Merge pull request #93 from favreau/master

1.1.0

Author: Cyrille Favreau

CMakeLists.txt

@@ -7,7 +7,7 @@
 cmake_minimum_required(VERSION 3.1 FATAL_ERROR)
 
 set(NAME BIOEXPLORER)
-set(PACKAGE_VERSION 1.1.0)
+set(PACKAGE_VERSION 1.1.1)
 project(${NAME} VERSION ${PACKAGE_VERSION})
 
 add_subdirectory(bioexplorer/core)

bioexplorer/core/CMakeLists.txt

@@ -31,13 +31,15 @@ find_package(OpenMP)
 set(CGAL_FOUND 0)
 option(${NAME}_USE_CGAL "Use CGAL meshing features" ON)
 if(${${NAME}_USE_CGAL})
-    find_package(CGAL)
+    find_package(CGAL REQUIRED)
 endif()
 
 set(PQXX_FOUND 0)
 option(${NAME}_USE_PQXX "Use PostgreSQL database" ON)
 if(${${NAME}_USE_PQXX})
-    find_package(PQXX)
+    unset(PQXX_INCLUDE_DIRECTORIES CACHE)
+    unset(PQXX_LIBRARIES CACHE)
+    find_package(PQXX REQUIRED)
 endif()
 
 include(ispc)

bioexplorer/core/module/ispc/render/AdvancedRenderer.ispc

@@ -829,6 +829,8 @@ inline vec3f AdvancedRenderer_shadeRay(
     const uniform AdvancedRenderer* uniform self, varying ScreenSample& sample)
 {
     Ray ray = sample.ray;
+    float maxt = self->fogStart + self->fogThickness;
+
     vec4f color = make_vec4f(0.f);
     vec3f bgColor = make_vec3f(0.f);
     if (self->showBackground)
@@ -839,7 +841,8 @@ inline vec3f AdvancedRenderer_shadeRay(
     uint32 depth = 0;
     float oldlocalRefraction = 1.f;
 
-    sample.z = inf;
+    sample.z = maxt;
+    ray.t = maxt;
     bool moreRebounds = true;
 
     while (moreRebounds && depth < self->maxBounces && color.w < 0.95f)
@@ -950,7 +953,8 @@ inline vec3f AdvancedRenderer_shadeRay(
                 ++depth;
             }
 
-            ray.t = inf - ray.t;
+            maxt -= ray.t;
+            ray.t = maxt;
             ray.primID = -1;
             ray.geomID = -1;
             ray.instID = -1;

bioexplorer/core/plugin/common/Logs.h

@@ -23,31 +23,28 @@
 #include "GeneralSettings.h"
 
 #include <iostream>
-#include <thread>
 
 namespace bioexplorer
 {
 namespace common
 {
-#define PLUGIN_ERROR(message)                      \
-    std::cerr << "[" << std::this_thread::get_id() \
-              << "] [ERROR] [BIO_EXPLORER] " << message << std::endl;
-#define PLUGIN_WARN(message)                       \
-    std::cerr << "[" << std::this_thread::get_id() \
-              << "] [WARN ] [BIO_EXPLORER] " << message << std::endl;
-#define PLUGIN_INFO(message)                                              \
-    if (common::GeneralSettings::getInstance()->getLoggingEnabled())      \
-    {                                                                     \
-        std::cout << "[" << std::this_thread::get_id()                    \
-                  << "] [INFO ] [BIO_EXPLORER] " << message << std::endl; \
-    }
+#define PLUGIN_PREFIX "BE"
+
+#define PLUGIN_ERROR(message) \
+    std::cerr << "E [" << PLUGIN_PREFIX << "] " << message << std::endl;
+#define PLUGIN_WARN(message) \
+    std::cerr << "W [" << PLUGIN_PREFIX << "] " << message << std::endl;
+#define PLUGIN_INFO(message) \
+    std::cout << "I [" << PLUGIN_PREFIX << "] " << message << std::endl;
 #ifdef NDEBUG
-#define PLUGIN_DEBUG(message)
+#define PLUGIN_DEBUG(message) ;
 #else
-#define PLUGIN_DEBUG(message)                      \
-    std::cout << "[" << std::this_thread::get_id() \
-              << "] [DEBUG] [BIO_EXPLORER] " << message << std::endl;
+#define PLUGIN_DEBUG(message) \
+    std::cout << "D [" << PLUGIN_PREFIX << "] " << message << std::endl;
 #endif
+#define PLUGIN_TIMER(__time, __msg)                                         \
+    std::cout << "T [" << PLUGIN_PREFIX << "] [" << __time << "] " << __msg \
+              << std::endl;
 
 #define PLUGIN_THROW(message)              \
     {                                      \

bioexplorer/pythonsdk/bioexplorer/bio_explorer.py

@@ -350,7 +350,8 @@ def import_from_cache(self, filename):
             raise RuntimeError(result["contents"])
         return result
 
-    def export_to_xyz(self, filename, file_format):
+    def export_to_xyz(self, filename, file_format, low_bounds=Vector3(-1e38, -1e38, -1e38),
+                      high_bounds=Vector3(1e38, 1e38, 1e38)):
         """
         Exports current scene to file as a XYZ file
 
@@ -361,6 +362,8 @@ def export_to_xyz(self, filename, file_format):
         """
         params = dict()
         params["filename"] = filename
+        params["lowBounds"] = low_bounds.to_list()
+        params["highBounds"] = high_bounds.to_list()
         params["fileFormat"] = file_format
         result = self._client.rockets_client.request(
             method=self.PLUGIN_API_PREFIX + "export-to-xyz", params=params)

bioexplorer/pythonsdk/bioexplorer/version.py

@@ -21,4 +21,4 @@
 # You should have received a copy of the GNU General Public License along with
 # this program.  If not, see <https://www.gnu.org/licenses/>.
 
-VERSION = '1.1.0'
+VERSION = '1.1.1'

bioexplorer/pythonsdk/setup.cfg

@@ -1,5 +1,5 @@
 [metadata]
-version = 1.1.0
+version = 1.1.1
 name = bioexplorer
 summary = Blue Brain BioExplorer python API
 long_description = file: README.md

extras/MediaMaker/CMakeLists.txt

@@ -10,7 +10,7 @@ cmake_minimum_required(VERSION 3.1 FATAL_ERROR)
 # Project
 # ==============================================================================
 set(NAME MEDIAMAKER)
-set(LIBRARY_NAME mediaMaker)
+set(LIBRARY_NAME MediaMaker)
 project(${NAME} VERSION ${PACKAGE_VERSION})
 set(${NAME}_VERSION_ABI 1)
 

extras/MediaMaker/plugin/common/Logs.h

@@ -21,30 +21,28 @@
 #pragma once
 
 #include <iostream>
-#include <thread>
 
 namespace bioexplorer
 {
 namespace mediamaker
 {
-#define PLUGIN_ERROR(message)                      \
-    std::cerr << "[" << std::this_thread::get_id() \
-              << "] [ERROR] [MEDIA_MAKER] " << message << std::endl;
-#define PLUGIN_WARN(message)                       \
-    std::cerr << "[" << std::this_thread::get_id() \
-              << "] [WARN ] [MEDIA_MAKER] " << message << std::endl;
-#define PLUGIN_INFO(message)                                             \
-    {                                                                    \
-        std::cout << "[" << std::this_thread::get_id()                   \
-                  << "] [INFO ] [MEDIA_MAKER] " << message << std::endl; \
-    }
+#define PLUGIN_PREFIX "MM"
+
+#define PLUGIN_ERROR(message) \
+    std::cerr << "E [" << PLUGIN_PREFIX << "] " << message << std::endl;
+#define PLUGIN_WARN(message) \
+    std::cerr << "W [" << PLUGIN_PREFIX << "] " << message << std::endl;
+#define PLUGIN_INFO(message) \
+    std::cout << "I [" << PLUGIN_PREFIX << "] " << message << std::endl;
 #ifdef NDEBUG
-#define PLUGIN_DEBUG(message)
+#define PLUGIN_DEBUG(message) ;
 #else
-#define PLUGIN_DEBUG(message)                      \
-    std::cout << "[" << std::this_thread::get_id() \
-              << "] [DEBUG] [MEDIA_MAKER] " << message << std::endl;
+#define PLUGIN_DEBUG(message) \
+    std::cout << "D [" << PLUGIN_PREFIX << "] " << message << std::endl;
 #endif
+#define PLUGIN_TIMER(__time, __msg)                                         \
+    std::cout << "T [" << PLUGIN_PREFIX << "] [" << __time << "] " << __msg \
+              << std::endl;
 
 #define PLUGIN_THROW(message)              \
     {                                      \