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

Bug fix related to correct default targets file in GUI #109

Merged
merged 6 commits into from
Aug 19, 2024
Merged

Bug fix related to correct default targets file in GUI #109

Changes from 1 commit
Commits
Show all changes
6 commits
Select commit Hold shift + click to select a range
67ab584
fix: update def targets based on genome
samarth8392 Aug 15, 2024
dd7509e
chore: updated CHANGELOG.md
samarth8392 Aug 15, 2024
0e06b20
Merge branch 'main' into hotfix-gui-targ
samarth8392 Aug 16, 2024
2c354df
fix: removed ifelse from targets; def targs comes from config
samarth8392 Aug 16, 2024
edd9a3e
Merge branch 'main' into hotfix-gui-targ
samarth8392 Aug 16, 2024
d137ffc
fix: removed ifelse from targets; simplfied custom target code
samarth8392 Aug 19, 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
6 changes: 1 addition & 5 deletions src/xavier/gui.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -283,11 +283,7 @@ def launch_gui(DEBUG=True):
genome=genome,
targets=values["-TARGETS-"]
if values["-TARGETS-"]
samarth8392 marked this conversation as resolved.
Show resolved Hide resolved
else (
xavier_base("resources", "Agilent_SSv7_allExons_hg38.bed")
if genome == "hg38"
else(xavier_base("resources", "SureSelect_mm10_sorted.bed"))
), # TODO should this be part of the genome config file?
else (""), # TODO should this be part of the genome config file?
samarth8392 marked this conversation as resolved.
Show resolved Hide resolved
samarth8392 marked this conversation as resolved.
Show resolved Hide resolved
mode="slurm",
job_name="pl:xavier",
callers=["mutect2", "mutect", "strelka", "vardict", "varscan"],
Expand Down
Loading