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Issues list

freyja fails with too few reads
#274 by MarieLataretu was closed Jul 24, 2024
Process retry in slurm profile enhancement New feature or request
#263 by MarieLataretu was closed May 13, 2024
1
@replikation
1
CovarPlot fails w/ custom BED bug Something isn't working
#262 by hoelzer was closed Feb 14, 2024
@replikation @MarieLataretu
5
new pangolin table columns bug Something isn't working
#260 by replikation was closed Jan 17, 2024
@replikation
1
The pipeline fails in artic_ncov_wf_artic_medaka bug Something isn't working
#259 by Bioloko was closed Oct 11, 2023
@replikation
7
Warning when execution report and timeline already exists enhancement New feature or request
#256 by MarieLataretu was closed Jan 15, 2024
@MarieLataretu
1
MinKNOW/Guppy update needs new model for R10.4.1 5 kHz enhancement New feature or request
#254 by hoelzer was closed Jun 5, 2023
1
@replikation @MarieLataretu
6
Update --help to list up-to-date primer schemes that are supported enhancement New feature or request
#248 by hoelzer was closed Feb 15, 2023
@replikation @DataSpott
Update Medaka to support R10.4.1 models enhancement New feature or request
#247 by hoelzer was closed Feb 24, 2023
@replikation
14
VarSkipV2b primer does not work as expected bug Something isn't working
#246 by svonoy was closed Feb 14, 2023
@replikation
7
publish primersitereport from medaka output enhancement New feature or request
#245 by MarieLataretu was closed Aug 3, 2023
@replikation @MarieLataretu
summary_report.py fails bug Something isn't working invalid This doesn't seem right
#241 by MarieLataretu was closed Oct 19, 2022
@replikation
7
Medaka step fails in the -profile fastq_test bug Something isn't working
#240 by hoelzer was closed Oct 19, 2022
@replikation
3
Add new V5 ARTIC primer BED enhancement New feature or request
#238 by hoelzer was closed Feb 1, 2023
@replikation @MarieLataretu
5
Only calculate NanoPlot after read filtering step enhancement New feature or request
#236 by hoelzer was closed Aug 4, 2022
@replikation
5
add skip scorpio parameter to pangolin enhancement New feature or request
#234 by MarieLataretu was closed Jun 20, 2022
@MarieLataretu
1
export variant file (vcf) enhancement New feature or request
#232 by oliverdrechsel was closed May 18, 2022
@replikation
1
Workflow failed at artic_medaka, no '2.Genomes' output, with test_fastq and actual sample bug Something isn't working
#230 by Krysasp was closed Apr 17, 2022
@replikation
1
"split-fasta"-process fails due to leading empty line bug Something isn't working
#229 by DataSpott was closed Oct 19, 2022
1
@DataSpott
Runs fail at barcode22 bug Something isn't working
#223 by JaMaack was closed Apr 1, 2022
@replikation
8
Pangolin v4.0 documentation Improvements or additions to documentation enhancement New feature or request
#220 by hoelzer was closed Apr 17, 2022
1
@RaverJay @replikation
11
Possible filtering issue bug Something isn't working
#218 by tb-fyr was closed Oct 19, 2022
@replikation
5
Report also VCF files enhancement New feature or request
#217 by hoelzer was closed Oct 19, 2022
@replikation
11
SARS-CoV-2 workflow comparison - kindly check if your work is represented correctly enhancement New feature or request
#215 by thomasbtf was closed Oct 19, 2022
@replikation
Variant calling doesn't seem to work with VarSkipV2 bug Something isn't working
#210 by JaMaack was closed Feb 2, 2022 Allow custom Primer bed files
1
@oliverdrechsel @replikation
3
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