Skip to content

Uniformize CLI named arguments to dash-only syntax #372

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

Merged
merged 9 commits into from
Jan 15, 2025
Merged

Uniformize CLI named arguments to dash-only syntax #372

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
9 commits
Select commit Hold shift + click to select a range
f42a3da
added parsing of --force-unlock argument
gabridele Jan 14, 2025
a26089a
added code lines to build exemplars_tsv path
gabridele Jan 14, 2025
da42fed
modified naming of shell script used in apply function, to be saved i…
gabridele Jan 14, 2025
06cd22c
Adjusted parser.add_argument help sections according to previous edits
gabridele Jan 14, 2025
85ffe03
removed whitespace
gabridele Jan 14, 2025
1de216d
Merge branch 'PennLINC:main' into main
gabridele Jan 15, 2025
307a68a
edited syntax of named argument for ```validate``` command from using…
gabridele Jan 15, 2025
b1c74a8
Update `validate` command to use dash syntax for `--ignore-nifti-head…
gabridele Jan 15, 2025
bf9e9dd
Merge branch 'main' into dash-syntaxCLI
mattcieslak Jan 15, 2025
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
2 changes: 1 addition & 1 deletion cubids/cli.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -74,7 +74,7 @@ def _parse_validate():
default=None,
)
parser.add_argument(
"--ignore_nifti_headers",
"--ignore-nifti-headers",
action="store_true",
default=False,
help="Disregard NIfTI header content during validation",
Expand Down
4 changes: 2 additions & 2 deletions cubids/workflows.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -231,7 +231,7 @@ def validate(
linked_output_prefix_t,
]
if ignore_nifti_headers:
cmd.append("--ignore_nifti_headers")
cmd.append("--ignore-nifti-headers")

elif container_type == "singularity":
cmd = [
Expand All @@ -250,7 +250,7 @@ def validate(
linked_output_prefix_t,
]
if ignore_nifti_headers:
cmd.append("--ignore_nifti_headers")
cmd.append("--ignore-nifti-headers")

if sequential:
cmd.append("--sequential")
Expand Down
Loading