[ADAM-1661] Add file storage benchmarks. #1772

fnothaft · 2017-10-21T21:42:10Z

Resolves #1661. Is based on changes in #1771.

AmplabJenkins · 2017-10-21T22:04:50Z

Test PASSed.
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Test PASSed.

heuermh

Minor nits

heuermh · 2017-10-24T19:23:51Z

docs/source/35_benchmarks.md

+![Storage cost of a 60x coverage WGS aligned dataset](source/img/bam.pdf)
+
+ADAM provides a 20% improvement in storage size over BAM, while CRAM achieves
+a 43% improvement in storage cost. While CRAM achieves a higher compression


while CRAM ... While CRAM reads a bit awkward

heuermh · 2017-10-24T19:24:24Z

docs/source/35_benchmarks.md

+![Storage cost of genome annotations](source/img/gff.pdf)
+
+For the genome annotation file, ADAM provides a 20% improvement in storage size
+relative to the compressed GFF file.


GFF → GFF3

heuermh · 2017-10-24T19:25:25Z

docs/source/img/source/file_benchmarks.py

+
+# sizes in MB
+gff_sizes  = [  29.9,       36, 392.2]
+gff_labels = ['ADAM', 'GFF.GZ', 'GFF']


GFF → GFF3

heuermh · 2017-10-24T19:25:56Z

docs/source/img/source/file_benchmarks.py

+
+    fig.savefig(filename)
+
+plot(gff_sizes, gff_labels, 'gff.pdf', 'File sizes for ENSEMBL GRCh38 GTF', unit='MB')


GTF → GFF3

Resolves bigdatagenomics#1661.

AmplabJenkins · 2017-11-06T19:19:19Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-06T19:19:19Z

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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains d6d1bd195b97f87b979b2e60c08cc9593eea191a # timeout=10Checking out Revision d6d1bd195b97f87b979b2e60c08cc9593eea191a (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f d6d1bd195b97f87b979b2e60c08cc9593eea191aFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

fnothaft · 2017-11-06T19:34:49Z

Jenkins, test this please.

AmplabJenkins · 2017-11-06T19:44:08Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-06T19:44:08Z

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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains d6d1bd195b97f87b979b2e60c08cc9593eea191a # timeout=10Checking out Revision d6d1bd195b97f87b979b2e60c08cc9593eea191a (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f d6d1bd195b97f87b979b2e60c08cc9593eea191aFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

heuermh · 2017-11-06T19:52:54Z

wot

VariantContextRDDSuite:
- union two variant context rdds together
- can write, then read in .vcf file
- can write as a single file via simple saveAsVcf method, then read in .vcf file
- can write as a single file via full saveAsVcf method, then read in .vcf file
- transform a vcf file with bad header
- read a vcf file with multi-allelic variants to split
- support VCFs with +Inf/-Inf float values *** FAILED ***
  java.lang.UnsupportedOperationException: empty collection

fnothaft · 2017-11-06T20:11:52Z

Jenkins, test this please.

AmplabJenkins · 2017-11-06T20:19:19Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-06T20:19:19Z

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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains d6d1bd195b97f87b979b2e60c08cc9593eea191a # timeout=10Checking out Revision d6d1bd195b97f87b979b2e60c08cc9593eea191a (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f d6d1bd195b97f87b979b2e60c08cc9593eea191aFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-06T20:55:37Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-06T20:55:38Z

Test FAILed.
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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains 85b0cc4358c45ff73b952e63ebc00b6db328af97 # timeout=10Checking out Revision 85b0cc4358c45ff73b952e63ebc00b6db328af97 (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 85b0cc4358c45ff73b952e63ebc00b6db328af97First time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-06T23:13:29Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-06T23:13:29Z

Test FAILed.
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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains 85497362bd2067f13e927afc3365c05a4eb7f2ef # timeout=10Checking out Revision 85497362bd2067f13e927afc3365c05a4eb7f2ef (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 85497362bd2067f13e927afc3365c05a4eb7f2efFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-07T00:07:44Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-07T00:07:44Z

Test FAILed.
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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains e6c695ce8221c9b0f82f4c58aa7e2d9b9f91becc # timeout=10Checking out Revision e6c695ce8221c9b0f82f4c58aa7e2d9b9f91becc (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f e6c695ce8221c9b0f82f4c58aa7e2d9b9f91beccFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-07T08:32:57Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-07T08:32:58Z

Test FAILed.
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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains 2300253 # timeout=10Checking out Revision 2300253 (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 23002532af043789291b4863ad27c4ee19068c42First time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-07T16:44:29Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-07T16:44:30Z

Test FAILed.
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Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains e0067bd1605a35cfd56e17e8d50a7aebc7f803dd # timeout=10Checking out Revision e0067bd1605a35cfd56e17e8d50a7aebc7f803dd (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f e0067bd1605a35cfd56e17e8d50a7aebc7f803ddFirst time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

AmplabJenkins · 2017-11-07T17:28:50Z

Merged build finished. Test FAILed.

AmplabJenkins · 2017-11-07T17:28:50Z

Test FAILed.
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https://amplab.cs.berkeley.edu/jenkins//job/ADAM-prb/2469/

Build result: FAILURE

[...truncated 15 lines...] > /home/jenkins/git2/bin/git fetch --tags --progress https://github.com/bigdatagenomics/adam.git +refs/pull/:refs/remotes/origin/pr/ # timeout=15 > /home/jenkins/git2/bin/git rev-parse origin/pr/1772/merge^{commit} # timeout=10 > /home/jenkins/git2/bin/git branch -a -v --no-abbrev --contains 2821c45d360afcc87930c0a1bd21668a766ca815 # timeout=10Checking out Revision 2821c45d360afcc87930c0a1bd21668a766ca815 (origin/pr/1772/merge) > /home/jenkins/git2/bin/git config core.sparsecheckout # timeout=10 > /home/jenkins/git2/bin/git checkout -f 2821c45d360afcc87930c0a1bd21668a766ca815First time build. Skipping changelog.Triggering ADAM-prb ? 2.6.2,2.11,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.11,2.2.0,centosTriggering ADAM-prb ? 2.6.2,2.10,1.6.3,centosTriggering ADAM-prb ? 2.6.2,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,2.2.0,centosTriggering ADAM-prb ? 2.7.3,2.10,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,1.6.3,centosTriggering ADAM-prb ? 2.7.3,2.11,2.2.0,centosADAM-prb ? 2.6.2,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.11,2.2.0,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.6.2,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,2.2.0,centos completed with result FAILUREADAM-prb ? 2.7.3,2.10,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,1.6.3,centos completed with result FAILUREADAM-prb ? 2.7.3,2.11,2.2.0,centos completed with result FAILURENotifying endpoint 'HTTP:https://webhooks.gitter.im/e/ac8bb6e9f53357bc8aa8'
Test FAILed.

heuermh · 2017-11-07T17:41:46Z

Thank you, @fnothaft

heuermh requested changes Oct 24, 2017

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heuermh added this to the 0.23.0 milestone Oct 24, 2017

[ADAM-1661] Add file storage benchmarks.

910f572

Resolves bigdatagenomics#1661.

fnothaft force-pushed the issues/1661-file-benchmarks branch from 6e5517d to 910f572 Compare November 6, 2017 19:09

Fix regression due to rebase of bigdatagenomics#1771.

9081e43

fnothaft force-pushed the issues/1661-file-benchmarks branch from 96efc80 to 9081e43 Compare November 7, 2017 17:39

heuermh approved these changes Nov 7, 2017

View reviewed changes

heuermh merged commit 9f3a125 into bigdatagenomics:master Nov 7, 2017

fnothaft mentioned this pull request Dec 4, 2017

[ADAM-1630] Overhauled docs introduction and added architecture section. #1653

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[ADAM-1661] Add file storage benchmarks. #1772

[ADAM-1661] Add file storage benchmarks. #1772

fnothaft commented Oct 21, 2017

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heuermh commented Nov 7, 2017


		fig.savefig(filename)

		plot(gff_sizes, gff_labels, 'gff.pdf', 'File sizes for ENSEMBL GRCh38 GTF', unit='MB')

[ADAM-1661] Add file storage benchmarks. #1772

[ADAM-1661] Add file storage benchmarks. #1772

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AmplabJenkins commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

Build result: FAILURE

fnothaft commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

Build result: FAILURE

heuermh commented Nov 6, 2017

fnothaft commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

Build result: FAILURE

AmplabJenkins commented Nov 6, 2017

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Build result: FAILURE

AmplabJenkins commented Nov 6, 2017

AmplabJenkins commented Nov 6, 2017

Build result: FAILURE

AmplabJenkins commented Nov 7, 2017

AmplabJenkins commented Nov 7, 2017

Build result: FAILURE

AmplabJenkins commented Nov 7, 2017

AmplabJenkins commented Nov 7, 2017

Build result: FAILURE

AmplabJenkins commented Nov 7, 2017

AmplabJenkins commented Nov 7, 2017

Build result: FAILURE

AmplabJenkins commented Nov 7, 2017

AmplabJenkins commented Nov 7, 2017

Build result: FAILURE

heuermh commented Nov 7, 2017