Closed replikation closed 2 years ago
@replikation looks basically good and runs also in our restricted environment w/ Singularity. But I noticed some difference regarding deletions in Delta sequences. Basically, w/ v0.10.3 we always see the deletion
S:F157-, S:R158-
but with the current nextclade_docker_update
branch we always see
S:E156-, S:F157-
So shifted by one position. The other SNPs seem fine. Another Delta-characteristic deletion at position
ORF8:D119-, ORF8:F120-
ist not touched... so stays same between the two versions.
Any idea where this difference could come from? 0_0
v0.10.3
This branch
One second... you extract the information about insertions and deletions from the Nextclade output, right? Then there might be a difference between the quite old and new nextclade version and that causes the difference. Actually, the new positions might be even more accurate
yep, the consensus sequences are exactly the same (same md5sum) but Nextclade versions annotate this specific deletion position differently. Hach, Friday edge case discovered :leichtes_lächeln: but that's fine I would say. Likely even more accurate then the old Nextclade information
ah yes nexclade is new they adjusted some things. the nextclade version and database version is now also noted on the final report to avoid "differences" between databases. Thank you ill do some testing merge and prep a release
included now nextclade for
--update
nextclade containers are build every week
they contain nextclade version and the date of the data (like pangolin)
this information is also noted in the final report (version + data)
@hoelzer can you please test this build via singularity using the
--update flag
?