Runs the resource pipeline

Build: #8 failed Changes by Nick Bargnesi

Build result summary

Details

Completed
Duration
789 minutes
Labels
None
Revisions
OpenBEL/resource-generator (java)
97bc96761293df6d217275f6e89332fe19d9d2f0 97bc96761293df6d217275f6e89332fe19d9d2f0
resource-reasoner (master) on GitHub
fe913a2467a8d93856b11f5ca507a85cc12e7833 fe913a2467a8d93856b11f5ca507a85cc12e7833
Language (master) on GitHub
2457cbd57066bbef10cf71d14644e6aeedc3302d 2457cbd57066bbef10cf71d14644e6aeedc3302d
RDF misc (master) on GitHub
8d0fc04eb2e8e4a63baf96b3f28c106c2d6aa564 8d0fc04eb2e8e4a63baf96b3f28c106c2d6aa564
BEL Resource Generator (master) on GitHub
11832021410b260ae62b489a54955626f25c086d 11832021410b260ae62b489a54955626f25c086d

No failed tests found, a possible compilation error occurred.

Responsible

Code commits

Language (master) on GitHub
Author Commit Message Commit date
Nick Bargnesi Nick Bargnesi 2457cbd57066bbef10cf71d14644e6aeedc3302d 2457cbd57066bbef10cf71d14644e6aeedc3302d add XBEL v2 example

Shared artifacts

Artifact File size
bel-chembl-ttl 15 MB
default-namespace-ttl 13 KB
Namespace turtle export 549 MB
Inferred namespace rdf (nquads) 78 MB
biological-concepts-rdf-ttl-bz2 45 MB
Sqlite Database 827 MB
openbel-rdf-resources 60 MB
resource-generator-turtle-export 98 MB

Error summary for Publish resources

The job generated some errors, drill down into the full build log for more details.

INFO    Elapsed: 342.42 seconds [2016/06/08 18:27:57 GMT]
INFO  Add: 25,550,000 Data (Batch: 84,033 / Avg: 74,486)
INFO  Add: 25,600,000 Data (Batch: 72,568 / Avg: 74,482)
INFO  Add: 25,650,000 Data (Batch: 17,793 / Avg: 74,023)
INFO  Add: 25,700,000 Data (Batch: 75,187 / Avg: 74,025)
INFO  Add: 25,750,000 Data (Batch: 76,103 / Avg: 74,029)
INFO  Add: 25,800,000 Data (Batch: 92,936 / Avg: 74,058)
INFO  Add: 25,850,000 Data (Batch: 95,785 / Avg: 74,091)
INFO  Add: 25,900,000 Data (Batch: 82,644 / Avg: 74,105)
INFO  Add: 25,950,000 Data (Batch: 97,276 / Avg: 74,139)
INFO  Add: 26,000,000 Data (Batch: 81,967 / Avg: 74,153)
INFO    Elapsed: 350.62 seconds [2016/06/08 18:28:06 GMT]
INFO  Add: 26,050,000 Data (Batch: 97,656 / Avg: 74,187)
INFO  Add: 26,100,000 Data (Batch: 97,847 / Avg: 74,222)
INFO  Add: 26,150,000 Data (Batch: 84,175 / Avg: 74,238)
INFO  Add: 26,200,000 Data (Batch: 98,425 / Avg: 74,273)
INFO  Add: 26,250,000 Data (Batch: 79,491 / Avg: 74,283)
INFO  Add: 26,300,000 Data (Batch: 54,644 / Avg: 74,232)
INFO  Add: 26,350,000 Data (Batch: 54,764 / Avg: 74,182)
INFO  Add: 26,400,000 Data (Batch: 58,139 / Avg: 74,143)
INFO  Add: 26,450,000 Data (Batch: 54,406 / Avg: 74,092)
INFO  Add: 26,500,000 Data (Batch: 48,780 / Avg: 74,020)
INFO    Elapsed: 358.01 seconds [2016/06/08 18:28:13 GMT]
INFO  Add: 26,550,000 Data (Batch: 52,687 / Avg: 73,963)
INFO  Add: 26,600,000 Data (Batch: 53,590 / Avg: 73,911)
INFO  Add: 26,650,000 Data (Batch: 68,399 / Avg: 73,899)
INFO  Add: 26,700,000 Data (Batch: 56,116 / Avg: 73,856)
INFO  Add: 26,750,000 Data (Batch: 49,309 / Avg: 73,787)
INFO  Add: 26,800,000 Data (Batch: 94,876 / Avg: 73,818)
INFO  Add: 26,850,000 Data (Batch: 58,962 / Avg: 73,783)
INFO  Add: 26,900,000 Data (Batch: 50,968 / Avg: 73,722)
INFO  Add: 26,950,000 Data (Batch: 45,045 / Avg: 73,635)
INFO  Add: 27,000,000 Data (Batch: 15,375 / Avg: 73,121)
INFO    Elapsed: 369.25 seconds [2016/06/08 18:28:24 GMT]
INFO  Add: 27,050,000 Data (Batch: 78,864 / Avg: 73,131)
INFO  Add: 27,100,000 Data (Batch: 87,719 / Avg: 73,154)
INFO  Add: 27,150,000 Data (Batch: 74,074 / Avg: 73,155)
INFO  Add: 27,200,000 Data (Batch: 95,238 / Avg: 73,187)
INFO  Add: 27,250,000 Data (Batch: 36,576 / Avg: 73,052)
INFO  Add: 27,300,000 Data (Batch: 53,705 / Avg: 73,004)
INFO  Add: 27,350,000 Data (Batch: 27,777 / Avg: 72,788)
INFO  Add: 27,400,000 Data (Batch: 26,246 / Avg: 72,553)
INFO  Add: 27,450,000 Data (Batch: 81,037 / Avg: 72,567)
INFO  Add: 27,500,000 Data (Batch: 70,126 / Avg: 72,562)
INFO    Elapsed: 378.98 seconds [2016/06/08 18:28:34 GMT]
INFO  Add: 27,550,000 Data (Batch: 52,465 / Avg: 72,512)
INFO  Add: 27,600,000 Data (Batch: 53,533 / Avg: 72,465)
INFO  Add: 27,650,000 Data (Batch: 49,701 / Avg: 72,405)
INFO  Add: 27,700,000 Data (Batch: 38,051 / Avg: 72,287)
INFO  Add: 27,750,000 Data (Batch: 39,777 / Avg: 72,181)
INFO  Add: 27,800,000 Data (Batch: 43,591 / Avg: 72,096)
INFO  Add: 27,850,000 Data (Batch: 74,738 / Avg: 72,101)
INFO  Add: 27,900,000 Data (Batch: 54,054 / Avg: 72,058)
INFO  Add: 27,950,000 Data (Batch: 52,246 / Avg: 72,009)
INFO  Add: 28,000,000 Data (Batch: 35,893 / Avg: 71,880)
INFO    Elapsed: 389.54 seconds [2016/06/08 18:28:45 GMT]
INFO  Add: 28,050,000 Data (Batch: 30,826 / Avg: 71,709)
INFO  Add: 28,100,000 Data (Batch: 25,879 / Avg: 71,484)
INFO  Add: 28,150,000 Data (Batch: 47,393 / Avg: 71,420)
INFO  Add: 28,200,000 Data (Batch: 50,000 / Avg: 71,365)
INFO  Add: 28,250,000 Data (Batch: 45,955 / Avg: 71,296)
INFO  Add: 28,300,000 Data (Batch: 30,788 / Avg: 71,130)
INFO  Add: 28,350,000 Data (Batch: 46,125 / Avg: 71,062)
INFO  Add: 28,400,000 Data (Batch: 49,115 / Avg: 71,006)
INFO  Add: 28,450,000 Data (Batch: 51,599 / Avg: 70,960)
INFO  Add: 28,500,000 Data (Batch: 50,658 / Avg: 70,910)
INFO    Elapsed: 401.92 seconds [2016/06/08 18:28:57 GMT]
INFO  Add: 28,550,000 Data (Batch: 95,419 / Avg: 70,942)
INFO  Add: 28,600,000 Data (Batch: 96,339 / Avg: 70,974)
INFO  Add: 28,650,000 Data (Batch: 84,033 / Avg: 70,994)
INFO  Add: 28,700,000 Data (Batch: 98,231 / Avg: 71,028)
INFO  Add: 28,750,000 Data (Batch: 82,101 / Avg: 71,045)
INFO  Add: 28,800,000 Data (Batch: 99,403 / Avg: 71,080)
INFO  Add: 28,850,000 Data (Batch: 13,034 / Avg: 70,535)
INFO  Add: 28,900,000 Data (Batch: 23,342 / Avg: 70,289)
INFO  Add: 28,950,000 Data (Batch: 33,156 / Avg: 70,154)
INFO  Add: 29,000,000 Data (Batch: 72,046 / Avg: 70,157)
INFO    Elapsed: 413.36 seconds [2016/06/08 18:29:08 GMT]
INFO  Add: 29,050,000 Data (Batch: 88,809 / Avg: 70,182)
INFO  Add: 29,100,000 Data (Batch: 93,457 / Avg: 70,212)
INFO  Add: 29,150,000 Data (Batch: 81,168 / Avg: 70,229)
INFO  Add: 29,200,000 Data (Batch: 96,899 / Avg: 70,262)
INFO  Add: 29,250,000 Data (Batch: 83,752 / Avg: 70,281)
INFO  Add: 29,300,000 Data (Batch: 73,964 / Avg: 70,287)
INFO  Add: 29,350,000 Data (Batch: 38,550 / Avg: 70,189)
INFO  Add: 29,400,000 Data (Batch: 37,091 / Avg: 70,082)
INFO  Add: 29,450,000 Data (Batch: 38,580 / Avg: 69,985)
INFO  Add: 29,500,000 Data (Batch: 44,762 / Avg: 69,918)
INFO    Elapsed: 421.92 seconds [2016/06/08 18:29:17 GMT]
INFO  Load: /opt/data/bamboo/home/build-dir/131073/PIP-RP-PR/artifacts/rdf/bel-default-namespace.ttl -- 2016/06/08 18:29:18 GMT
INFO  Total: 29,532,612 tuples : 424.13 seconds : 69,631.20 tuples/sec [2016/06/08 18:29:19 GMT]
log4j:WARN No appenders could be found for logger (Jena).
log4j:WARN Please initialize the log4j system properly.
log4j:WARN See http://logging.apache.org/log4j/1.2/faq.html#noconfig for more info.
log4j:WARN No appenders could be found for logger (Jena).
log4j:WARN Please initialize the log4j system properly.
log4j:WARN See http://logging.apache.org/log4j/1.2/faq.html#noconfig for more info.
log4j:WARN No appenders could be found for logger (Jena).
log4j:WARN Please initialize the log4j system properly.
log4j:WARN See http://logging.apache.org/log4j/1.2/faq.html#noconfig for more info.
19:08:04 INFO  loader               :: Add: 7,200,000 triples (Batch: 44,682 / Avg: 50,633)
19:08:05 INFO  loader               :: Add: 7,250,000 triples (Batch: 55,005 / Avg: 50,661)
19:08:06 INFO  loader               :: Add: 7,300,000 triples (Batch: 52,910 / Avg: 50,675)
19:08:07 INFO  loader               :: Add: 7,350,000 triples (Batch: 52,966 / Avg: 50,690)
19:08:08 INFO  loader               :: Add: 7,400,000 triples (Batch: 51,975 / Avg: 50,699)
19:08:09 INFO  loader               :: Add: 7,450,000 triples (Batch: 55,741 / Avg: 50,729)
19:08:10 INFO  loader               :: Add: 7,500,000 triples (Batch: 45,787 / Avg: 50,693)
19:08:10 INFO  loader               ::   Elapsed: 147.95 seconds [2016/06/08 19:08:10 GMT]
19:08:11 INFO  loader               :: Add: 7,550,000 triples (Batch: 54,466 / Avg: 50,716)
19:08:12 INFO  loader               :: Add: 7,600,000 triples (Batch: 66,844 / Avg: 50,797)
19:08:13 INFO  loader               :: Add: 7,650,000 triples (Batch: 34,602 / Avg: 50,642)
19:08:14 INFO  loader               :: Add: 7,700,000 triples (Batch: 68,493 / Avg: 50,728)
19:08:16 INFO  loader               :: Add: 7,750,000 triples (Batch: 20,016 / Avg: 50,231)
19:08:19 INFO  loader               :: Add: 7,800,000 triples (Batch: 16,103 / Avg: 49,557)
19:08:20 INFO  loader               :: Add: 7,850,000 triples (Batch: 87,873 / Avg: 49,695)
19:08:20 INFO  loader               :: Add: 7,900,000 triples (Batch: 93,109 / Avg: 49,842)
19:08:21 INFO  loader               :: Add: 7,950,000 triples (Batch: 93,109 / Avg: 49,988)
19:08:22 INFO  loader               :: Add: 8,000,000 triples (Batch: 74,404 / Avg: 50,091)
19:08:22 INFO  loader               ::   Elapsed: 159.71 seconds [2016/06/08 19:08:22 GMT]
19:08:22 INFO  loader               :: Add: 8,050,000 triples (Batch: 93,632 / Avg: 50,236)
19:08:23 INFO  loader               :: Add: 8,100,000 triples (Batch: 91,575 / Avg: 50,377)
19:08:23 INFO  loader               :: Add: 8,150,000 triples (Batch: 85,910 / Avg: 50,505)
19:08:24 INFO  loader               :: Add: 8,200,000 triples (Batch: 74,515 / Avg: 50,604)
19:08:25 INFO  loader               :: Add: 8,250,000 triples (Batch: 64,766 / Avg: 50,671)
19:08:26 INFO  loader               :: Add: 8,300,000 triples (Batch: 63,291 / Avg: 50,732)
19:08:27 INFO  loader               :: Add: 8,350,000 triples (Batch: 39,339 / Avg: 50,645)
19:08:28 INFO  loader               :: Add: 8,400,000 triples (Batch: 46,382 / Avg: 50,617)
19:08:29 INFO  loader               :: Add: 8,450,000 triples (Batch: 32,938 / Avg: 50,457)
19:08:32 INFO  loader               :: Add: 8,500,000 triples (Batch: 19,387 / Avg: 49,985)
19:08:32 INFO  loader               ::   Elapsed: 170.05 seconds [2016/06/08 19:08:32 GMT]
19:08:33 INFO  loader               :: Add: 8,550,000 triples (Batch: 40,420 / Avg: 49,916)
19:08:34 INFO  loader               :: Add: 8,600,000 triples (Batch: 70,721 / Avg: 50,002)
19:08:35 INFO  loader               :: Add: 8,650,000 triples (Batch: 56,179 / Avg: 50,034)
19:08:36 INFO  loader               :: Add: 8,700,000 triples (Batch: 65,703 / Avg: 50,102)
19:08:36 INFO  loader               :: Add: 8,750,000 triples (Batch: 55,991 / Avg: 50,132)
19:08:37 INFO  loader               :: Add: 8,800,000 triples (Batch: 50,968 / Avg: 50,137)
19:08:39 INFO  loader               :: Add: 8,850,000 triples (Batch: 42,444 / Avg: 50,086)
19:08:40 INFO  loader               :: Add: 8,900,000 triples (Batch: 47,169 / Avg: 50,068)
19:08:41 INFO  loader               :: Add: 8,950,000 triples (Batch: 29,463 / Avg: 49,874)
19:08:43 INFO  loader               :: Add: 9,000,000 triples (Batch: 29,673 / Avg: 49,686)
19:08:43 INFO  loader               ::   Elapsed: 181.14 seconds [2016/06/08 19:08:43 GMT]
19:08:45 INFO  loader               :: Add: 9,050,000 triples (Batch: 25,278 / Avg: 49,422)
19:08:47 INFO  loader               :: Add: 9,100,000 triples (Batch: 20,483 / Avg: 49,041)
19:08:49 INFO  loader               :: Add: 9,150,000 triples (Batch: 30,978 / Avg: 48,886)
19:08:50 INFO  loader               :: Add: 9,200,000 triples (Batch: 47,080 / Avg: 48,875)
19:08:51 INFO  loader               :: Add: 9,250,000 triples (Batch: 48,875 / Avg: 48,875)
19:08:52 INFO  loader               :: Add: 9,300,000 triples (Batch: 50,658 / Avg: 48,885)
19:08:53 INFO  loader               :: Add: 9,350,000 triples (Batch: 45,045 / Avg: 48,862)
19:08:55 INFO  loader               :: Add: 9,400,000 triples (Batch: 37,230 / Avg: 48,781)
19:08:56 INFO  loader               :: Add: 9,450,000 triples (Batch: 36,954 / Avg: 48,699)
19:08:57 INFO  loader               :: Add: 9,500,000 triples (Batch: 65,530 / Avg: 48,765)
19:08:57 INFO  loader               ::   Elapsed: 194.81 seconds [2016/06/08 19:08:57 GMT]
19:08:58 INFO  loader               :: Add: 9,550,000 triples (Batch: 54,288 / Avg: 48,791)
19:09:00 INFO  loader               :: Add: 9,600,000 triples (Batch: 17,889 / Avg: 48,356)
19:09:01 INFO  loader               :: Add: 9,650,000 triples (Batch: 58,548 / Avg: 48,399)
19:09:02 INFO  loader               :: Add: 9,700,000 triples (Batch: 54,585 / Avg: 48,428)
19:09:03 INFO  loader               :: Add: 9,750,000 triples (Batch: 56,947 / Avg: 48,465)
19:09:04 INFO  loader               :: Add: 9,800,000 triples (Batch: 54,288 / Avg: 48,491)
19:09:05 INFO  loader               :: Add: 9,850,000 triples (Batch: 51,072 / Avg: 48,504)
19:09:06 INFO  loader               :: Add: 9,900,000 triples (Batch: 49,067 / Avg: 48,507)
19:09:08 INFO  loader               :: Add: 9,950,000 triples (Batch: 27,292 / Avg: 48,318)
19:09:09 INFO  loader               :: Add: 10,000,000 triples (Batch: 51,282 / Avg: 48,332)
19:09:09 INFO  loader               ::   Elapsed: 206.90 seconds [2016/06/08 19:09:09 GMT]
19:09:10 INFO  loader               :: Add: 10,050,000 triples (Batch: 54,466 / Avg: 48,359)
19:09:13 INFO  loader               :: Add: 10,100,000 triples (Batch: 17,749 / Avg: 47,950)
19:09:14 INFO  loader               :: Add: 10,150,000 triples (Batch: 33,990 / Avg: 47,853)
19:09:15 INFO  loader               :: Add: 10,200,000 triples (Batch: 44,326 / Avg: 47,834)
19:09:16 INFO  loader               :: Add: 10,250,000 triples (Batch: 50,709 / Avg: 47,847)
19:09:18 INFO  loader               :: Add: 10,300,000 triples (Batch: 23,386 / Avg: 47,606)
19:09:20 INFO  loader               :: Add: 10,350,000 triples (Batch: 31,505 / Avg: 47,488)
19:09:22 INFO  loader               :: Add: 10,400,000 triples (Batch: 28,719 / Avg: 47,340)
19:09:23 INFO  loader               :: Add: 10,450,000 triples (Batch: 33,178 / Avg: 47,243)
19:09:24 INFO  loader               :: Add: 10,500,000 triples (Batch: 39,651 / Avg: 47,200)
19:09:24 INFO  loader               ::   Elapsed: 222.46 seconds [2016/06/08 19:09:24 GMT]
19:09:26 INFO  loader               :: Add: 10,550,000 triples (Batch: 31,605 / Avg: 47,090)
19:09:29 INFO  loader               :: Add: 10,600,000 triples (Batch: 16,539 / Avg: 46,683)
19:09:31 INFO  loader               :: Add: 10,650,000 triples (Batch: 32,446 / Avg: 46,587)
19:09:32 INFO  loader               :: Add: 10,700,000 triples (Batch: 32,278 / Avg: 46,491)
19:09:33 INFO  loader               :: Add: 10,750,000 triples (Batch: 51,282 / Avg: 46,511)
19:09:35 INFO  loader               :: Add: 10,800,000 triples (Batch: 31,075 / Avg: 46,404)
19:09:37 INFO  loader               :: Add: 10,850,000 triples (Batch: 22,583 / Avg: 46,180)
19:09:40 INFO  loader               :: Add: 10,900,000 triples (Batch: 18,168 / Avg: 45,856)
19:09:41 INFO  loader               :: Add: 10,950,000 triples (Batch: 44,404 / Avg: 45,849)
19:09:42 INFO  loader               :: Add: 11,000,000 triples (Batch: 32,552 / Avg: 45,764)
19:09:42 INFO  loader               ::   Elapsed: 240.37 seconds [2016/06/08 19:09:42 GMT]
19:09:46 INFO  loader               :: Add: 11,050,000 triples (Batch: 15,060 / Avg: 45,345)
19:09:47 INFO  loader               :: Add: 11,100,000 triples (Batch: 27,457 / Avg: 45,213)
19:09:49 INFO  loader               :: Add: 11,150,000 triples (Batch: 36,179 / Avg: 45,162)
19:09:50 INFO  loader               :: Add: 11,200,000 triples (Batch: 31,928 / Avg: 45,079)
19:09:53 INFO  loader               :: Add: 11,250,000 triples (Batch: 21,891 / Avg: 44,868)
19:09:54 INFO  loader               :: Add: 11,300,000 triples (Batch: 38,639 / Avg: 44,836)
19:09:57 INFO  loader               :: Add: 11,350,000 triples (Batch: 16,276 / Avg: 44,492)
19:09:58 INFO  loader               :: -- Finish triples data phase
19:09:58 INFO  loader               :: ** Data: 11,379,788 triples loaded in 256.45 seconds [Rate: 44,373.43 per second]
19:09:58 INFO  loader               :: -- Finish quads data phase
19:09:58 INFO  loader               :: -- Start triples index phase
19:09:58 INFO  loader               :: -- Finish triples index phase
19:09:58 INFO  loader               :: -- Finish triples load
19:09:58 INFO  loader               :: ** Completed: 11,379,788 triples loaded in 256.46 seconds [Rate: 44,372.74 per second]
19:09:58 INFO  loader               :: -- Finish quads load
java.io.IOException: No space left on device
        at java.io.FileOutputStream.writeBytes(Native Method)
        at java.io.FileOutputStream.write(FileOutputStream.java:326)
        at sun.nio.cs.StreamEncoder.writeBytes(StreamEncoder.java:221)
        at sun.nio.cs.StreamEncoder.implWrite(StreamEncoder.java:282)
        at sun.nio.cs.StreamEncoder.write(StreamEncoder.java:125)
        at sun.nio.cs.StreamEncoder.write(StreamEncoder.java:135)
        at java.io.OutputStreamWriter.write(OutputStreamWriter.java:220)
        at java.io.Writer.write(Writer.java:157)
        at org.openbel.reggie.rdf.EquivalenceTemplate.writeValue(EquivalenceTemplate.java:130)
        at org.openbel.reggie.rdf.generate.equivalences.Main.generate(Main.java:102)
        at org.openbel.reggie.rdf.generate.equivalences.Main.generate(Main.java:76)
        at org.openbel.reggie.rdf.generate.equivalences.Main.generate(Main.java:69)
        at org.openbel.reggie.rdf.generate.equivalences.Main.generate(Main.java:54)
        at org.openbel.reggie.rdf.generate.All.generate(All.java:66)
        at org.openbel.reggie.rdf.generate.All.main(All.java:113)