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October 26, 2021 16:11
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| 17:12:06 /usr/local/lib/python3.6/dist-packages/rdflib_jsonld/__init__.py:12: DeprecationWarning: The rdflib-jsonld package has been integrated into rdflib as of rdflib==6.0.1. Please remove rdflib-jsonld from your project's dependencies. | |
| 17:12:06 DeprecationWarning, | |
| 17:12:07 /usr/local/lib/python3.6/dist-packages/rdflib_jsonld/__init__.py:12: DeprecationWarning: The rdflib-jsonld package has been integrated into rdflib as of rdflib==6.0.1. Please remove rdflib-jsonld from your project's dependencies. | |
| 17:12:07 DeprecationWarning, | |
| 17:12:07 Traceback (most recent call last): | |
| 17:12:07 File "/usr/local/bin/validate.py", line 32, in <module> | |
| 17:12:07 from ontobio.rdfgen.gocamgen.gocam_builder import GoCamBuilder, AssocExtractor | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocam_builder.py", line 1, in <module> | |
| 17:12:07 from ontobio.rdfgen.gocamgen.gocamgen import AssocGoCamModel | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocamgen.py", line 17, in <module> | |
| 17:12:07 from ontobio.rdfgen.gocamgen.subgraphs import AnnotationSubgraph | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/subgraphs.py", line 3, in <module> | |
| 17:12:07 from ontobio.rdfgen.gocamgen.rdflib_sparql_wrapper import RdflibSparqlWrapper | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/rdflib_sparql_wrapper.py", line 2, in <module> | |
| 17:12:07 from rdflib.plugins.sparql import prepareQuery | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/__init__.py", line 35, in <module> | |
| 17:12:07 from . import parser | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parser.py", line 182, in <module> | |
| 17:12:07 Param('prefix', PN_PREFIX)) + Suppress(':').leaveWhitespace() | |
| 17:12:07 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parserutils.py", line 113, in __init__ | |
| 17:12:07 self.name = name | |
| 17:12:07 AttributeError: can't set attribute | |
| 17:12:08 Traceback (most recent call last): | |
| 17:12:08 File "/usr/local/bin/validate.py", line 32, in <module> | |
| 17:12:08 from ontobio.rdfgen.gocamgen.gocam_builder import GoCamBuilder, AssocExtractor | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocam_builder.py", line 1, in <module> | |
| 17:12:08 from ontobio.rdfgen.gocamgen.gocamgen import AssocGoCamModel | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocamgen.py", line 17, in <module> | |
| 17:12:08 from ontobio.rdfgen.gocamgen.subgraphs import AnnotationSubgraph | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/subgraphs.py", line 3, in <module> | |
| 17:12:08 from ontobio.rdfgen.gocamgen.rdflib_sparql_wrapper import RdflibSparqlWrapper | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/rdflib_sparql_wrapper.py", line 2, in <module> | |
| 17:12:08 from rdflib.plugins.sparql import prepareQuery | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/__init__.py", line 35, in <module> | |
| 17:12:08 from . import parser | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parser.py", line 182, in <module> | |
| 17:12:08 Param('prefix', PN_PREFIX)) + Suppress(':').leaveWhitespace() | |
| 17:12:08 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parserutils.py", line 113, in __init__ | |
| 17:12:08 self.name = name | |
| 17:12:08 AttributeError: can't set attribute | |
| 17:12:08 [[1;34mINFO[m] Copying blazegraph-jar-2.1.4.jar to /opt/go-site/pipeline/target/jars/blazegraph-jar.jar | |
| 17:12:08 Makefile:84: recipe for target 'target/groups/noctua/noctua.group' failed | |
| 17:12:08 make: *** [target/groups/noctua/noctua.group] Error 1 | |
| 17:12:08 make: *** Waiting for unfinished jobs.... | |
| 17:12:08 [[1;34mINFO[m] Copying jetty-http-9.2.3.v20140905.jar to /opt/go-site/pipeline/target/jars/jetty-http.jar | |
| 17:12:08 [[1;34mINFO[m] Copying jetty-servlets-9.2.3.v20140905.jar to /opt/go-site/pipeline/target/jars/jetty-servlets.jar | |
| 17:12:08 [[1;34mINFO[m] Copying jetty-util-9.2.3.v20140905.jar to /opt/go-site/pipeline/target/jars/jetty-util.jar | |
| 17:12:08 [[1;34mINFO[m] Copying jetty-io-9.2.3.v20140905.jar to /opt/go-site/pipeline/target/jars/jetty-io.jar | |
| 17:12:08 [[1;34mINFO[m] Copying jetty-continuation-9.2.3.v20140905.jar to /opt/go-site/pipeline/target/jars/jetty-continuation.jar | |
| 17:12:08 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m | |
| 17:12:08 [[1;34mINFO[m] [1;32mBUILD SUCCESS[m | |
| 17:12:08 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m | |
| 17:12:08 [[1;34mINFO[m] Total time: 10.025 s | |
| 17:12:08 [[1;34mINFO[m] Finished at: 2021-10-26T00:12:08Z | |
| 17:12:08 [[1;34mINFO[m] [1m------------------------------------------------------------------------[m | |
| 17:12:09 Traceback (most recent call last): | |
| 17:12:09 File "/usr/local/bin/validate.py", line 32, in <module> | |
| 17:12:09 from ontobio.rdfgen.gocamgen.gocam_builder import GoCamBuilder, AssocExtractor | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocam_builder.py", line 1, in <module> | |
| 17:12:09 from ontobio.rdfgen.gocamgen.gocamgen import AssocGoCamModel | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/gocamgen.py", line 17, in <module> | |
| 17:12:09 from ontobio.rdfgen.gocamgen.subgraphs import AnnotationSubgraph | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/subgraphs.py", line 3, in <module> | |
| 17:12:09 from ontobio.rdfgen.gocamgen.rdflib_sparql_wrapper import RdflibSparqlWrapper | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/ontobio/rdfgen/gocamgen/rdflib_sparql_wrapper.py", line 2, in <module> | |
| 17:12:09 from rdflib.plugins.sparql import prepareQuery | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/__init__.py", line 35, in <module> | |
| 17:12:09 from . import parser | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parser.py", line 182, in <module> | |
| 17:12:09 Param('prefix', PN_PREFIX)) + Suppress(':').leaveWhitespace() | |
| 17:12:09 File "/usr/local/lib/python3.6/dist-packages/rdflib/plugins/sparql/parserutils.py", line 113, in __init__ | |
| 17:12:09 self.name = name | |
| 17:12:09 AttributeError: can't set attribute | |
| 17:12:09 Makefile:84: recipe for target 'target/groups/xenbase/xenbase.group' failed | |
| 17:12:09 make: *** [target/groups/xenbase/xenbase.group] Error 1 | |
| 17:12:10 Makefile:84: recipe for target 'target/groups/rnacentral/rnacentral.group' failed | |
| 17:12:10 make: *** [target/groups/rnacentral/rnacentral.group] Error 1 |
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