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https://github.com/genome/genome
23 March 2024, 19:04:16 UTC
Revision 11e9b33a062aef75d5cf58eb738039ef97709b0e authored by Susanna Kiwala on 25 November 2015, 18:09:58 UTC, committed by Susanna Kiwala on 25 November 2015, 18:09:58 UTC 
Merge pull request #1130 from susannasiebert/qc_framework_verify_bam_id_vcf
 
Make QC genotype VCF file an input to the SSG pipeline and use in verifyBamId
2 parent s b0de8e9 + 7e274c2
Raw File
Tip revision: 11e9b33a062aef75d5cf58eb738039ef97709b0e authored by Susanna Kiwala on 25 November 2015, 18:09:58 UTC
Merge pull request #1130 from susannasiebert/qc_framework_verify_bam_id_vcf
Tip revision: 11e9b33
submodule.bats 
#!/usr/bin/env bats

load test_helper

function setup {
    init_workspace
    export GE_NO_REDIRECT=1
    cd $WORKSPACE/genome
}

function teardown {
    rm_workspace
}

@test "unclean submodule fails" {
    git submodule update --init ur
    echo >> ur/lib/UR.pm
    run $BATS_TEST_DIRNAME/../bin/genome-env
    test "$status" -ne 0
}

@test "submodule with commits fails" {
    git submodule update --init ur
    (
        cd ur
        echo >> lib/UR.pm
        git commit -m whitespace lib/UR.pm
    )
    run $BATS_TEST_DIRNAME/../bin/genome-env
    test "$status" -ne 0
}
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