# Git tips

## Rebasing on main

This updates your feature branch with changes from the upstream SciPy github repo. If you do not absolutely need to do this, try to avoid doing it, except perhaps when you are finished. The first step will be to update the remote repository with new commits from upstream:

    git fetch upstream

Next, you need to update the feature branch:

    # go to the feature branch
    git checkout my-new-feature
    # make a backup in case you mess up
    git branch tmp my-new-feature
    # rebase on upstream main branch
    git rebase upstream/main

If you have made changes to files that have changed also upstream, this may generate merge conflicts that you need to resolve. See below for help in this case.

Finally, remove the backup branch upon a successful rebase:

    git branch -D tmp

Note

Rebasing on main is preferred over merging upstream back to your branch. Using `git merge` and `git pull` is discouraged when working on feature branches.

## Recovering from mess-ups

Sometimes, you mess up merges or rebases. Luckily, in Git it is relatively straightforward to recover from such mistakes.

If you mess up during a rebase:

    git rebase --abort

If you notice you messed up after the rebase:

    # reset branch back to the saved point
    git reset --hard tmp

If you forgot to make a backup branch:

    # look at the reflog of the branch
    git reflog show my-feature-branch

    8630830 my-feature-branch@{0}: commit: BUG: io: close file handles immediately
    278dd2a my-feature-branch@{1}: rebase finished: refs/heads/my-feature-branch onto 11ee694744f2552d
    26aa21a my-feature-branch@{2}: commit: BUG: lib: make seek_gzip_factory not leak gzip obj
    ...

    # reset the branch to where it was before the botched rebase
    git reset --hard my-feature-branch@{2}

If you didn’t actually mess up but there are merge conflicts, you need to resolve those. This can be one of the trickier things to get right. For a good description of how to do this, see this article on merging conflicts.

## Rewriting commit history

Note

Do this only for your own feature branches.

There’s an embarrassing typo in a commit you made? Or perhaps the you made several false starts you would like the posterity not to see.

This can be done via interactive rebasing.

Suppose that the commit history looks like this:

    git log --oneline
    eadc391 Fix some remaining bugs
    a815645 Modify it so that it works
    2dec1ac Fix a few bugs + disable
    13d7934 First implementation
    6ad92e5 * masked is now an instance of a new object, MaskedConstant
    29001ed Add pre-nep for a copule of structured_array_extensions.
    ...

and `6ad92e5` is the last commit in the `main` branch. Suppose we want to make the following changes:

- Rewrite the commit message for `13d7934` to something more sensible.

- Combine the commits `2dec1ac`, `a815645`, `eadc391` into a single one.

We do as follows:

    # make a backup of the current state
    git branch tmp HEAD
    # interactive rebase
    git rebase -i 6ad92e5

This will open an editor with the following text in it:

    pick 13d7934 First implementation
    pick 2dec1ac Fix a few bugs + disable
    pick a815645 Modify it so that it works
    pick eadc391 Fix some remaining bugs

    # Rebase 6ad92e5..eadc391 onto 6ad92e5
    #
    # Commands:
    #  p, pick = use commit
    #  r, reword = use commit, but edit the commit message
    #  e, edit = use commit, but stop for amending
    #  s, squash = use commit, but meld into previous commit
    #  f, fixup = like "squash", but discard this commit's log message
    #
    # If you remove a line here THAT COMMIT WILL BE LOST.
    # However, if you remove everything, the rebase will be aborted.
    #

To achieve what we want, we will make the following changes to it:

    r 13d7934 First implementation
    pick 2dec1ac Fix a few bugs + disable
    f a815645 Modify it so that it works
    f eadc391 Fix some remaining bugs

This means that (i) we want to edit the commit message for `13d7934`, and (ii) collapse the last three commits into one. Now we save and quit the editor.

Git will then immediately bring up an editor for editing the commit message. After revising it, we get the output:

    [detached HEAD 721fc64] FOO: First implementation
     2 files changed, 199 insertions(+), 66 deletions(-)
    [detached HEAD 0f22701] Fix a few bugs + disable
     1 files changed, 79 insertions(+), 61 deletions(-)
    Successfully rebased and updated refs/heads/my-feature-branch.

and the history looks now like this:

    0f22701 Fix a few bugs + disable
    721fc64 ENH: Sophisticated feature
    6ad92e5 * masked is now an instance of a new object, MaskedConstant

If it went wrong, recovery is again possible as explained above.

## Deleting a branch on github

    git checkout main
    # delete branch locally
    git branch -D my-unwanted-branch
    # delete branch on github
    git push origin :my-unwanted-branch

(Note the colon `:` before `test-branch`. See also: https://github.com/guides/remove-a-remote-branch

## Several people sharing a single repository

If you want to work on some stuff with other people, where you are all committing into the same repository, or even the same branch, then just share it via github.

First fork SciPy into your account, as from Making your own copy (fork) of SciPy.

Then, go to your forked repository github page, say `https://github.com/your-user-name/scipy`

Click on the ‘Admin’ button, and add anyone else to the repo as a collaborator:

Now all those people can do:

    git clone git@github.com:your-user-name/scipy.git

Remember that links starting with `git@` use the ssh protocol and are read-write; links starting with `git://` are read-only.

Your collaborators can then commit directly into that repo with the usual:

    git commit -am 'ENH - much better code'
    git push origin my-feature-branch # pushes directly into your repo

## Exploring your repository

To see a graphical representation of the repository branches and commits:

    gitk --all

To see a linear list of commits for this branch:

    git log

You can also look at the network graph visualizer for your github repo.

## Backporting

Backporting is the process of copying new feature/fixes committed in scipy/main back to stable release branches. To do this you make a branch off the branch you are backporting to, cherry pick the commits you want from `scipy/main`, and then submit a pull request for the branch containing the backport.

1. First, you need to make the branch you will work on. This needs to be based on the older version of SciPy (not main):

       # Make a new branch based on scipy/maintenance/1.8.x,
       # backport-3324 is our new name for the branch.
       git checkout -b backport-3324 upstream/maintenance/1.8.x

2. Now you need to apply the changes from main to this branch using git cherry-pick:

       # Update remote
       git fetch upstream
       # Check the commit log for commits to cherry pick
       git log upstream/main
       # This pull request included commits aa7a047 to c098283 (inclusive)
       # so you use the .. syntax (for a range of commits), the ^ makes the
       # range inclusive.
       git cherry-pick aa7a047^..c098283
       ...
       # Fix any conflicts, then if needed:
       git cherry-pick --continue

3. You might run into some conflicts cherry picking here. These are resolved the same way as merge/rebase conflicts. Except here you can use git blame to see the difference between main and the backported branch to make sure nothing gets screwed up.

4. Push the new branch to your Github repository:

       git push -u origin backport-3324

5. Finally make a pull request using Github. Make sure it is against the maintenance branch and not main, Github will usually suggest you make the pull request against main.

## Pushing changes to the main repo

This is only relevant if you have commit rights to the main SciPy repo.

When you have a set of “ready” changes in a feature branch ready for SciPy’s `main` or `maintenance` branches, you can push them to `upstream` as follows:

1. First, merge or rebase on the target branch.

   1. Only a few, unrelated commits then prefer rebasing:

          git fetch upstream
          git rebase upstream/main

      See Rebasing on main.

   2. If all of the commits are related, create a merge commit:

          git fetch upstream
          git merge --no-ff upstream/main

2. Check that what you are going to push looks sensible:

       git log -p upstream/main..
       git log --oneline --graph

3. Push to upstream:

       git push upstream my-feature-branch:main

Note

It’s usually a good idea to use the `-n` flag to `git push` to check first that you’re about to push the changes you want to the place you want.