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Links for the reads etc in report don't work on Windows #2

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Desperate-Dan opened this issue Sep 26, 2023 · 0 comments
Open

Links for the reads etc in report don't work on Windows #2

Desperate-Dan opened this issue Sep 26, 2023 · 0 comments

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@Desperate-Dan
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Hello!

Just a note that links generated by the report for "reads" and "kraken_report" on windows machines contain the "wsl" /mnt/c path so don't work in the report. The "assemblies" link does work though.

For the ones that don't work:

file:///C:/mnt/c/Users/ARTIC/epi2melabs/instances/wf-metagenomics_01HB7EKYD5DA7SEKGB2X7M7X19/output/kraken/barcode01.kreport.txt

Should be:

file:///C:/Users/ARTIC/epi2melabs/instances/wf-metagenomics_01HB7EKYD5DA7SEKGB2X7M7X19/output/kraken/barcode01.kreport.txt
@Desperate-Dan Desperate-Dan changed the title Links for the fastas etc in report don't work on Windows Links for the reads etc in report don't work on Windows Sep 26, 2023
rmcolq added a commit that referenced this issue Sep 26, 2023
@rmcolq
strip out the mount part of windows filepaths #2
cf0b363
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@Desperate-Dan