Fix check_unflagged_fraction crash when using toil (RAP-128)

The step check_unflagged_fraction is not properly running with toil. The aim of this MR is to fix this bug.

Ticket: RAP-128

assigned to @alex

changed title from Draft: Debug check_unflagged_fraction with toil to Draft: Debug check_unflagged_fraction with toil (RAP-128)

changed the description

added 2 commits

• 748e120c - 1 commit from branch master
• bff0e488 - enforce shallow listing

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added 3 commits

• 3b3810b7 - enforce shallow listing
• cf2a29b5 - Merge branch 'debug_unflagged_fraction' of https://git.astron.nl/RD/LINC into...
• 9a18541c - delete listing entry in inputs

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added 1 commit

• a04da425 - add proper toil version

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requested review from @offringa

marked this merge request as ready

changed title from Debug check_unflagged_fraction with toil (RAP-128) to Fix check_unflagged_fraction crash when using toil (RAP-128)

approved this merge request

I ran one beam of a 7-beam NCP observation with Toil with this MR, and it finished successfully.

merged