Marco Borgeaud mantognini
mantognini
/ bluima.regions_rules_inline_0.1.json
Created
May 22, 2015 13:17
rules based brain region, inlined script
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| { | |
| "name": "bluima.regions_rules_inline", | |
| "version": "1.0.1", | |
| "description": "annotate brain regions", | |
| "domain": "bluima", | |
| "config": { | |
| "bluima": { | |
| "type": "git", | |
| "url": "https://github.com/BlueBrain/bluima_resources.git", | |
| "ref": "master" |
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| WARN [o.e.j.u.t.QueuedThreadPool 11:38:44] | |
| java.lang.NoClassDefFoundError: Could not initialize class ch.epfl.bbp.uima.ae.BrainRegionAnnotator | |
| at java.lang.Class.forName0(Native Method) ~[na:1.7.0_75] | |
| at java.lang.Class.forName(Class.java:191) ~[na:1.7.0_75] | |
| at org.sherlok.EngineOps.extractAnalysisComponentClass(EngineOps.java:179) ~[sherlok_core-0.1-SNAPSHOT.jar:na] | |
| at org.sherlok.EngineOps.extractParametersFields(EngineOps.java:140) ~[sherlok_core-0.1-SNAPSHOT.jar:na] | |
| at org.sherlok.EngineOps.extractParameters(EngineOps.java:103) ~[sherlok_core-0.1-SNAPSHOT.jar:na] | |
| at org.sherlok.EngineOps.generateXmlDescriptor(EngineOps.java:68) ~[sherlok_core-0.1-SNAPSHOT.jar:na] | |
| at org.sherlok.UimaPipeline.initScript(UimaPipeline.java:397) ~[sherlok_core-0.1-SNAPSHOT.jar:na] | |
| at org.sherlok.UimaPipeline.<init>(UimaPipeline.java:121) ~[sherlok_core-0.1-SNAPSHOT.jar:na] |
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| [INFO] Scanning for projects... | |
| [INFO] ------------------------------------------------------------------------ | |
| [INFO] Reactor Build Order: | |
| [INFO] | |
| [INFO] Bluima Parent POM with release info | |
| [INFO] bluima Test Helper | |
| [INFO] Blue Commons | |
| [INFO] Pdf Glyph Mapping | |
| [INFO] Mallet Utils | |
| [INFO] Bluima Typesystem |
mantognini
/ 01.cmake
Created
May 18, 2015 06:07
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| 2015-05-18 08:05:32 +0200 | |
| cmake | |
| -G | |
| Unix Makefiles | |
| /private/tmp/llvm20150518-24366-n4fjtc/llvm-3.6.0.src | |
| -DCMAKE_C_FLAGS_RELEASE= | |
| -DCMAKE_CXX_FLAGS_RELEASE= | |
| -DCMAKE_INSTALL_PREFIX=/usr/local/Cellar/llvm/3.6.0 | |
| -DCMAKE_BUILD_TYPE=Release |
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| ,---.| | | | |
| `---.|---.,---.,---.| ,---.|__/ | |
| || ||---'| | | || \ | |
| `---'` '`---'` `---'`---'` ` | |
| Sherlok Server v. 588d7f1db1 | |
| INFO Done loading from local File store (local_repo): 11 bundles, 25 engines, 14 pipelines [o.s.Controller 20:53:47] | |
| == Spark has ignited ... | |
| >> Listening on 0.0.0.0:9600 | |
| WARN Could not validate integrity of download from file:/C:/Users/Marco/.m2/repository/ch/epfl/bbp/nlp/bluima_opennlp/1.0.1/bluima_opennlp-1.0.1.jar: Checksum validation failed, no checksums available [o.e.a.i.i.WarnChecksumPolicy 20:55:47] |
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| patch files created with | |
| $ diff -u TemplateInfo.orig.plist TemplateInfo.plist |
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| Caused by: java.io.InvalidClassException: gnu.trove.TObjectHash; local class incompatible: stream classdesc serialVersionUID = -3461112548087185871, local class serialVersionUID = 876253628862239263 | |
| at java.io.ObjectStreamClass.initNonProxy(ObjectStreamClass.java:617) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readNonProxyDesc(ObjectInputStream.java:1622) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readClassDesc(ObjectInputStream.java:1517) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readNonProxyDesc(ObjectInputStream.java:1622) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readClassDesc(ObjectInputStream.java:1517) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1771) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1350) ~[na:1.7.0_75] | |
| at java.io.ObjectInputStream.readObject(ObjectInputStream.java:370) ~[na:1.7.0_75] | |
| at cc.mallet.pipe.tsf.LexiconMembership.readObject(LexiconMembership.java:107) ~[mallet-2.0.7.jar:na] |
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| Afghanistan | |
| Albania | |
| Algeria | |
| Andorra | |
| Angola | |
| Antigua & Deps | |
| Argentina | |
| Armenia | |
| Australia | |
| Austria |
mantognini
/ gist:77e55770dd01a72a7cff
Created
April 24, 2015 10:54
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| { | |
| "cause" : { | |
| "arguments" : [ "org.apache.uima.ruta.engine.RutaEngine", "<unknown>" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/MeasureRegexAnnotator___0_1.xml" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/MeasureRegexAnnotator___0_1.xml" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/MeasureRegexAnnotator___0_1.xml" ], | |
| "cause" : { |
mantognini
/ gist:2b4d59559f95535fed21
Last active
August 29, 2015 14:19
http://localhost:9600/test/bluima.regions
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| { | |
| "cause" : { | |
| "arguments" : [ "org.apache.uima.ruta.engine.RutaEngine", "<unknown>" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/ExtractSameBrainRegionCoocurrences___0_1.xml" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/ExtractSameBrainRegionCoocurrences___0_1.xml" ], | |
| "cause" : { | |
| "arguments" : [ "file:/Users/m/Prog/Projects/MasterProject/sherlok/config/resources/.engines/ExtractSameBrainRegionCoocurrences___0_1.xml" ], | |
| "cause" : { |