Isolate Cereal

examples/temperature_example/temperature_example.cc

@@ -62,7 +62,7 @@ int main(int argc, char *argv[]) {
   auto covariance = elevation_scaled_mean + noise + spatial_cov;
   auto model = gp_from_covariance(covariance);
 
-  model.set_param("sigma_exponential", {1., std::make_shared<FixedPrior>()});
+  model.set_param("sigma_exponential", {1., FixedPrior()});
 
   //   These parameters are that came from tuning the model to the leave
   //   one out negative log likelihood. which can be done like this:

examples/temperature_example/temperature_example_utils.h

@@ -68,10 +68,9 @@ class StationDistance : public DistanceMetricType {
 class ElevationScalingFunction : public albatross::ScalingFunction {
 public:
   ElevationScalingFunction(double center = 1000., double factor = 3.5 / 300) {
-    this->params_["elevation_scaling_center"] = {
-        center, std::make_shared<UniformPrior>(0., 5000.)};
-    this->params_["elevation_scaling_factor"] = {
-        factor, std::make_shared<PositivePrior>()};
+    this->params_["elevation_scaling_center"] = {center,
+                                                 UniformPrior(0., 5000.)};
+    this->params_["elevation_scaling_factor"] = {factor, PositivePrior()};
   };
 
   std::string get_name() const { return "elevation_scaled"; }

include/albatross/Common

@@ -13,14 +13,6 @@
 #ifndef ALBATROSS_COMMON_H
 #define ALBATROSS_COMMON_H
 
-#include <cereal/cereal.hpp>
-#include <cereal/archives/binary.hpp>
-#include <cereal/archives/json.hpp>
-#include <cereal/archives/xml.hpp>
-#include <cereal/types/polymorphic.hpp>
-#include <cereal/types/map.hpp>
-#include <cereal/types/vector.hpp>
-
 #include <gzip/compress.hpp>
 #include <gzip/decompress.hpp>
 
@@ -32,6 +24,7 @@
 #include <math.h>
 #include <iomanip>
 #include <map>
+#include <set>
 #include <string>
 #include <iostream>
 #include <unordered_map>
@@ -41,15 +34,12 @@
 #include <numeric>
 #include <random>
 
-#include "src/core/declarations.hpp"
+#include <albatross/src/core/declarations.hpp>
 
-#include "src/details/traits.hpp"
-#include "src/details/has_any_macros.hpp"
-#include "src/details/error_handling.hpp"
+#include <albatross/src/details/traits.hpp>
+#include <albatross/src/details/has_any_macros.hpp>
+#include <albatross/src/details/error_handling.hpp>
 
-#include "src/utils/map_utils.hpp"
-#include "src/cereal/eigen.hpp"
-#include "src/cereal/traits.hpp"
-#include "src/cereal/variant.hpp"
+#include <albatross/src/utils/map_utils.hpp>
 
 #endif

include/albatross/Core

@@ -17,14 +17,14 @@
 
 #include <type_traits>
 
-#include "src/core/declarations.hpp"
-#include "src/core/indexing.hpp"
-#include "src/core/traits.hpp"
-#include "src/core/priors.hpp"
-#include "src/core/parameter_handling_mixin.hpp"
-#include "src/core/parameter_macros.hpp"
-#include "src/core/fit_model.hpp"
-#include "src/core/prediction.hpp"
-#include "src/core/model.hpp"
+#include <albatross/src/core/declarations.hpp>
+#include <albatross/src/core/indexing.hpp>
+#include <albatross/src/core/traits.hpp>
+#include <albatross/src/core/priors.hpp>
+#include <albatross/src/core/parameter_handling_mixin.hpp>
+#include <albatross/src/core/parameter_macros.hpp>
+#include <albatross/src/core/fit_model.hpp>
+#include <albatross/src/core/prediction.hpp>
+#include <albatross/src/core/model.hpp>
 
 #endif

include/albatross/CovarianceFunctions

@@ -15,21 +15,21 @@
 
 #include "Common"
 
-#include "src/core/declarations.hpp"
-#include "src/core/traits.hpp"
-#include "src/core/priors.hpp"
-#include "src/core/parameter_handling_mixin.hpp"
-#include "src/core/parameter_macros.hpp"
+#include <albatross/src/core/declarations.hpp>
+#include <albatross/src/core/traits.hpp>
+#include <albatross/src/core/priors.hpp>
+#include <albatross/src/core/parameter_handling_mixin.hpp>
+#include <albatross/src/core/parameter_macros.hpp>
 
-#include "src/covariance_functions/traits.hpp"
-#include "src/covariance_functions/callers.hpp"
-#include "src/covariance_functions/covariance_function.hpp"
-#include "src/covariance_functions/call_trace.hpp"
-#include "src/covariance_functions/measurement.hpp"
-#include "src/covariance_functions/distance_metrics.hpp"
-#include "src/covariance_functions/noise.hpp"
-#include "src/covariance_functions/polynomials.hpp"
-#include "src/covariance_functions/radial.hpp"
-#include "src/covariance_functions/scaling_function.hpp"
+#include <albatross/src/covariance_functions/traits.hpp>
+#include <albatross/src/covariance_functions/callers.hpp>
+#include <albatross/src/covariance_functions/covariance_function.hpp>
+#include <albatross/src/covariance_functions/call_trace.hpp>
+#include <albatross/src/covariance_functions/measurement.hpp>
+#include <albatross/src/covariance_functions/distance_metrics.hpp>
+#include <albatross/src/covariance_functions/noise.hpp>
+#include <albatross/src/covariance_functions/polynomials.hpp>
+#include <albatross/src/covariance_functions/radial.hpp>
+#include <albatross/src/covariance_functions/scaling_function.hpp>
 
 #endif

include/albatross/Dataset

@@ -15,7 +15,7 @@
 
 #include "Distribution"
 
-#include "src/core/concatenate.hpp"
-#include "src/core/dataset.hpp"
+#include <albatross/src/core/concatenate.hpp>
+#include <albatross/src/core/dataset.hpp>
 
 #endif

include/albatross/Distribution

@@ -15,11 +15,8 @@
 
 #include "Common"
 
-#include "src/cereal/traits.hpp"
-#include "src/eigen/serializable_diagonal_matrix.hpp"
-
-#include "src/core/declarations.hpp"
-#include "src/core/indexing.hpp"
-#include "src/core/distribution.hpp"
+#include <albatross/src/core/declarations.hpp>
+#include <albatross/src/core/indexing.hpp>
+#include <albatross/src/core/distribution.hpp>
 
 #endif

include/albatross/Evaluation

@@ -15,14 +15,14 @@
 
 #include "Core"
 
-#include "src/evaluation/likelihood.hpp"
-#include "src/evaluation/differential_entropy.hpp"
-#include "src/covariance_functions/traits.hpp"
-#include "src/evaluation/traits.hpp"
-#include "src/evaluation/folds.hpp"
-#include "src/evaluation/prediction_metrics.hpp"
-#include "src/evaluation/model_metrics.hpp"
-#include "src/evaluation/cross_validation_utils.hpp"
-#include "src/evaluation/cross_validation.hpp"
+#include <albatross/src/evaluation/likelihood.hpp>
+#include <albatross/src/evaluation/differential_entropy.hpp>
+#include <albatross/src/covariance_functions/traits.hpp>
+#include <albatross/src/evaluation/traits.hpp>
+#include <albatross/src/evaluation/folds.hpp>
+#include <albatross/src/evaluation/prediction_metrics.hpp>
+#include <albatross/src/evaluation/model_metrics.hpp>
+#include <albatross/src/evaluation/cross_validation_utils.hpp>
+#include <albatross/src/evaluation/cross_validation.hpp>
 
 #endif

include/albatross/GP

@@ -16,10 +16,10 @@
 #include "Core"
 #include "CovarianceFunctions"
 
-#include "src/evaluation/likelihood.hpp"
-#include "src/eigen/serializable_ldlt.hpp"
-#include "src/utils/block_utils.hpp"
-#include "src/covariance_functions/representations.hpp"
-#include "src/models/gp.hpp"
+#include <albatross/src/evaluation/likelihood.hpp>
+#include <albatross/src/eigen/serializable_ldlt.hpp>
+#include <albatross/src/utils/block_utils.hpp>
+#include <albatross/src/covariance_functions/representations.hpp>
+#include <albatross/src/models/gp.hpp>
 
 #endif

include/albatross/LeastSquares

@@ -15,6 +15,6 @@
 
 #include "Core"
 
-#include "src/models/least_squares.hpp"
+#include <albatross/src/models/least_squares.hpp>
 
 #endif

include/albatross/Ransac

@@ -16,8 +16,8 @@
 #include "Core"
 #include "Evaluation"
 
-#include "src/utils/random_utils.hpp"
-#include "src/models/ransac.hpp"
-#include "src/models/ransac_gp.hpp"
+#include <albatross/src/utils/random_utils.hpp>
+#include <albatross/src/models/ransac.hpp>
+#include <albatross/src/models/ransac_gp.hpp>
 
 #endif

include/albatross/SparseGP

@@ -15,8 +15,8 @@
 
 #include "GP"
 
-#include "src/utils/block_utils.hpp"
-#include "src/utils/eigen_utils.hpp"
-#include "src/models/sparse_gp.hpp"
+#include <albatross/src/utils/block_utils.hpp>
+#include <albatross/src/utils/eigen_utils.hpp>
+#include <albatross/src/models/sparse_gp.hpp>
 
 #endif

include/albatross/Tune

@@ -18,7 +18,7 @@
 #include "Core"
 #include "Evaluation"
 
-#include "src/tune/tuning_metrics.hpp"
-#include "src/tune/tune.hpp"
+#include <albatross/src/tune/tuning_metrics.hpp>
+#include <albatross/src/tune/tune.hpp>
 
 #endif

include/albatross/serialize/Common

@@ -0,0 +1,27 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_COMMON_H
+#define ALBATROSS_SERIALIZE_COMMON_H
+
+#include <cereal/cereal.hpp>
+#include <cereal/archives/binary.hpp>
+#include <cereal/archives/json.hpp>
+#include <cereal/archives/xml.hpp>
+#include <cereal/types/map.hpp>
+#include <cereal/types/string.hpp>
+#include <cereal/types/vector.hpp>
+
+#include "../src/cereal/traits.hpp"
+#include "../src/cereal/eigen.hpp"
+
+#endif

include/albatross/serialize/Core

@@ -0,0 +1,26 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_CORE_H
+#define ALBATROSS_SERIALIZE_CORE_H
+
+#include "Common"
+
+#include "../src/cereal/dataset.hpp"
+#include "../src/cereal/distribution.hpp"
+#include "../src/cereal/fit_model.hpp"
+#include "../src/cereal/priors.hpp"
+#include "../src/cereal/model.hpp"
+#include "../src/cereal/parameters.hpp"
+#include "../src/cereal/variant.hpp"
+
+#endif

include/albatross/serialize/Evaluation

@@ -0,0 +1,20 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_EVALUATION_H
+#define ALBATROSS_SERIALIZE_EVALUATION_H
+
+#include "Core"
+
+#include "../src/cereal/evaluation.hpp"
+
+#endif

include/albatross/serialize/GP

@@ -0,0 +1,23 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_GP_H
+#define ALBATROSS_SERIALIZE_GP_H
+
+#include "Core"
+
+#include "../src/cereal/block_utils.hpp"
+#include "../src/cereal/serializable_ldlt.hpp"
+#include "../src/cereal/gp.hpp"
+#include "../src/cereal/representations.hpp"
+
+#endif

include/albatross/serialize/LeastSquares

@@ -0,0 +1,20 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_LEAST_SQUARES_H
+#define ALBATROSS_SERIALIZE_LEAST_SQUARES_H
+
+#include "Core"
+
+#include "../src/cereal/least_squares.hpp"
+
+#endif

include/albatross/serialize/Ransac

@@ -0,0 +1,20 @@
+/*
+ * Copyright (C) 2019 Swift Navigation Inc.
+ * Contact: Swift Navigation <dev@swiftnav.com>
+ *
+ * This source is subject to the license found in the file 'LICENSE' which must
+ * be distributed together with this source. All other rights reserved.
+ *
+ * THIS CODE AND INFORMATION IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
+ * EITHER EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE IMPLIED
+ * WARRANTIES OF MERCHANTABILITY AND/OR FITNESS FOR A PARTICULAR PURPOSE.
+ */
+
+#ifndef ALBATROSS_SERIALIZE_RANSAC_H
+#define ALBATROSS_SERIALIZE_RANSAC_H
+
+#include "Core"
+
+#include "../src/cereal/ransac.hpp"
+
+#endif