Comments (2)
jeizenga
commented on June 24, 2024
As is, vg autoindex expects at least one of the GTFs to be provided as a "reference GTF" (-x) rather than a "haplotype GTF" (-H). It wouldn't be too hard to relax this restriction, but designating one as a reference might be enough to unblock you on the insufficient input error.
On the "Could not open GFA" error, that typically occurs when there's a typo in the file path, a missing file, or a permissions issue for the file. It looks to me like this error was thrown the first time vg tried to access any file. Perhaps your docker has some issues with its file mounts?
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MarionPerrier
commented on June 24, 2024
Oh ok! Makes sense 😅.
It works very smoothly now. Thank you!
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Related Issues (20)
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