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rrwick / Basecalling-comparison

A comparison of different Oxford Nanopore basecallers
GNU General Public License v3.0
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Running guppy on ecoli benchmark #19

Open ardakdemir opened 5 years ago

ardakdemir commented 5 years ago

This is not a issue related to this github repository, but I wonder if you also had a similar error when basecalling on the Ecoli benchmark fast5 files:

Fast5 read file is invalid. Read is missing 'median_before' metadata.

Other basecallers work fine with your provided scripts yet, for these specific fast5 files guppy does not work because of the missing metadata. Is there a way to side-step this problem, or should I add the metadata manually inside the fast5 files?

cameron-jack commented 4 years ago

We've got this issue too. Does anyone have any insights as to how to fix/get-around it?

Bessyyi commented 3 years ago

This is not a issue related to this github repository, but I wonder if you also had a similar error when basecalling on the Ecoli benchmark fast5 files:

Fast5 read file is invalid. Read is missing 'median_before' metadata.

Other basecallers work fine with your provided scripts yet, for these specific fast5 files guppy does not work because of the missing metadata. Is there a way to side-step this problem, or should I add the metadata manually inside the fast5 files?

helloļ¼Œprofessor. I got this issue too.Did you have solved this problem?