pas mock, need to fix rabit lib for not initialization

.gitignore

@@ -49,3 +49,4 @@ Debug
 xgboost
 xgboost-mpi
 train*
+rabit

Makefile

@@ -46,7 +46,7 @@ xgboost:  updater.o gbm.o io.o main.o  librabit
 wrapper/libxgboostwrapper.so: wrapper/xgboost_wrapper.cpp src/utils/*.h src/*.h src/learner/*.hpp src/learner/*.h  updater.o gbm.o io.o librabit
 
 $(BIN) : 
-	$(CXX) $(CFLAGS) -o $@ $(filter %.cpp %.o %.c, $^) $(LDFLAGS)  -lrabit
+	$(CXX) $(CFLAGS) -o $@ $(filter %.cpp %.o %.c, $^) $(LDFLAGS)  -lrabit_mock
 
 $(SLIB) :
 	$(CXX) $(CFLAGS) -fPIC -shared -o $@ $(filter %.cpp %.o %.c, $^) $(LDFLAGS)  -lrabit

multi-node/col-split/README.md

@@ -1,7 +1,9 @@
 Distributed XGBoost: Column Split Version
 ====
 * run ```bash mushroom-col-rabit.sh <n-process>```
-  - mushroom-col-tcp.sh starts xgboost job using rabit's allreduce
+  - mushroom-col-rabit.sh starts xgboost job using rabit's allreduce
+* run ```bash mushroom-col-rabit-mock.sh <n-process>```
+  - mushroom-col-rabit-mock.sh starts xgboost job using rabit's allreduce, inserts suicide signal at certain point and test recovery
 * run ```bash mushroom-col-mpi.sh <n-mpi-process>```
   - mushroom-col.sh starts xgboost-mpi job
 

multi-node/col-split/mushroom-col-rabit-mock.sh

@@ -0,0 +1,25 @@
+#!/bin/bash
+if [[ $# -ne 1 ]]
+then
+    echo "Usage: nprocess"
+    exit -1
+fi
+
+#
+# This script is same as mushroom-col except that we will be using xgboost instead of xgboost-mpi
+# xgboost used built in tcp-based allreduce module, and can be run on more enviroment, so long as we know how to start job by modifying ../submit_job_tcp.py
+#
+rm -rf train.col* *.model
+k=$1
+
+# split the lib svm file into k subfiles
+python splitsvm.py ../../demo/data/agaricus.txt.train train $k
+
+# run xgboost mpi
+../../rabit/tracker/rabit_mpi.py $k local ../../rabit/test/keepalive.sh ../../xgboost mushroom-col.conf dsplit=col mock=0,0,1,0 mock=1,1,0,0
+
+# the model can be directly loaded by single machine xgboost solver, as usuall
+#../../xgboost mushroom-col.conf task=dump model_in=0002.model fmap=../../demo/data/featmap.txt name_dump=dump.nice.$k.txt
+
+
+#cat dump.nice.$k.txt

src/gbm/gbtree-inl.hpp

@@ -53,19 +53,13 @@ class GBTree : public IGradBooster {
       utils::Check(fi.Read(&tree_info[0], sizeof(int) * mparam.num_trees) != 0,
                    "GBTree: invalid model file");
     }
-    if (mparam.num_pbuffer != 0) {
+    if (mparam.num_pbuffer != 0 && with_pbuffer) {
       pred_buffer.resize(mparam.PredBufferSize());
       pred_counter.resize(mparam.PredBufferSize());
-      if (with_pbuffer) {
+      utils::Check(fi.Read(&pred_buffer[0], pred_buffer.size() * sizeof(float)) != 0,
-        utils::Check(fi.Read(&pred_buffer[0], pred_buffer.size() * sizeof(float)) != 0,
+                   "GBTree: invalid model file");
-                     "GBTree: invalid model file");
+      utils::Check(fi.Read(&pred_counter[0], pred_counter.size() * sizeof(unsigned)) != 0,
-        utils::Check(fi.Read(&pred_counter[0], pred_counter.size() * sizeof(unsigned)) != 0,
+                   "GBTree: invalid model file");
-                     "GBTree: invalid model file");
-      } else {
-        // reset predict buffer if the input do not have them
-        std::fill(pred_buffer.begin(), pred_buffer.end(), 0.0f);
-        std::fill(pred_counter.begin(), pred_counter.end(), 0);
-      }
     }
   }
   virtual void SaveModel(utils::IStream &fo, bool with_pbuffer) const {
@@ -77,7 +71,7 @@ class GBTree : public IGradBooster {
     if (tree_info.size() != 0) {
       fo.Write(&tree_info[0], sizeof(int) * tree_info.size());
     }
-    if (mparam.num_pbuffer != 0 && with_pbuffer) {      
+    if (mparam.num_pbuffer != 0 && with_pbuffer) {
       fo.Write(&pred_buffer[0], pred_buffer.size() * sizeof(float));
       fo.Write(&pred_counter[0], pred_counter.size() * sizeof(unsigned));
     }

src/learner/learner-inl.hpp

@@ -48,11 +48,9 @@ class BoostLearner : public rabit::ISerializable {
    * \param mats array of pointers to matrix whose prediction result need to be cached
    */          
   inline void SetCacheData(const std::vector<DMatrix*>& mats) {
-    // estimate feature bound
+    utils::Assert(cache_.size() == 0, "can only call cache data once");
-    unsigned num_feature = 0;
     // assign buffer index
     size_t buffer_size = 0;
-    utils::Assert(cache_.size() == 0, "can only call cache data once");
     for (size_t i = 0; i < mats.size(); ++i) {
       bool dupilicate = false;
       for (size_t j = 0; j < i; ++j) {
@@ -63,16 +61,10 @@ class BoostLearner : public rabit::ISerializable {
       mats[i]->cache_learner_ptr_ = this;
       cache_.push_back(CacheEntry(mats[i], buffer_size, mats[i]->info.num_row()));
       buffer_size += mats[i]->info.num_row();
-      num_feature = std::max(num_feature, static_cast<unsigned>(mats[i]->info.num_col()));
     }
-    rabit::Allreduce<rabit::op::Max>(&num_feature, 1);
     char str_temp[25];
-    if (num_feature > mparam.num_feature) {
+    utils::SPrintf(str_temp, sizeof(str_temp), "%lu", 
-      utils::SPrintf(str_temp, sizeof(str_temp), "%u", num_feature);
+                   static_cast<unsigned long>(buffer_size));
-      this->SetParam("bst:num_feature", str_temp);
-    }
-    utils::SPrintf(str_temp, sizeof(str_temp), "%lu",
-			 static_cast<unsigned long>(buffer_size));
     this->SetParam("num_pbuffer", str_temp);
     if (!silent) {
       utils::Printf("buffer_size=%ld\n", static_cast<long>(buffer_size));
@@ -126,10 +118,29 @@ class BoostLearner : public rabit::ISerializable {
       cfg_.push_back(std::make_pair(std::string(name), std::string(val)));
     }
   }
+  // this is an internal function
+  // initialize the trainer, called at InitModel and LoadModel
+  inline void InitTrainer(bool calc_num_feature = true) {
+    if (calc_num_feature) {
+      // estimate feature bound
+      unsigned num_feature = 0;
+      for (size_t i = 0; i < cache_.size(); ++i) {
+        num_feature = std::max(num_feature, 
+                               static_cast<unsigned>(cache_[i].mat_->info.num_col()));
+      }
+      // run allreduce on num_feature to find the maximum value
+      rabit::Allreduce<rabit::op::Max>(&num_feature, 1);
+      if (num_feature > mparam.num_feature) mparam.num_feature = num_feature;
+    } 
+    char str_temp[25];
+    utils::SPrintf(str_temp, sizeof(str_temp), "%d", mparam.num_feature);
+    this->SetParam("bst:num_feature", str_temp);   
+  }
   /*!
    * \brief initialize the model
    */
   inline void InitModel(void) {
+    this->InitTrainer();
     // initialize model
     this->InitObjGBM();
     // reset the base score
@@ -141,8 +152,9 @@ class BoostLearner : public rabit::ISerializable {
    * \brief load model from stream
    * \param fi input stream
    * \param with_pbuffer whether to load with predict buffer
+   * \param calc_num_feature whether call InitTrainer with calc_num_feature
    */
-  inline void LoadModel(utils::IStream &fi, bool with_pbuffer = true) {
+  inline void LoadModel(utils::IStream &fi, bool with_pbuffer = true, bool calc_num_feature = true) {
     utils::Check(fi.Read(&mparam, sizeof(ModelParam)) != 0,
                  "BoostLearner: wrong model format");
     utils::Check(fi.Read(&name_obj_), "BoostLearner: wrong model format");
@@ -150,9 +162,10 @@ class BoostLearner : public rabit::ISerializable {
     // delete existing gbm if any
     if (obj_ != NULL) delete obj_;
     if (gbm_ != NULL) delete gbm_;
+    this->InitTrainer(calc_num_feature);
     this->InitObjGBM();
     gbm_->LoadModel(fi, with_pbuffer);
-    if (with_pbuffer && distributed_mode == 2 && rabit::GetRank() != 0) {
+    if (!with_pbuffer || distributed_mode == 2) {
       gbm_->ResetPredBuffer(pred_buffer_size);
     }
   }
@@ -160,7 +173,7 @@ class BoostLearner : public rabit::ISerializable {
   virtual void Load(rabit::IStream &fi) {
     RabitStreamAdapter fs(fi);
     // for row split, we should not keep pbuffer
-    this->LoadModel(fs, distributed_mode != 2);
+    this->LoadModel(fs, distributed_mode != 2, false);
   }
   // rabit save model to rabit checkpoint
   virtual void Save(rabit::IStream &fo) const {
@@ -209,9 +222,12 @@ class BoostLearner : public rabit::ISerializable {
    * \param p_train pointer to the data matrix
    */
   inline void UpdateOneIter(int iter, const DMatrix &train) {
+    printf("!!UpdateOneIter\n");
     this->PredictRaw(train, &preds_);
     obj_->GetGradient(preds_, train.info, iter, &gpair_);
+    printf("!!UpdateOneDoboost\n");
     gbm_->DoBoost(train.fmat(), this->FindBufferOffset(train), train.info.info, &gpair_);
+    printf("!!UpdateOneIter finish\n");
   }
   /*!
    * \brief evaluate the model for specific iteration
@@ -335,7 +351,7 @@ class BoostLearner : public rabit::ISerializable {
     /* \brief number of class, if it is multi-class classification  */
     int num_class;
     /*! \brief reserved field */
-    int reserved[32];
+    int reserved[31];
     /*! \brief constructor */
     ModelParam(void) {
       base_score = 0.5f;

src/xgboost_main.cpp

@@ -48,8 +48,7 @@ class BoostLearnTask {
     }
     if (rabit::GetRank() != 0) {
       this->SetParam("silent", "2");
-    }
+    }    
-    
     if (task == "train") {
       // if task is training, will try recover from checkpoint
       this->TaskTrain();
@@ -151,7 +150,7 @@ class BoostLearnTask {
       learner.SetCacheData(dcache);
       
       // add training set to evaluation set if needed
-      if( eval_train != 0 ) {
+      if (eval_train != 0) {
         devalall.push_back(data);
         eval_data_names.push_back(std::string("train"));
       }