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Containerise update software#16

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leahkemp wants to merge 20 commits intodevfrom
containerise_update_software
Open

Containerise update software#16
leahkemp wants to merge 20 commits intodevfrom
containerise_update_software

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@leahkemp
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Update software to more recent versions as well as port software from conda to containers where possible

@leahkemp
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Unable to underatake a test run on test data: cohort + gpu accelerated because of the following unresolved issue: #15

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