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Manta 99-outputs contains only "dispatched" files #66

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rdmorin opened this issue Jul 20, 2020 · 1 comment
Closed

Manta 99-outputs contains only "dispatched" files #66

rdmorin opened this issue Jul 20, 2020 · 1 comment

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@rdmorin
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rdmorin commented Jul 20, 2020

The current (v 2.2) Manta workflow does not symlink any of the actual results from Manta to 99-outputs. Shouldn't at least the bed files be symlinked there or am I misunderstanding the purpose of this directory?

ls results/icgc_dart/manta-2.2/99-outputs/dispatched/genome--hg38/
SP116652--SP116651--matched.dispatched  SP59270--SP59269--matched.dispatched  SP59284--SP59282--matched.dispatched  SP59332--SP59330--matched.dispatched
@whelena
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whelena commented Jul 27, 2020

Did it run into any errors while running? The bed and vcf files should be symlinked into 99-outputs/bed/ and 99-outputs/vcf/ respectively

@rdmorin rdmorin closed this as completed Aug 22, 2020
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@rdmorin @whelena