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
Hi,
I have installed v-pipe and modified the config.yaml and created the folder "samples".
I tried the ./vpipe --dryrun and I've got:
VPIPE_BASEDIR = /Users/opentrons-b10/V-pipe/workflow
Using base configuration virus SARS-CoV-2
WARNING: protocols YAML look-up file </Users/opentrons-b10/V-pipe/workflow/../resources/sars-cov-2/primers.yaml> specified, but no sample ever uses it: fourth column absent from samples TSV file.
Building DAG of jobs... MissingInputException in rule generate_web_visualization in file /Users/opentrons-b10/V-pipe/workflow/rules/visualization.smk, line 10:
Missing input files for rule generate_web_visualization:
output: samples/20230220/torino/visualization/snv_calling.html, samples/20230220/torino/visualization/alignment.html, samples/20230220/torino/visualization/reference_uri_file, samples/20230220/torino/visualization/bam_uri_file
wildcards: dataset=samples/20230220/torino
affected files:
/Users/opentrons-b10/V-pipe/workflow/../resources/sars-cov-2/primers/v3/nCoV-2019.tsv
Could you please help me ion solving this issue?
many thanks for the help,
Carlotta Olivero
The text was updated successfully, but these errors were encountered:
Hi,
I have installed v-pipe and modified the config.yaml and created the folder "samples".
I tried the ./vpipe --dryrun and I've got:
VPIPE_BASEDIR = /Users/opentrons-b10/V-pipe/workflow
Using base configuration virus SARS-CoV-2
WARNING: protocols YAML look-up file </Users/opentrons-b10/V-pipe/workflow/../resources/sars-cov-2/primers.yaml> specified, but no sample ever uses it: fourth column absent from samples TSV file.
Building DAG of jobs...
MissingInputException in rule generate_web_visualization in file /Users/opentrons-b10/V-pipe/workflow/rules/visualization.smk, line 10:
Missing input files for rule generate_web_visualization:
output: samples/20230220/torino/visualization/snv_calling.html, samples/20230220/torino/visualization/alignment.html, samples/20230220/torino/visualization/reference_uri_file, samples/20230220/torino/visualization/bam_uri_file
wildcards: dataset=samples/20230220/torino
affected files:
/Users/opentrons-b10/V-pipe/workflow/../resources/sars-cov-2/primers/v3/nCoV-2019.tsv
Could you please help me ion solving this issue?
many thanks for the help,
Carlotta Olivero
The text was updated successfully, but these errors were encountered: