You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
sidle/reconstructed/reconstructed_merged.tsv was wrongly formatted (note that the first line contains the abundance in the last 3 columns, while it is missing for the second and third line):
QIIME2 barplot files looked fine though, so downstream it seems fine again.
Command used and terminal output
#that was the command that had the mis-formatted fileNXF_VER=23.10.1 nextflow run nf-core/ampliseq -r 2.9.0 -profile cfc --input illumina_multiregion_V1V2-V3V4-V6V8_samplesheet.tsv --multiregion illumina_multiregion_V1V2-V3V4-V6V8_multiregion.tsv --metadata illumina_multiregion_metadata.tsv --sidle_ref_taxonomy "silva=128" --skip_dada_taxonomy --skip_ancom --outdir ampliseq_illumina_multiregion_V1V2-V3V4-V6V8 -resume#with this command I could not find any trouble:NXF_VER=23.10.1 nextflow run nf-core/ampliseq -r 2.9.0 -profile cfc --input illumina_multiregion_V1V3-V4V5-V7V9_samplesheet.tsv --multiregion illumina_multiregion_V1V3-V4V5-V7V9_multiregion.tsv --metadata illumina_multiregion_metadata.tsv --sidle_ref_taxonomy "silva=128" --skip_dada_taxonomy --skip_ancom --outdir ampliseq_illumina_multiregion_V1V3-V4V5-V7V9 -resume
Relevant files
No response
System information
No response
The text was updated successfully, but these errors were encountered:
Description of the bug
sidle/reconstructed/reconstructed_merged.tsv
was wrongly formatted (note that the first line contains the abundance in the last 3 columns, while it is missing for the second and third line):This seems to stem from a mis-formatted
reconstructed_taxonomy.tsv
(line 3 starts but doesnt end in " and from line four on there isnt any " anymore)QIIME2 barplot files looked fine though, so downstream it seems fine again.
Command used and terminal output
Relevant files
No response
System information
No response
The text was updated successfully, but these errors were encountered: