This PR updates the `eval` crate to use workspace dependencies.

Also did a bit of cleanup of the `Cargo.toml`.

Release Notes:

- N/A

- [x] Buttons
- [x] Make it keyboard-driven

Co-authored-by: Anthony <anthony@zed.dev>

Release Notes:

- N/A

---------

Co-authored-by: Anthony Eid <hello@anthonyeid.me>

This PR adds support for the eval to read environment variables from a
`.env` file located in the `crates/eval` directory.

For instance, you can use it to set your Anthropic API key:

```
ANTHROPIC_API_KEY=<secret>
```

Release Notes:

- N/A

https://github.com/zed-industries/zed/security/dependabot reports a
number of vulnerabilities, attempt to fix them with the dependency bump.

Release Notes:

- N/A

This PR makes it so `workspace-hack` is ignored by `cargo xtask
package-conformity` when looking for non-workspace dependencies.

Also added `zed_extension_api` to the exclude list.

Release Notes:

- N/A

This PR fixes a small typo in a comment added in #29420.

Release Notes:

- N/A

This PR adds a no-op job for the "Run Agent Eval" workflow.

This aims to avoid marking the check as failed on a PR that does not
include the `run-eval` label.

Release Notes:

- N/A

This update generates a single self-contained .html file that shows an
overview of evaluation threads in the browser. It's useful for:

- Quickly reviewing results
- Sharing evaluation runs
- Debugging
- Comparing models (TBD)

Features:

- Export thread JSON from the UI
- Keyboard navigation (j/k or Ctrl + ←/→)
- Toggle between compact and full views

Generating the overview:

- `cargo run -p eval` will write this file in the run dir's root.
- Or you can call `cargo run -p eval --bin explorer` to generate it
without running evals.


Screenshot:

![image](https://github.com/user-attachments/assets/4ead71f6-da08-48ea-8fcb-2148d2e4b4db)


Release Notes:

- N/A

Part of https://github.com/zed-industries/zed/issues/16472

* Adds debug logging to everywhere near INSERT/UPDATEs in the DB

So something like 
`env RUST_LOG=debug,wasmtime_cranelift=off,cranelift_codegen=off,vte=off
cargo run` could be used to view these (current zlog seems to process
the exclusions odd, so not sure this is the optimal RUST_LOG line) can
be used to debug any further writes.

* Removes excessive window stack serialization

Previously, it serialized unconditionally every 100ms.
Now, only if the stack had changed, which is now check every 500ms.

* Removes excessive terminal serialization

Previously, it serialized its `cwd` on every `ItemEvent::UpdateTab`
which was caused by e.g. any character output.
Now, only if the `cwd` has changed at the next event processing time.

Release Notes:

- Fixed more excessive DB writes

Previously, all MCP tools would be completed regardless if they were
disabled/enabled for the profile. This meant that the "Write" profile
was always using all MCP tools, even if you disabled them in the
settings.

Now, when `enable_all_context_servers` is set to `true`, we will enable
all tools from all MCP servers by default but disable the ones that are
explicitly disabled for the profile.

Also fixes an issue where the tools would not show up as enabled when
using `enable_all_context_servers: true`

Release Notes:

- agent: Fix an issue where MCP tools could not be enabled/disabled

This PR removes the `language-models` feature flag.

This feature is already generally available, so we no longer need the
feature flag.

Release Notes:

- N/A

Before (scrolled state, bug):
<img width="392" alt="before - with scroll"
src="https://github.com/user-attachments/assets/5f62f050-41e0-4740-8f90-9822348eaa4b"
/>

After (scrolled state, bug fixed):
<img width="344" alt="after - with scroll"
src="https://github.com/user-attachments/assets/33003358-0009-4748-8a6e-642158114b82"
/>

Before (without scrolled state, as it is):
<img width="541" alt="before - without scroll"
src="https://github.com/user-attachments/assets/42487d61-7f7c-49a7-a087-da7faf5a0a89"
/>

After (without scrolled state, as it is):
<img width="462" alt="after - without scroll"
src="https://github.com/user-attachments/assets/738a4d24-3a89-466b-8976-2bf47cfeb0f5"
/>

cc @danilo-leal 

Release Notes:

- N/A

Release Notes:

- agent: Improve MCP tools compatibility with Gemini models

Follow-up of https://github.com/zed-industries/zed/pull/29274

Release Notes:

- N/A

Closes #29020

Release Notes:

- assistant: Fix issue when using inline assistant with Gemini models

In the process of implementing this I learned that you can also hit
escape to clear the query which is a decent workaround, but I think this
behavior more closely matches expectations. For example when you run the
"focus search" actions, those select the query.

Release Notes:

- N/A

The ideal solution here would be the ability to pick a default remote
the first time you click on a PR or commit link from a blame, and then
store that state in the repo or project and allow you to change it
somehow.

Because that's complicated, and because the vast majority of users
follow the convention of using `upstream` and `origin`, this change just
adds `upstream` as a possible remote that takes precedence for
generating links. I've sometimes seen `origin` and `fork` used for the
same purposes, which will still work fine with this change.

Here are some sources recommending the `upstream`/`origin` convention:
-
https://www.atlassian.com/git/tutorials/comparing-workflows/forking-workflow
-
https://github.blog/open-source/git/git-2-5-including-multiple-worktrees-and-triangular-workflows/
- https://cli.github.com/manual/gh_repo_fork

The fact that the github cli renames them to those when you `gh repo
fork` is pretty strong evidence that it's worth supporting them even if
users can set arbitrary remote names or could actually want to open a PR
link on their fork.

Resolves #13511

Release Notes:

- Git blame links now prefer the `upstream` remote over `origin` if it
exists.

This PR adds the `FeatureFlag` suffix to the feature flag types that
were missing them.

This makes the names easier to search in the codebase.

Release Notes:

- N/A

This PR removes the `remoting` feature flag.

The feature is shipped, and we aren't referencing the flag anywhere
anymore.

Release Notes:

- N/A

This PR updates the Zed provider to use the `POST /completions`
endpoint.

There is no functional difference from `POST /completion`, but the
pluralized version reads better.

Release Notes:

- N/A

Realized after merging #29233 that this behavior is desired

Release Notes:

- N/A

This PR removes two fields from JSON schemas (`$schema` and `title`),
which are not expected by any model provider, but were spuriously
included by our JSON schema library, `schemars`.

These added noise to requests and cost wasted input tokens.

### Old

```json
{
  "$schema": "http://json-schema.org/draft-07/schema#",
  "title": "FetchToolInput",
  "type": "object",
  "required": [
    "url"
  ],
  "properties": {
    "url": {
      "description": "The URL to fetch.",
      "type": "string"
    }
  }
}
```

### New:

```json
{
  "properties": {
    "url": {
      "description": "The URL to fetch.",
      "type": "string"
    }
  },
  "required": [
    "url"
  ],
  "type": "object"
}
```

- N/A

Simplifies the data structures involved in agent context by removing
caching and limiting the use of ContextId:

* `AssistantContext` enum is now like an ID / handle to context that
does not need to be updated. `ContextId` still exists but is only used
for generating unique `ElementId`.
* `ContextStore` has a `IndexMap<ContextSetEntry>`. Only need to keep a
`HashSet<ThreadId>` consistent with it. `ContextSetEntry` is a newtype
wrapper around `AssistantContext` which implements eq / hash on a subset
of fields.
* Thread `Message` directly stores its context.

Fixes the following bugs:

* If a context entry is removed from the strip and added again, it was
reincluded in the next message.
* Clicking file context in the thread that has been removed from the
context strip didn't jump to the file.
* Refresh of directory context didn't reflect added / removed files.
* Deleted directories would remain in the message editor context strip.
* Token counting requests didn't include image context.
* File, directory, and symbol context deduplication relied on
`ProjectPath` for identity, and so didn't handle renames.
* Symbol context line numbers didn't update when shifted

Known bugs (not fixed):

* Deleting a directory causes it to disappear from messages in threads.
Fixing this in a nice way is tricky. One easy fix is to store the
original path and show that on deletion. It's weird that deletion would
cause the name to "revert", though. Another possibility would be to
snapshot context metadata on add (ala `AddedContext`), and keep that
around despite deletion.

Release Notes:

- N/A

cc @maxbrunsfeld 

Release Notes:

- N/A

Release Notes:

- N/A

---------

Co-authored-by: Max <max@zed.dev>
Co-authored-by: Max Brunsfeld <maxbrunsfeld@gmail.com>

This fixes a bug where Zed wasn't closable via ctl-c in the shell it was
spawned in after starting a debug adapter

Release Notes:

- N/A

Co-authored-by: Conrad Irwin <conrad.irwin@gmail.com>

- **debug-terminal**
- **Use terminal inside debugger to spawn commands**

Closes #ISSUE

Release Notes:

- N/A

WIP!

In light of having more control over blame popover from editor.

This fixes: https://github.com/zed-industries/zed/issues/28645,
https://github.com/zed-industries/zed/issues/26304

- [x] Initial rendering
- [x] Handle smart positioning (edge detection, etc)
- [x] Delayed hovering, release, etc
- [x] Test blame message selection
- [x] Fix tagged issues

Release Notes:

- Git inline blame popover now dismisses when the cursor is moved, the
editor is scrolled, or the command palette is opened.

There's probably more to do to fully make the transition, and we'll
still debate a bit internally whether this is the name, but just opening
this PR up now for visibility.

Release Notes:

- N/A

Release Notes:

- N/A

Fixes a regression introduced in #29322

Release Notes:

- N/A

Co-authored-by: Agus Zubiaga <hi@aguz.me>

#29354 introduced a bug where we would append tool uses to the last
assistant message even if it was from a previous request.

Release Notes:

- N/A

Co-authored-by: Bennet Bo Fenner <bennetbo@gmx.de>

Add deepseek-v3 max token length for ollama

Release Notes:

- N/A

Release Notes:

- N/A

We used to insert empty user messages into the `Thread::messages` `Vec`
when tools finished running and then we would attach the results when
creating the request. This approach was very easy to mess up during
state handling, leading to empty user messages displayed in the
conversation and API failures.

Instead, we will no longer insert actual user messages for tool results
to the `Thread`, and will only do this on the fly when creating the
model request. This simplifies a lot of code and show fix the mentioned
errors.

Release Notes:

- agent: Improve reliability of LLM requests when including tool results

---------

Co-authored-by: Bennet Bo Fenner <bennetbo@gmx.de>
Co-authored-by: Oleksiy Syvokon <oleksiy.syvokon@gmail.com>

This PR removes the list of supported countries from the `anthropic`
crate, as it is no longer referenced in this repo.

Release Notes:

- N/A

This PR removes the list of supported countries from the `google_ai`
crate, as it is no longer referenced in this repo.

Release Notes:

- N/A

This PR removes the list of supported countries from the `open_ai`
crate, as it is no longer referenced in this repo.

Release Notes:

- N/A

The known issue with `linked_edits` seems to be fixed in this PR:
https://github.com/elm-tooling/elm-language-server/pull/1364. This PR
removes the section from Zeds documentation to avoid confusion.

Release Notes:

- Remove known issues section from Elm documentation.

Follow-up to https://github.com/zed-industries/zed/pull/29165 where the
user message design is simplified even more. The edit button is not
visible anymore, and you can click on the whole message block to edit a
message.

Release Notes:

- N/A

This PR removes the `RateLimiter` from the collab codebase, as it is no
longer used.

Release Notes:

- N/A

Closes: https://github.com/zed-industries/zed/issues/24501

This has been broken for a while on linux (at least since Feb 8th!) for Assistant1.
It is also broken for Text Threads in Assitant2 (on macos and linux).

This should fix both.

Potentially related:
- https://github.com/zed-industries/zed/pull/29107

Release Notes:

- Fix for `ctrl-enter` shortcut in Assistant text threads incorrectly
opening inline assist instead of triggering Send.

Co-authored-by: Conrad Irwin <conrad@zed.dev>

This PR makes collab return the current plan based on subscription
status instead of based on the staff bit.

Release Notes:

- N/A

Closes https://github.com/zed-industries/zed/issues/29249

Release Notes:

- Allowed creating entries when nothing is selected in the project panel

cc @notpeter

Before this change we used our own copy of `cx.key_context()` when
matching.
This led to races where the context queried could be either before (or
after) the
context used in dispatching.

To avoid the race, gpui now passes out the context stack actually used
instead.

Release Notes:

- Fixed a bug where the Key Context View could show the incorrect
context,
  causing confusing results.

Closes #28135
Closes #4388
Closes #28136

Release Notes:

- diagnostics: Show the diagnostic code if available

---------

Co-authored-by: Neo Nie <nihgwu@live.com>
Co-authored-by: Zed AI <ai+claude-3.7@zed.dev>

This is to enable alternative streaming solutions at the application
layer. I'm not sure we really should have performed parsing of the input
at this layer. Either way I want to experiment with streaming approaches
in a separate crate on a branch, and this will help.

/cc @maxdeviant @bennetbo @rtfeldman

Closes #ISSUE

Release Notes:

- N/A

Interesting things about this example:
* It's a useful, non-trivial change I made with the agent in Tree-sitter
* It runs fast
* It frequently showcases edit file errors
* It occasionally completely errors out due to errors parsing tool call
input JSON

Release Notes:

- N/A

This PR wires the counting of Google AI tokens back up.

It now goes through the LLM service instead of collab's RPC.

Still only available for Zed staff.

Release Notes:

- N/A

This PR significantly improves the quality of the initial file search
that occurs when the model doesn't yet know the full path to a file it
needs to read/edit.

Previously, the assertions in file_search often failed on main as the
model attempted to guess full file paths. On this branch, it reliably
calls `find_path` (previously `path_search`) before reading files.

After getting the model to find paths first, I noticed it would try
using `grep` instead of `path_search`. This motivated renaming
`path_search` to `find_path` (continuing the analogy to unix commands)
and adding system prompt instructions about proper tool selection.

Note: I know the command is just called `find`, but that seemed too
general.

In my eval runs, the `file_search` example improved from 40% ± 10% to
98% ± 2%. The only assertion I'm seeing occasionally fail is "glob
starts with `**` or project". We can probably add some instructions in
that regard.

Release Notes:

- N/A