Skip to content

updated auto-conv generate #66

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

Open
wants to merge 1 commit into
base: main
Choose a base branch
from
Open

updated auto-conv generate #66

Changes from all commits
Commits
Show all changes
1 commit
Select commit
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
48 changes: 48 additions & 0 deletions nipype-auto-conv/generate
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,3 +1,51 @@
#!/usr/bin/env bash
set -e

conv_dir=$(dirname $0)

CURRENT_BRANCH=$(git rev-parse --abbrev-ref HEAD)
AUTO_CONV_SUFFIX="-auto-conv"
REBASED_SUFFIX="-rebased-on-auto-conv"

if ! git diff-index --quiet HEAD --; then
echo "Current branch '$CURRENT_BRANCH' has uncommitted changes. Please commit or stash them before proceeding."
exit 1
fi

echo "Automatically converting Nipype tasks to Pydra tasks..."

echo "Create '$CURRENT_BRANCH$REBASED_SUFFIX' and '$CURRENT_BRANCH$AUTO_CONV_SUFFIX' branches if not present and switch to $CURRENT_BRANCH$AUTO_CONV_SUFFIX"
echo "NB: $CURRENT_BRANCH$AUTO_CONV_SUFFIX will contain the conversion specs from '$CURRENT_BRANCH' and the auto-converted tasks,"
echo "wherease '$CURRENT_BRANCH$REBASED_SUFFIX' will be the changes in the current branch rebased on that"
if [ "$CURRENT_BRANCH" == "*$REBASED_SUFFIX"]; then
BASE_BRANCH=${CURRENT_BRANCH%"$REBASED_SUFFIX"}$AUTO_CONV_SUFFIX
REBASE_BRANCH=$CURRENT_BRANCH
git checkout $BASE_BRANCH
git reset --hard $CURRENT_BRANCH
else
REBASE_BRANCH=${CURRENT_BRANCH}$REBASED_SUFFIX
BASE_BRANCH=${CURRENT_BRANCH}$AUTO_CONV_SUFFIX
git checkout -b $REBASE_BRANCH
git checkout -b $BASE_BRANCH
fi

echo "Apply nipype-auto-conv spec changes between current branch and the main auto-conv branch to the rebase branch..."
git fetch origin auto-conv
git reset origin/auto-conv
git add $conv_dir/specs
git commit -m "Update auto-conv specs with latest changes from '$CURRENT_BRANCH'" || echo true
# Ignore any other changes outside the nipype-auto-conv/specs directory
git reset --hard HEAD

echo "Running nipype2pydra conversion..."
nipype2pydra convert $conv_dir/specs $conv_dir/..

echo "Committing converted tasks to ${CURRENT_BRANCH}$AUTO_CONV_SUFFIX..."
git add pydra/tasks/fsl
git commit -m "Auto-converted Nipype tasks to Pydra tasks" || echo true

echo "Rebasing '$REBASE_BRANCH' to apply changes..."
git checkout $REBASE_BRANCH
git rebase $BASE_BRANCH

echo "Successfully converted Nipype tasks to Pydra tasks and rebased manual edits over the top of them in '$REBASE_BRANCH'