doc/ug/github_notes.md

---
title: GitHub Notes
---

The OpenTitan source tree is maintained on GitHub in a [monolithic repository](https://github.com/lowRISC/opentitan) called opentitan.

These notes are for people who intend to contribute back to OpenTitan (based on
notes taken by a relatively inexperienced git user). If you don't intend to do
this you can simply clone the main repository, instructions are in [install
instructions]({{< relref "install_instructions" >}}) and this document can be ignored.There
is much more to using git, a possible next step is to reference [Resources to
learn Git](https://try.github.io/).

## Getting a working repository

To develop in the repository you will need to get a copy on your local
machine. To allow contributions to be made back to the main repo
(through a process called a Pull Request) you need to first make your
own copy of the repository on GitHub then transfer that to your local
machine.

You will need to log in to GitHub, go to the [opentitan repository](https://github.com/lowRISC/opentitan) and click on
"Fork". This will generate a copy in your GitHub area that you can
use.

Then setup git on your local machine and set some standard parameters
to ensure your name and email are correctly inserted. These commands
set them globally for all your use of git on the local machine so you
may have done this step already, there is no need to repeat it. (See
below if you want to use a different email address for this repo.)

Check the parameters:
```console
$ git config -l
```

And if they do not exist then set them:

```console
$ git config --global user.name "My Name"
$ git config --global user.email "my_name@email.com"
```

`git` will take care of prompting for your GitHub user name and
password when it is required, but it can be useful to allow it to
cache these credentials (set here to an hour using the timeout in
seconds) so you don't have to enter every time:

```console
$ git config --global credential.helper 'cache --timeout=3600'
```

Now make a local copy of your GitHub copy of the repository and let git know
that it is derived from the **upstream** lowRISC repo:

```console
$ cd <where the repository should go>
$ git clone https://github.com/$GITHUB_USER/opentitan.git
$ cd opentitan
$ git remote add upstream https://github.com/lowRISC/opentitan.git
$ git fetch upstream
$ git remote -v
```

The `git remote -v` should give your GitHub copy as **origin** and the
lowRISC one as **upstream**. Making this link will allow you to keep your
local and GitHub repos up to date with the lowRISC one.

If you want a different email address (or name) for the lowRISC repository then
you can set it locally in the repository (similar to above but without the
--global flag). This command must be executed from a directory inside
the local copy of the repo. (There is no need for the first `cd` if
you are following the previous step.)


```console
$ cd opentitan
$ git config user.email "my_name@lowrisc.org"
```

## Working in your local repo

The repository that you have created locally will initially be on the
`master` branch. In general you should not make changes on this
branch, just use it to track your GitHub repository and synchronize with the
main lowRISC repository.

The typical workflow is to make your own branch which it is
conventional to name based on the change you are making:

```console
$ git checkout -b forchange
$ git status
```

The status will initially indicate there are no changes, but as you
add, delete or edit files it will let you know the state of things.

Once you are happy with your changes, commit them to the local repository by adding the files to the changes (if things are clean you can add using `git commit -a -s` instead of a number of `add` commands):

```console
$ git add...
$ git commit -s
```

The commit will make you add a message. The first line of this is a
short summary of the change. It should be prefixed with a word in
square brackets indicating the area being changed, typically the IP or
Tool name. For example:

```console
[doc/um] Add notes on using GitHub and the repo
```

After this there should be a blank line and the main description of
the change. If you are fixing an issue then add a line at the end of
the message `Fixes #nn` where `nn` is the issue number. This will link
the fix and close out the issue when it is added to the lowRISC repo.
If the change is an attempted fix that has not yet had confirmation from
verification engineers, it should not close the related issue. In this case,
write `Related to #nn` in the commit message rather than `Fixes #nn`.

The commit message will end with a "Signed-off-by" line inserted by `git` due to using the `-s` option to `git commit`.
Adding this line certifies you agree to the statement in [CONTRIBUTING.md](https://github.com/lowRISC/opentitan/blob/master/CONTRIBUTING.md), indicating your contribution is made under our Contributor License Agreement.

When you have finished everything locally (it is good practice to do a
status check to ensure things are clean) you can push your branch (eg
forchange) to **your** GitHub repository (the **origin**):

```console
$ git status
$ git push origin forchange
```

Then you need to go to your repository in GitHub and either select branch
from the pulldown or often there is a status message that you can
click on, review the changes and make a Pull Request. You can add
reviewers and get your change reviewed.

If you need to make changes to satisfy the reviews then you do that in
your local repository on the same branch. You will need to `add` files and
commit again. It is normally best to squash your changes into a single
commit by doing it with `--amend` which will give you a chance to edit
the message. If you do this you need to force `-f` the push back to
your repo.

```console
$ git add...
$ git commit --amend
$ git status
$ git push -f origin forchange
```

Once the reviewers are happy you can "Rebase and Merge" the Pull
Request on GitHub, delete the branch there (it offers to do this when
you do the merge). You can delete the branch in your local repository with:

```console
$ git checkout master
$ git branch -D forchange
```

When a Pull Request contain multiple commits, those commits should be logically
independent. Interactive rebase can be used to manipulate commits in a pull
request to achieve that goal. Commonly, it might be used to squash commits that
fix up issues reported during review back into the relevant commit.

```console
$ git rebase -i `git merge-base {current_branch} master`
```

Then, an editor will open. Follow the instructions given there, to reorder and
combine commits, or to change the commit message. Then update the PR branch in
the GitHub remote repository.

```console
$ git push -f origin HEAD
```

## Automatically adding a Signed-off-by line for your commits

One option to avoid having to remember to add `-s` to `git commit` is to configure `git` to append it to your commit messages for you.
This can be done using an executable hook.
An appropriate hook can be installed by executing this from the root of your repository checkout:

```console
$ cat <<"EOF" > .git/hooks/prepare-commit-msg
#!/bin/sh

# Add a Signed-off-by line to the commit message if not already present.
git interpret-trailers --if-exists doNothing --trailer \
  "Signed-off-by: $(git config user.name) <$(git config user.email)>" \
  --in-place "$1"
EOF
$ chmod +x .git/hooks/prepare-commit-msg
```

## Update your repository with changes in the lowRISC repo

There is a little work to do to keep everything in sync. Normally you
want to first get your local repository `master` branch up to date with the
lowRISC repository (**upstream**) and then you use that to update your GitHub
copy (**origin**).

```console
$ git checkout master
$ git pull --ff-only upstream master
$ git push origin
```

If you do this while you have changes on some other branch then before
a Pull Request will work you need to be sure your branch merges
cleanly into the new lowRISC repo. Assuming you got the local `master`
branch up to date with the procedure above you can now **rebase** your
changes on the new `master`. Assuming you have your changes on the local
branch `forchange`:

```console
$ git checkout forchange
$ git rebase master
```

If you are lucky this will just work, it unwinds your changes, gets
the updated `master` and replays your changes. If there are conflicts
then you need a big pot of coffee and patience (see next section).

Once everything has rebased properly you can do


```console
$ git log
```

And see that the changes you commited on the branch are at the top of
the log followed by the latest changes on the `master` branch.

Note: be mindful about which branch you are working on.
If you have added new commits to your local `master` branch, aligning it with `upstream` using `git pull --ff-only` may fail.
An alternative is to use `git pull --rebase` in that case, which directly rebases your local `master` branch onto `upstream/master`.
Do not use plain `git pull` or `git merge` commands, as they do not preserve a linear commit history.
See also [this tutorial](https://www.atlassian.com/git/tutorials/merging-vs-rebasing) to learn more about `git rebase` vs `git merge`.

## Dealing with conflicts after a rebase

If a rebase fails because of conflicts between your changes and the
code you are rebasing to then git will leave your working directories
in a bit of a mess and expect you to fix it. Often the conflict is
simple (eg you and someone else added a new routine at the same place
in the file) and resolution is simple (have both in the new
output). Sometimes there is more to untangle if different changes were
done to the same routine. In either case git has marked that you are
in a conflict state and work is needed before you can go back to using
your local git tree as usual.

The git output actually describes what to do (once you are used to how
to read it). For example:

```console
$ git rebase master
First, rewinding head to replay your work on top of it...
Applying: [util][pystyle] Clean Python style in single file tools
Using index info to reconstruct a base tree...
M       util/diff_generated_util_output.py
M       util/build_docs.py
Falling back to patching base and 3-way merge...
Auto-merging util/build_docs.py
CONFLICT (content): Merge conflict in util/build_docs.py
Auto-merging util/diff_generated_util_output.py
error: Failed to merge in the changes.
Patch failed at 0001 [util][pystyle] Clean Python style in single file tools
Use 'git am --show-current-patch' to see the failed patch

Resolve all conflicts manually, mark them as resolved with
"git add/rm <conflicted_files>", then run "git rebase --continue".
You can instead skip this commit: run "git rebase --skip".
To abort and get back to the state before "git rebase", run "git rebase --abort".
```

The last line of this gives the ultimate out. You can abort the rebase
and figure some other way to proceed. As it says, this is done with:

```console
$ git rebase --abort
```

After executing this command you are back to a clean tree with your
changes intact, but they are still based on whatever the earlier state
of the repository was. Normally you will have to resolve the conflict
sometime, but the escape hatch can be useful if you don't have time
immediately!

In the normal case, read the output to find the file with the
problem. In this case `Merge conflict in util/build_docs.py` (The merge
of `util/diff_generated_util_output.py` was successful even though it
is mentioned in the middle of what looks like error output.)

If the file is opened with an editor the points at which there are
conflicts will have diff-style change information embedded in to them. For example:

```console
<<<<<<< HEAD
import livereload

import docgen.generate
=======
import docgen
import livereload
>>>>>>> [util][pystyle] Clean Python style in single file tools

```

In this case, the upstream repository's copy of `util/build_docs.py`
was modified to import `docgen.generate` rather than just `docgen`.
Because git couldn't automatically merge that change with the one
we made, it gave up. The code between `<<<<<<< HEAD` and `=======`
represents the change in the upstream repository and the code between
`=======` and `>>>>>>>` represents the change in our copy.

These lines have to be edited to get the correct merged
result and the diff markers removed. There may be multiple points in
the file where fixes are needed. Once all conflicts have been
addressed the file can be `git add`ed and once all files addressed the
rebase continued.


After the fix a status report will remind you where you are.

```console
$ git status
rebase in progress; onto cb85dc4
You are currently rebasing branch 'sastyle' on 'cb85dc4'.
  (all conflicts fixed: run "git rebase --continue")

Changes to be committed:
  (use "git reset HEAD <file>..." to unstage)

        modified:   diff_generated_util_output.py
        modified:   build_docs.py

Changes not staged for commit:
  (use "git add <file>..." to update what will be committed)
  (use "git checkout -- <file>..." to discard changes in working directory)

        modified:   build_docs.py

```

This gives the same instructions as the original merge failure message
and gives the comfort that all conflicts were fixed. To finish up you
need to follow the instructions.

```console
$ git add build_docs.py
$ git rebase --continue
Applying: [util][pystyle] Clean Python style in single file tools
```

If there were more than one patch outstanding (which isn't usual if
you use the `commit --amend` flow) then you may get subsequent
conflicts following the `rebase --continue` as other patches are
replayed.

You can check the rebase worked as expected by looking at the log to
see your branch is one commit (or more if there were more) ahead of
the `master` branch.

```console
$ git log

commit dd8721d2b1529c575c4aef988219fbf2ecd3fd1b (HEAD -> sastyle)
Author: Mark Hayter <mark.hayter@gmail.com>
Date:   Thu Jan 10 09:41:20 2019 +0000

    [util][pystyle] Clean Python style in single file tools

    Result of lintpy.py --fix on the diff and build_docs tools

    Tested with  ./diff_generated_util_output.py master

commit cb85dc42199e925ad09c45d33f6483a14764b93e (upstream/master, origin/master, origin/HEAD, master)

```

This shows the new commit (`HEAD` of the branch `sastyle`) and the
preceding commit is at the `master` branch (and at the same point as
`master` on both `origin` and `upstream` so everything is in sync at
`master`).

At this point the conflicts have been cleared and the local repository can
be used as expected.

You may find it useful to change the default for the way git reports conflicts in a file. See [Take the pain out of git conflict resolution: use diff3](https://blog.nilbus.com/take-the-pain-out-of-git-conflict-resolution-use-diff3/)

## Downloading a pull request to our local repo

With the commands below, you can checkout a pull request from the upstream repository to
your local repo.

```console
$ git fetch upstream pull/{ID}/head:{BRANCH_NAME}
$ # e.g. git fetch upstream pull/5/head:docgen_review
$ git checkout {BRANCH_NAME}
```

### Applying the pull request to the local commit

In some cases, you might need to apply a pull request on top of your local commits.
For instance, if one user prepares a verification test case and finds a bug.
Another user fixed it and created a pull request. The first user needs
to test if the fix works on the new verification environment.

In this case, it is recommanded to create a new branch on top of the local
commit and `rebase`, `cherry-pick`, or `merge` the pull request. Assume you have a branch
name 'br_localfix' which has an update for the verification environment. If the
other user created a pull request with ID #345, which has a fix for the
design bug, then you can apply the pull request into new branch
'br_localandremote' with the following three methods:

* The `rebase` method:

    ```console
    $ git checkout -b br_localandremote br_localfix
    $ git fetch upstream pull/345/head:pr_345
    $ git rebase pr_345
    ```

* The `cherry-pick` method:

    ```console
    $ git checkout -b br_localandremote br_localfix
    $ git fetch upstream pull/345/head:pr_345
    $ # find the commit ID from pr_345 that you want to merge: b345232342ff
    $ git cherry-pick b345232342ff
    ```
* The `merge` method:

    ```console
    $ git fetch upstream pull/345/head:pr_345
    $ git checkout -b br_localandremote br_localfix
    $ git merge pr_345
    ```

The `rebase` method is more convenient than `cherry-pick` if you have more
than one commit ID to merge. The `merge` method can only be used for local
testing as the upstream lowRISC repository does not allow merge commits.
Sometimes, applying other contributor's pull request can result in conflicts
if both commits have the same change. In that case, you should resolve the conflicts
and continue the merge. Section [Dealing with conflicts after a rebase](#dealing-with-conflicts-after-a-rebase)
has detailed guidance on how to solve conflicts.

## Creating updates on top of a pending pull request

In some cases, you might want to directly change other contributor's pull
request. The process is quite complicated so please follow the instruction below
step-by-step with caution:

* Step 1: Checkout the other pull request branch

    ```console
    $ git fetch upstream pull/{ID}/head:{BRANCH_NAME}
    $ git checkout {BRANCH_NAME}
    ```

* Step 2: Make necessary changes

    ```console
    $ git add...
    $ git commit -m "Add CFG examples to UART specification"
    ```

* Step 3: Create your GitHub branch for the pull request

    ```console
    $ git push -u origin {BRANCH_NAME}:<remote_branch_name>
    ```

    You can use any branch name for the pull request.
    If you want to the created branch name same as local branch name, this can
    simply be:

    ```console
    $ git push -u origin HEAD
    ```

* Step 4: Create a pull request into the other contributor's forked repository

    To create a pull request in other's forked repository, you can follow the same method
    as creating a pull request as section [Working in your local
    repo](#working-in-your-local-repo) explained in details.
    Once the other contributor's pull request is merged into the upstream
    repository, you will need to create a pull request in that upstream repository
    instead.

These are all the steps needed. Once your pull request is reviewed and merged, you will
be able to see that the commit is also visible in the original pull request.