+ mpi_start = (documents / world.size()) * rank;
+ if (rank == world.size()-1) mpi_end = documents;
+ else mpi_end = (documents / world.size())*(rank+1);
+ }
+
+ map<int,int> all_terms;
+ for (int document_id=mpi_start; document_id<mpi_end; ++document_id) {
+ assert (document_id < contexts_corpus.num_documents());
+ const Document& doc = contexts_corpus.at(document_id);
+ vector<int> unique_terms;
+ for (Document::const_iterator docIt=doc.begin(); docIt != doc.end(); ++docIt) {
+ if (unique_terms.empty() || *docIt != unique_terms.back())
+ unique_terms.push_back(*docIt);
+ // increment this terms frequency
+ pair<map<int,int>::iterator,bool> insert_result = all_terms.insert(make_pair(*docIt,1));
+ if (!insert_result.second)
+ all_terms[*docIt] = all_terms[*docIt] + 1;
}
- documents_out.close();
-
- if (vm.count("default-topics-out")) {
- ofstream default_topics(vm["default-topics-out"].as<string>().c_str());
- default_topics << model.max_topic() <<endl;
- for (std::map<int,int>::const_iterator termIt=all_terms.begin(); termIt != all_terms.end(); ++termIt) {
- vector<std::string> strings = contexts_corpus.context2string(termIt->first);
- default_topics << model.max(-1, termIt->first) << " ||| " << termIt->second << " ||| ";
- copy(strings.begin(), strings.end(),ostream_iterator<std::string>(default_topics, " "));
- default_topics <<endl;
- }
+ documents_out << contexts_corpus.key(document_id) << '\t';
+ documents_out << model.max(document_id) << " " << doc.size() << " ||| ";
+ for (std::vector<int>::const_iterator termIt=unique_terms.begin(); termIt != unique_terms.end(); ++termIt) {
+ if (termIt != unique_terms.begin())
+ documents_out << " ||| ";
+ vector<std::string> strings = contexts_corpus.context2string(*termIt);
+ copy(strings.begin(), strings.end(),ostream_iterator<std::string>(documents_out, " "));
+ documents_out << "||| C=" << model.max(document_id, *termIt);
}
+ documents_out <<endl;
+ }
+ documents_out.close();
+
+ if (am_root) {
+ ogzstream root_documents_out(vm["document-topics-out"].as<string>().c_str());
+ for (int p=0; p < world.size(); ++p) {
+ std::string rank_p_prefix((vm["document-topics-out"].as<string>() + ".pyp-process-" + boost::lexical_cast<std::string>(p)).c_str());
+ std::ifstream rank_p_trees_istream(rank_p_prefix.c_str(), std::ios_base::binary);
+ root_documents_out << rank_p_trees_istream.rdbuf();
+ rank_p_trees_istream.close();
+ remove((rank_p_prefix).c_str());
+ }
+ root_documents_out.close();
}
- if (vm.count("topic-words-out")) {
- ogzstream topics_out(vm["topic-words-out"].as<string>().c_str());
- model.print_topic_terms(topics_out);
- topics_out.close();
+ if (am_root && vm.count("default-topics-out")) {
+ ofstream default_topics(vm["default-topics-out"].as<string>().c_str());
+ default_topics << model.max_topic() <<endl;
+ for (std::map<int,int>::const_iterator termIt=all_terms.begin(); termIt != all_terms.end(); ++termIt) {
+ vector<std::string> strings = contexts_corpus.context2string(termIt->first);
+ default_topics << model.max(-1, termIt->first) << " ||| " << termIt->second << " ||| ";
+ copy(strings.begin(), strings.end(),ostream_iterator<std::string>(default_topics, " "));
+ default_topics <<endl;
+ }
}
+ }
- cout <<endl;
+ if (am_root && vm.count("topic-words-out")) {
+ ogzstream topics_out(vm["topic-words-out"].as<string>().c_str());
+ model.print_topic_terms(topics_out);
+ topics_out.close();
}
+ cout <<endl;
+
return 0;
}
diff --git a/gi/pyp-topics/src/pyp-topics.cc b/gi/pyp-topics/src/pyp-topics.cc
index b154f922..06499291 100644
--- a/gi/pyp-topics/src/pyp-topics.cc
+++ b/gi/pyp-topics/src/pyp-topics.cc
@@ -200,7 +200,7 @@ void PYPTopics::sample_corpus(const Corpus& corpus, int samples,
}
if (m_use_topic_pyp) {
- m_topic_pyp.resample_prior();
+ m_topic_pyp.resample_prior(rnd);
log_p += m_topic_pyp.log_restaurant_prob();
}
@@ -233,7 +233,7 @@ PYPTopics::F PYPTopics::hresample_docs(int start, int end)
assert(start <= end);
for (int i=start; i < end; ++i)
{
- m_document_pyps[i].resample_prior();
+ m_document_pyps[i].resample_prior(rnd);
log_p += m_document_pyps[i].log_restaurant_prob();
if (resample_counter++ % 5000 == 0) {
std::cerr << "."; std::cerr.flush();
@@ -250,7 +250,7 @@ PYPTopics::F PYPTopics::hresample_topics()
for (PYPs::iterator pypIt=levelIt->begin();
pypIt != levelIt->end(); ++pypIt) {
- pypIt->resample_prior();
+ pypIt->resample_prior(rnd);
log_p += pypIt->log_restaurant_prob();
}
}
diff --git a/gi/pyp-topics/src/pyp.hh b/gi/pyp-topics/src/pyp.hh
index 84decb0f..19cd6be8 100644
--- a/gi/pyp-topics/src/pyp.hh
+++ b/gi/pyp-topics/src/pyp.hh
@@ -71,9 +71,12 @@ public:
static double log_prior_a(double a, double beta_a, double beta_b);
static double log_prior_b(double b, double gamma_c, double gamma_s);
- void resample_prior();
- void resample_prior_a();
- void resample_prior_b();
+ template <typename Uniform01>
+ void resample_prior(Uniform01& rnd);
+ template <typename Uniform01>
+ void resample_prior_a(Uniform01& rnd);
+ template <typename Uniform01>
+ void resample_prior_b(Uniform01& rnd);
protected:
double _a, _b; // parameters of the Pitman-Yor distribution
@@ -402,13 +405,18 @@ PYP<Dish,Hash>::debug_info(std::ostream& os) const
hists += dtit->second.table_histogram.size();
tables += dtit->second.tables;
+// if (dtit->second.tables <= 0)
+// std::cerr << dtit->first << " " << count(dtit->first) << std::endl;
assert(dtit->second.tables > 0);
assert(!dtit->second.table_histogram.empty());
+// os << "Dish " << dtit->first << " has " << count(dtit->first) << " customers, and is sitting at " << dtit->second.tables << " tables.\n";
for (std::map<int,int>::const_iterator
hit = dtit->second.table_histogram.begin();
- hit != dtit->second.table_histogram.end(); ++hit)
+ hit != dtit->second.table_histogram.end(); ++hit) {
+// os << " " << hit->second << " tables with " << hit->first << " customers." << std::endl;
assert(hit->second > 0);
+ }
}
os << "restaurant has "
@@ -510,41 +518,46 @@ long double PYP<Dish,Hash>::lgammadist(long double x, long double alpha, long do
template <typename Dish, typename Hash>
+ template <typename Uniform01>
void
-PYP<Dish,Hash>::resample_prior() {
+PYP<Dish,Hash>::resample_prior(Uniform01& rnd) {
for (int num_its=5; num_its >= 0; --num_its) {
- resample_prior_b();
- resample_prior_a();
+ resample_prior_b(rnd);
+ resample_prior_a(rnd);
}
- resample_prior_b();
+ resample_prior_b(rnd);
}
template <typename Dish, typename Hash>
+ template <typename Uniform01>
void
-PYP<Dish,Hash>::resample_prior_b() {
+PYP<Dish,Hash>::resample_prior_b(Uniform01& rnd) {
if (_total_tables == 0)
return;
- int niterations = 10; // number of resampling iterations
+ //int niterations = 10; // number of resampling iterations
+ int niterations = 5; // number of resampling iterations
//std::cerr << "\n## resample_prior_b(), initial a = " << _a << ", b = " << _b << std::endl;
resample_b_type b_log_prob(_total_customers, _total_tables, _a, _b_gamma_c, _b_gamma_s);
- //_b = slice_sampler1d(b_log_prob, _b, rnd, (double) 0.0, std::numeric_limits<double>::infinity(),
- _b = slice_sampler1d(b_log_prob, _b, mt_genrand_res53, (double) 0.0, std::numeric_limits<double>::infinity(),
+ _b = slice_sampler1d(b_log_prob, _b, rnd, (double) 0.0, std::numeric_limits<double>::infinity(),
+ //_b = slice_sampler1d(b_log_prob, _b, mt_genrand_res53, (double) 0.0, std::numeric_limits<double>::infinity(),
(double) 0.0, niterations, 100*niterations);
//std::cerr << "\n## resample_prior_b(), final a = " << _a << ", b = " << _b << std::endl;
}
template <typename Dish, typename Hash>
+ template <typename Uniform01>
void
-PYP<Dish,Hash>::resample_prior_a() {
+PYP<Dish,Hash>::resample_prior_a(Uniform01& rnd) {
if (_total_tables == 0)
return;
- int niterations = 10;
+ //int niterations = 10;
+ int niterations = 5;
//std::cerr << "\n## Initial a = " << _a << ", b = " << _b << std::endl;
resample_a_type a_log_prob(_total_customers, _total_tables, _b, _a_beta_a, _a_beta_b, _dish_tables);
- //_a = slice_sampler1d(a_log_prob, _a, rnd, std::numeric_limits<double>::min(),
- _a = slice_sampler1d(a_log_prob, _a, mt_genrand_res53, std::numeric_limits<double>::min(),
+ _a = slice_sampler1d(a_log_prob, _a, rnd, std::numeric_limits<double>::min(),
+ //_a = slice_sampler1d(a_log_prob, _a, mt_genrand_res53, std::numeric_limits<double>::min(),
(double) 1.0, (double) 0.0, niterations, 100*niterations);
}