Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Bakta Refresh #159

Merged
merged 17 commits into from
Feb 16, 2024
Merged

Bakta Refresh #159

Changes from 1 commit
Commits
Show all changes
17 commits
Select commit Hold shift + click to select a range
691be8e
added all bakta params to module instead of modules.config
kyleoconnell Feb 13, 2024
ed3895d
cleaned up and reordered bakta params/
kyleoconnell Feb 14, 2024
3fd46c6
cleaned up bakta params
kyleoconnell Feb 14, 2024
dc2a3d3
fixed assert params error related to bakta params updates
kyleoconnell Feb 14, 2024
1dcebe8
added genus/species
kyleoconnell Feb 14, 2024
e35ff5f
fixed typos with bakta params
kyleoconnell Feb 14, 2024
e37f9cd
fixed another typo with bakta command
kyleoconnell Feb 14, 2024
b056b99
fixed another typo with bakta command v2
kyleoconnell Feb 14, 2024
8e0a77e
added prodigal path
kyleoconnell Feb 14, 2024
5bf3b37
added test config
kyleoconnell Feb 14, 2024
e1d3529
updated bakta optional params
kyleoconnell Feb 14, 2024
c797f13
bakta params
kyleoconnell Feb 14, 2024
725f73b
fixed locus tag
kyleoconnell Feb 14, 2024
4bc0751
fixed typo
kyleoconnell Feb 14, 2024
e2d43a8
fixed bakta command
kyleoconnell Feb 14, 2024
17e9ca2
fixed assets for bakta
kyleoconnell Feb 16, 2024
89d9704
readded asset commands for bakta
kyleoconnell Feb 16, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
Prev Previous commit
Next Next commit
fixed another typo with bakta command v2
  • Loading branch information
@kyleoconnell
kyleoconnell committed Feb 14, 2024
commit b056b9926d972c27018b5fff49cae0c6d5f0483c
2 changes: 1 addition & 1 deletion modules/nf-core/bakta/bakta/main.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,7 @@ process BAKTA {
--output ${fasta_path.getSimpleName()} \
--genus $params.bakta_genus \
--species $params.bakta_species \
--strain $params.bakta_strain
--strain $params.bakta_strain \
--plasmid $params.bakta_plasmid \
--complete $params.bakta_complete \
--prodigal-tf $params.bakta_prodigal_tf \
Expand Down