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PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0, 'blib/lib', 'blib/arch')" t/*.t | |
t/1_pm_compile.t ...... ok | |
t/2_pl_compile.t ...... ok | |
# Failed test 'Expect version 0.0.125 for bamcollate2' | |
# at t/3_external_progs.t line 51. | |
# Failed test 'Expect version 0.0.125 for bammarkduplicates' | |
# at t/3_external_progs.t line 51. | |
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Using perl v5.14.2 on fairly vanilla Ubuntu 12.04.1 LTS | |
In order that they appear: | |
Can't locate Const/Fast.pm in @INC (@INC contains: lib /etc/perl /usr/local/lib/perl/5.14.2 /usr/local/share/perl/5.14.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.14 /usr/share/perl/5.14 /usr/local/lib/site_perl .) at lib/PCAP.pm line 24. | |
Building BioPerl-1.006923 ... Module::Build version 0.42 required--this is only version 0.38 at ./Build line 43. | |
Error: Can't locate Data/UUID.pm in @INC (@INC contains: /opt/PCAP-core/blib/lib /opt/PCAP-core/blib/arch /opt/ICGC/lib/perl5/x86_64-linux-gnu-thread-multi /opt/ICGC/lib/perl5/x86_64-linux-gnu-thread-multi /opt/ICGC/lib/perl5 /opt/ICGC/lib/perl5/x86_64-linux-gnu-thread-multi /opt/ICGC/lib/perl5 /opt/ICGC/lib/perl5/x86_64-linux-gnu-thread-multi /etc/perl /usr/local/lib/perl/5.14.2 /usr/local/share/perl/5.14.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.14 /usr/share/perl/5.14 /usr/local/lib/site_perl .) at /opt/PCAP-core/blib/lib/PCAP/SRA.pm line 36. |
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#!/bin/bash | |
wget http://download.asperasoft.com/download/sw/ascp-client/3.5.4/ascp-install-3.5.4.102989-linux-64.sh | |
sh ascp-install-3.5.4.102989-linux-64.sh | |
pip install awscli | |
curl -o /usr/bin/s3md5 https://raw.githubusercontent.com/antespi/s3md5/master/s3md5 | |
chmod +x /usr/bin/s3md5 |
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{ | |
"id": 1, | |
"gender": "Male", | |
"race": ["White", "Asian"], | |
"ethnicity": "Not Hispanic or Latino", | |
"age": 230, | |
"diagnosis_pathology": ["Medulloblastoma", "PNET"], | |
"diagnosis_other": "Unknown", | |
"diagnosis_comments": null, | |
"has_chemo": "Not Reported", |