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grobid.log
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14 Oct 2016 14:17.22 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version NULL is initialized...
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: initializing Dr. Inventor Scientific Text Mining Java Library version NULL...
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: property 'resourceFolder.fullPath' pointing at: '/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3' folder.
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: GROBID resources' paths
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: GATE home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: GATE plugin home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins
14 Oct 2016 14:17.22 [INFO ] Factory - INIT: GATE user config file set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml
14 Oct 2016 14:17.22 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home as GATE home
14 Oct 2016 14:17.22 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins as installed plug-ins directory.
14 Oct 2016 14:17.22 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as site configuration file.
14 Oct 2016 14:17.22 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as user configuration file
14 Oct 2016 14:17.22 [INFO ] Gate - Using /home/francesco/.gate.session as user session file
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version NULL is initialized...
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: initializing Dr. Inventor Scientific Text Mining Java Library version NULL...
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: property 'resourceFolder.fullPath' pointing at: '/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3' folder.
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: GROBID resources' paths
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: GATE home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: GATE plugin home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins
14 Oct 2016 14:17.40 [INFO ] Factory - INIT: GATE user config file set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml
14 Oct 2016 14:17.40 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home as GATE home
14 Oct 2016 14:17.40 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins as installed plug-ins directory.
14 Oct 2016 14:17.40 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as site configuration file.
14 Oct 2016 14:17.40 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as user configuration file
14 Oct 2016 14:17.40 [INFO ] Gate - Using /home/francesco/.gate.session as user session file
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: GATE initialized.
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing GATE plugins...
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing PDFX importer...
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing PDFEXT importer...
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing GROBID importer...
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing JATS importer...
14 Oct 2016 14:17.41 [INFO ] Factory - INIT: initializing parser...
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version NULL is initialized...
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: initializing Dr. Inventor Scientific Text Mining Java Library version NULL...
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: property 'resourceFolder.fullPath' pointing at: '/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3' folder.
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: GROBID resources' paths
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: GATE home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: GATE plugin home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins
14 Oct 2016 14:22.09 [INFO ] Factory - INIT: GATE user config file set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml
14 Oct 2016 14:22.09 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home as GATE home
14 Oct 2016 14:22.09 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins as installed plug-ins directory.
14 Oct 2016 14:22.09 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as site configuration file.
14 Oct 2016 14:22.09 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as user configuration file
14 Oct 2016 14:22.09 [INFO ] Gate - Using /home/francesco/.gate.session as user session file
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: GATE initialized.
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing GATE plugins...
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing PDFX importer...
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing PDFEXT importer...
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing GROBID importer...
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing JATS importer...
14 Oct 2016 14:22.10 [INFO ] Factory - INIT: initializing parser...
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version NULL is initialized...
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: initializing Dr. Inventor Scientific Text Mining Java Library version NULL...
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: property 'resourceFolder.fullPath' pointing at: '/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3' folder.
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: GROBID resources' paths
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: GATE home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: GATE plugin home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins
14 Oct 2016 14:22.24 [INFO ] Factory - INIT: GATE user config file set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml
14 Oct 2016 14:22.24 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home as GATE home
14 Oct 2016 14:22.24 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins as installed plug-ins directory.
14 Oct 2016 14:22.24 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as site configuration file.
14 Oct 2016 14:22.24 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as user configuration file
14 Oct 2016 14:22.24 [INFO ] Gate - Using /home/francesco/.gate.session as user session file
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: GATE initialized.
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing GATE plugins...
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing PDFX importer...
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing PDFEXT importer...
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing GROBID importer...
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing JATS importer...
14 Oct 2016 14:22.25 [INFO ] Factory - INIT: initializing parser...
14 Oct 2016 14:23.24 [INFO ] Factory - INIT: initializing rhetorical classifier...
14 Oct 2016 14:23.24 [INFO ] RhetoricalClassifier - Loading classifier new...
14 Oct 2016 14:23.26 [INFO ] RhetoricalClassifier - Classifiers loaded.
14 Oct 2016 14:23.26 [INFO ] RhetoricalClassifier - DRI doc. frequency map: 6978 entries.
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing term extractor...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing citation sanitizer...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing citation linker...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing citation expander...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing header analyzer...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing coreference chain builder...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing BabelNet annotator...
14 Oct 2016 14:23.26 [INFO ] Factory - INIT: initializing XGAPP-based components...
14 Oct 2016 14:23.28 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/ANNIE/
14 Oct 2016 14:23.32 [WARN ] GateClassLoader - org.apache.log4j.Logger is available via both the system classpath and a plugin; the plugin classes will be ignored
14 Oct 2016 14:23.32 [WARN ] GateClassLoader - javax.xml.xpath.XPathFactory is available via both the system classpath and a plugin; the plugin classes will be ignored
14 Oct 2016 14:23.32 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/externalServiceAnnotator_1.0/
14 Oct 2016 14:23.42 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Downloads/SUMMA/summa_plugin/
14 Oct 2016 14:23.43 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/Tools/
14 Oct 2016 14:23.43 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/summa_plugin/
14 Oct 2016 14:23.46 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: http://backingdata.org/dri/ann_80-docs-4-topics/plugins/annotationPlugin/
14 Oct 2016 14:23.50 [INFO ] Factory - INIT: initialization complete.
14 Oct 2016 14:23.50 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version 2_3 is initialized...
14 Oct 2016 14:23.50 [INFO ] Factory - INIT: the Dr. Inventor Scientific Text Mining Java Library version 2_3 is already initialized.
14 Oct 2016 14:23.52 [INFO ] GROBIDloaderImpl - Initializing GROBID...
14 Oct 2016 14:23.52 [INFO ] GROBIDloaderImpl - GROBID correctly initialized (home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/converters/grobid-home).
14 Oct 2016 14:23.53 [INFO ] LibraryLoader - Loading external native CRF library
14 Oct 2016 14:23.53 [INFO ] LibraryLoader - Loading Wapiti native library...
14 Oct 2016 14:23.53 [INFO ] LibraryLoader - Library crfpp loaded
14 Oct 2016 14:23.53 [INFO ] WapitiModel - Loading model: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/converters/grobid-home/models/fulltext/model.wapiti (size: 6685602)
14 Oct 2016 14:23.55 [INFO ] WapitiModel - Loading model: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/converters/grobid-home/models/segmentation/model.wapiti (size: 10651765)
14 Oct 2016 14:23.57 [INFO ] Lexicon - Initiating dictionary
14 Oct 2016 14:23.57 [INFO ] Lexicon - End of Initialization of dictionary
14 Oct 2016 14:23.57 [INFO ] Lexicon - Initiating names
14 Oct 2016 14:23.57 [INFO ] Lexicon - End of initialization of names
14 Oct 2016 14:24.53 [INFO ] Factory - INIT: checking if the Dr. Inventor Scientific Text Mining Java Library version NULL is initialized...
14 Oct 2016 14:24.53 [INFO ] Factory - INIT: initializing Dr. Inventor Scientific Text Mining Java Library version NULL...
14 Oct 2016 14:24.54 [INFO ] Factory - INIT: property 'resourceFolder.fullPath' pointing at: '/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3' folder.
14 Oct 2016 14:24.54 [INFO ] Factory - INIT: GROBID resources' paths
14 Oct 2016 14:24.54 [INFO ] Factory - INIT: GATE home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home
14 Oct 2016 14:24.54 [INFO ] Factory - INIT: GATE plugin home set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins
14 Oct 2016 14:24.54 [INFO ] Factory - INIT: GATE user config file set to: /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml
14 Oct 2016 14:24.54 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home as GATE home
14 Oct 2016 14:24.54 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins as installed plug-ins directory.
14 Oct 2016 14:24.54 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as site configuration file.
14 Oct 2016 14:24.54 [INFO ] Gate - Using /home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/gate_uc.xml as user configuration file
14 Oct 2016 14:24.54 [INFO ] Gate - Using /home/francesco/.gate.session as user session file
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: GATE initialized.
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing GATE plugins...
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing PDFX importer...
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing PDFEXT importer...
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing GROBID importer...
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing JATS importer...
14 Oct 2016 14:24.56 [INFO ] Factory - INIT: initializing parser...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing rhetorical classifier...
14 Oct 2016 14:25.24 [INFO ] RhetoricalClassifier - Loading classifier new...
14 Oct 2016 14:25.24 [INFO ] RhetoricalClassifier - Classifiers loaded.
14 Oct 2016 14:25.24 [INFO ] RhetoricalClassifier - DRI doc. frequency map: 6978 entries.
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing term extractor...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing citation sanitizer...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing citation linker...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing citation expander...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing header analyzer...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing coreference chain builder...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing BabelNet annotator...
14 Oct 2016 14:25.24 [INFO ] Factory - INIT: initializing XGAPP-based components...
14 Oct 2016 14:25.25 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/ANNIE/
14 Oct 2016 14:25.28 [WARN ] GateClassLoader - org.apache.log4j.Logger is available via both the system classpath and a plugin; the plugin classes will be ignored
14 Oct 2016 14:25.28 [WARN ] GateClassLoader - javax.xml.xpath.XPathFactory is available via both the system classpath and a plugin; the plugin classes will be ignored
14 Oct 2016 14:25.28 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/externalServiceAnnotator_1.0/
14 Oct 2016 14:25.35 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Downloads/SUMMA/summa_plugin/
14 Oct 2016 14:25.35 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/Tools/
14 Oct 2016 14:25.36 [INFO ] CreoleRegisterImpl - CREOLE plugin loaded: file:/home/francesco/Desktop/DRILIB_EXP/DRIresources-2.3/gate_home/plugins/summa_plugin/