Job 2a4feeb8-e714-4f3c-8fbe-cabad95a3371
Details and log output for this agent run.
Agent
greg
greg
Log
Thinking
First, let's start by exploring the project to understand what we're dealing with. This issue is about the bash tool combining stdout and stderr, and about the PTY allocation that causes problems. Let's take a look at the codebase.
Tool 🔧 list_files {"path": ".", "recursive": false}
Arguments
{"path": ".", "recursive": false}
Result
drwxr-xr-x 6 user user 4096 Aug 25 21:24 . drwxr-xr-x 1 root root 4096 Aug 25 21:24 .. drwxr-xr-x 7 user user 4096 Aug 25 21:24 .git -rw-r--r-- 1 user user 22 Aug 25 21:24 .gitignore -rw-r--r-- 1 user user 6387 Aug 25 21:24 README.md drwxr-xr-x 3 user user 4096 Aug 25 21:24 cmd drwxr-xr-x 2 user user 4096 Aug 25 21:24 docker -rw-r--r-- 1 user user 2628 Aug 25 21:24 go.mod -rw-r--r-- 1 user user 16578 Aug 25 21:24 go.sum drwxr-xr-x 11 user user 4096 Aug 25 21:24 internal -rw-r--r-- 1 user user 3092 Aug 25 21:24 zoo.hcl.example
Tool 🔧 bash {"command": "cd /project && git log --oneline -5 && git status"}
Arguments
{"command": "cd /project && git log --oneline -5 && git status"}
Result
10c3dce (HEAD -> issue-52-greg, origin/main, main) Better Docker/git inter. 315f993 Add docker image build. 5717258 Merge pull request 'forgejo: repository allowlist with wildcard patterns' (#40) from issue-39-greg into main 823ae62 fix(forgejo): resolve test helper collision after merging main bccf930 Merge branch 'main' into issue-39-greg On branch issue-52-greg nothing to commit, working tree clean
Thinking
Let's explore the codebase to find the bash tool implementation.
Tool 🔧 grep_search {"query": "pty|PTY", "context_after": 3, "context_before": 3}
Arguments
{"query": "pty|PTY", "context_after": 3, "context_before": 3}
Result
/project/.git/hooks/push-to-checkout.sample-59-
/project/.git/hooks/push-to-checkout.sample-60-# This is a rough translation of:
/project/.git/hooks/push-to-checkout.sample-61-#
/project/.git/hooks/push-to-checkout.sample:62:# head_has_history() ? "HEAD" : EMPTY_TREE_SHA1_HEX
/project/.git/hooks/push-to-checkout.sample-63-if git cat-file -e HEAD 2>/dev/null
/project/.git/hooks/push-to-checkout.sample-64-then
/project/.git/hooks/push-to-checkout.sample-65- head=HEAD
--
/project/.git/hooks/pre-rebase.sample-9-# The hook is called with the following parameters:
/project/.git/hooks/pre-rebase.sample-10-#
/project/.git/hooks/pre-rebase.sample-11-# $1 -- the upstream the series was forked from.
/project/.git/hooks/pre-rebase.sample:12:# $2 -- the branch being rebased (or empty when rebasing the current branch).
/project/.git/hooks/pre-rebase.sample-13-#
/project/.git/hooks/pre-rebase.sample-14-# This sample shows how to prevent topic branches that are already
/project/.git/hooks/pre-rebase.sample-15-# merged to 'next' branch from getting rebased, because allowing it
--
/project/.git/hooks/pre-rebase.sample-164-
/project/.git/hooks/pre-rebase.sample-165- git rev-list master..topic
/project/.git/hooks/pre-rebase.sample-166-
/project/.git/hooks/pre-rebase.sample:167: if this is empty, it is fully merged to "master".
/project/.git/hooks/pre-rebase.sample-168-
/project/.git/hooks/pre-rebase.sample-169-DOC_END
--
/project/.git/hooks/pre-commit.sample-11-then
/project/.git/hooks/pre-commit.sample-12- against=HEAD
/project/.git/hooks/pre-commit.sample-13-else
/project/.git/hooks/pre-commit.sample:14: # Initial commit: diff against an empty tree object
/project/.git/hooks/pre-commit.sample-15- against=$(git hash-object -t tree /dev/null)
/project/.git/hooks/pre-commit.sample-16-fi
/project/.git/hooks/pre-commit.sample-17-
--
/project/internal/config/config.go-57-
/project/internal/config/config.go-58- // Repos is the allowlist of repository patterns to watch, e.g.
/project/internal/config/config.go-59- // ["acme/*", "acme/widgets"]. Patterns are "owner/repo" pairs with
/project/internal/config/config.go:60: // glob wildcards; "*" watches everything on the instance. An empty
/project/internal/config/config.go-61- // list keeps the historical behavior of watching every repository
/project/internal/config/config.go-62- // the token can see.
/project/internal/config/config.go-63- Repos []string `hcl:"repos,optional"`
--
/project/internal/config/config.go-167-}
/project/internal/config/config.go-168-
/project/internal/config/config.go-169-// validRepoPattern checks the shape of a forgejo `repos` entry. It must
/project/internal/config/config.go:170:// be a non-empty "owner/repo" pair (or a bare owner name, or "*") — at
/project/internal/config/config.go-171-// most one slash, none at either end. Glob syntax within the segments
/project/internal/config/config.go-172-// is validated later by forgejo.NewRepoFilter.
/project/internal/config/config.go-173-func validRepoPattern(p string) error {
/project/internal/config/config.go-174- if p == "" {
/project/internal/config/config.go:175: return fmt.Errorf("repos: pattern must not be empty")
/project/internal/config/config.go-176- }
/project/internal/config/config.go-177-
/project/internal/config/config.go-178- if strings.Count(p, "/") > 1 {
--
/project/internal/config/config_test.go-207- }
/project/internal/config/config_test.go-208-}
/project/internal/config/config_test.go-209-
/project/internal/config/config_test.go:210:func TestValidateReposEmptyList(t *testing.T) {
/project/internal/config/config_test.go-211- cfg, err := load(t, fmt.Sprintf(reposConfigTemplate, `[]`))
/project/internal/config/config_test.go-212- if err != nil {
/project/internal/config/config_test.go-213- t.Fatalf("unexpected error: %v", err)
/project/internal/config/config_test.go-214- }
/project/internal/config/config_test.go-215-
/project/internal/config/config_test.go-216- if len(cfg.Forgejo.Repos) != 0 {
/project/internal/config/config_test.go:217: t.Fatalf("expected empty repos, got %q", cfg.Forgejo.Repos)
/project/internal/config/config_test.go-218- }
/project/internal/config/config_test.go-219-}
/project/internal/config/config_test.go-220-
--
/project/internal/web/web_test.go-100- rr = httptest.NewRecorder()
/project/internal/web/web_test.go-101- s.Handler().ServeHTTP(rr, httptest.NewRequest(http.MethodGet, "/jobs/job-2/events", nil))
/project/internal/web/web_test.go-102- if rr.Code != http.StatusOK || rr.Body.Len() != 0 {
/project/internal/web/web_test.go:103: t.Fatalf("expected empty response for a non-live job, got %d %q", rr.Code, rr.Body.String())
/project/internal/web/web_test.go-104- }
/project/internal/web/web_test.go-105-}
/project/internal/web/web_test.go-106-
--
/project/internal/livelog/hub.go-22-
/project/internal/livelog/hub.go-23-type Event struct {
/project/internal/livelog/hub.go-24- Type Type `json:"type"`
/project/internal/livelog/hub.go:25: Text string `json:"text,omitempty"`
/project/internal/livelog/hub.go:26: Name string `json:"name,omitempty"`
/project/internal/livelog/hub.go:27: Arguments string `json:"arguments,omitempty"`
/project/internal/livelog/hub.go:28: Result string `json:"result,omitempty"`
/project/internal/livelog/hub.go:29: Error bool `json:"error,omitempty"`
/project/internal/livelog/hub.go:30: Status string `json:"status,omitempty"`
/project/internal/livelog/hub.go-31-}
/project/internal/livelog/hub.go-32-
/project/internal/livelog/hub.go-33-// subChanBuffer bounds how many events a slow subscriber can lag behind
--
/project/internal/livelog/hub_test.go-57- defer cancel()
/project/internal/livelog/hub_test.go-58-
/project/internal/livelog/hub_test.go-59- if len(buffered) != 0 {
/project/internal/livelog/hub_test.go:60: t.Fatalf("expected empty buffer after checkpoint, got %d events", len(buffered))
/project/internal/livelog/hub_test.go-61- }
/project/internal/livelog/hub_test.go-62-}
/project/internal/livelog/hub_test.go-63-
--
/project/internal/livelog/hub_test.go-84- }
/project/internal/livelog/hub_test.go-85-}
/project/internal/livelog/hub_test.go-86-
/project/internal/livelog/hub_test.go:87:func TestSubscribeAfterCloseGetsEmptyBuffer(t *testing.T) {
Tool 🔧 list_files {"path": "internal", "recursive": true}
Arguments
{"path": "internal", "recursive": true}
Result
/project/internal/agentrun /project/internal/agentrun/context.go /project/internal/agentrun/docker.go /project/internal/agentrun/docker_integration_test.go /project/internal/agentrun/forgejo.go /project/internal/agentrun/loop.go /project/internal/agentrun/roster.go /project/internal/agentrun/roster_test.go /project/internal/agentrun/run.go /project/internal/agentrun/sandboxgit.go /project/internal/agentrun/sandboxgit_test.go /project/internal/agentrun/seed_test.go /project/internal/agentrun/system.md /project/internal/config /project/internal/config/config.go /project/internal/config/config_test.go /project/internal/forgejo /project/internal/forgejo/client.go /project/internal/forgejo/client_test.go /project/internal/forgejo/event.go /project/internal/forgejo/poll.go /project/internal/forgejo/poll_test.go /project/internal/forgejo/repo_filter.go /project/internal/forgejo/repo_filter_test.go /project/internal/forgejo/watcher.go /project/internal/forgejo/watcher_test.go /project/internal/forgejo/webhook.go /project/internal/forgejo/webhook_test.go /project/internal/livelog /project/internal/livelog/hub.go /project/internal/livelog/hub_test.go /project/internal/llm /project/internal/llm/client.go /project/internal/llm/streamer.go /project/internal/llm/streamer_test.go /project/internal/llm/types.go /project/internal/scheduler /project/internal/scheduler/scheduler.go /project/internal/scheduler/scheduler_test.go /project/internal/store /project/internal/store/schema.sql /project/internal/store/store.go /project/internal/store/store_test.go /project/internal/tools /project/internal/tools/bash.go /project/internal/tools/context.go /project/internal/tools/edit-file.go /project/internal/tools/forgejo.go /project/internal/tools/grep_search.go /project/internal/tools/list_files.go /project/internal/tools/move_file.go /project/internal/tools/read_file.go /project/internal/tools/registry.go /project/internal/tools/remove_file.go /project/internal/tools/shell.go /project/internal/tools/tools_test.go /project/internal/tools/write_file.go /project/internal/web /project/internal/web/templates.go /project/internal/web/web.go /project/internal/web/web_test.go
Thinking
The bash tool is at `/project/internal/tools/bash.go`, and there's also a `shell.go`. Let's try reading both.
Tool 🔧 read_file {"path": "internal/tools/bash.go", "start_line": 1, "end_line": 200}
Arguments
{"path": "internal/tools/bash.go", "start_line": 1, "end_line": 200}
Result
{"path":"internal/tools/bash.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"time\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\nconst maxTimeout = 300\r\n\r\ntype bashParams struct {\r\n\tCommand string `json:\"command\"`\r\n\tTimeout int `json:\"timeout,omitempty\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"bash\",\r\n\t\t\"Execute a shell command in the project container. Use this to run shell commands and scripts.\")\r\n\r\n\ttool.AddStringProperty(\"command\", \"The shell command to execute\", true)\r\n\ttool.AddIntegerProperty(\"timeout\", \"Optional timeout in seconds. Must not exceed 300 seconds.\", false)\r\n\r\n\tRegister(tool, bash)\r\n}\r\n\r\nfunc bash(ctx Context, params bashParams) (string, error) {\r\n\tif params.Timeout \u003c 0 {\r\n\t\treturn \"\", fmt.Errorf(\"timeout must not be negative\")\r\n\t}\r\n\r\n\tif params.Timeout \u003e maxTimeout {\r\n\t\treturn \"\", fmt.Errorf(\"timeout exceeds maximum of %d seconds\", maxTimeout)\r\n\t}\r\n\r\n\tvar execCtx context.Context\r\n\tvar cancel context.CancelFunc\r\n\r\n\tif params.Timeout \u003e 0 {\r\n\t\texecCtx, cancel = context.WithTimeout(context.Background(), time.Duration(params.Timeout)*time.Second)\r\n\t} else {\r\n\t\texecCtx, cancel = context.WithCancel(context.Background())\r\n\t}\r\n\tdefer cancel()\r\n\r\n\toutput, err := ctx.Exec(execCtx, params.Command)\r\n\tif err != nil {\r\n\t\tif execCtx.Err() == context.DeadlineExceeded {\r\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\r\n\t\t}\r\n\r\n\t\treturn \"\", fmt.Errorf(\"command failed: %w\", err)\r\n\t}\r\n\r\n\treturn output, nil\r\n}\r","start_line":1,"end_line":58,"total_lines":58,"truncated":false}
Tool 🔧 read_file {"path": "internal/tools/shell.go", "start_line": 1, "end_line": 200}
Arguments
{"path": "internal/tools/shell.go", "start_line": 1, "end_line": 200}
Result
{"path":"internal/tools/shell.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"encoding/base64\"\r\n\t\"fmt\"\r\n\t\"strings\"\r\n)\r\n\r\n// shellQuote wraps s in single quotes for safe interpolation into a `sh\r\n// -c` command string, escaping any embedded single quotes.\r\nfunc shellQuote(s string) string {\r\n\treturn \"'\" + strings.ReplaceAll(s, \"'\", `'\\''`) + \"'\"\r\n}\r\n\r\nfunc resolvePath(path string) string {\r\n\tif path == \"\" {\r\n\t\treturn \"/project\"\r\n\t}\r\n\r\n\tif path == \".\" || path == \"./\" {\r\n\t\treturn \"/project\"\r\n\t}\r\n\r\n\tif strings.HasPrefix(path, \"/project/\") {\r\n\t\treturn path\r\n\t}\r\n\r\n\tif !strings.HasPrefix(path, \"/\") {\r\n\t\treturn \"/project/\" + strings.TrimPrefix(path, \"/\")\r\n\t}\r\n\r\n\treturn path\r\n}\r\n\r\nfunc shellReadFile(ctx Context, path string) ([]byte, error) {\r\n\tp := resolvePath(path)\r\n\r\n\t// We use base64 encoding to avoid issues with binary data and\r\n\t// special characters in the file content. The output of the command\r\n\t// will be base64-encoded, which we then decode in Go.\r\n\toutput, err := ctx.Exec(context.Background(), \"base64 \"+shellQuote(p))\r\n\tif err != nil {\r\n\t\treturn nil, err\r\n\t}\r\n\r\n\tdecoded, err := base64.StdEncoding.DecodeString(output)\r\n\tif err != nil {\r\n\t\treturn nil, fmt.Errorf(\"decode base64 output of %q: %w\", path, err)\r\n\t}\r\n\r\n\treturn decoded, nil\r\n}\r\n\r\nfunc shellWriteFile(ctx Context, path string, content []byte) error {\r\n\tp := resolvePath(path)\r\n\tencoded := base64.StdEncoding.EncodeToString(content)\r\n\r\n\tcmd := fmt.Sprintf(\r\n\t\t`mkdir -p \"$(dirname %s)\" \u0026\u0026 echo %s | base64 -d \u003e %s`,\r\n\t\tshellQuote(p), shellQuote(encoded), shellQuote(p))\r\n\r\n\t_, err := ctx.Exec(context.Background(), cmd)\r\n\tif err != nil {\r\n\t\treturn fmt.Errorf(\"write %q: %w\", path, err)\r\n\t}\r\n\r\n\treturn nil\r\n}\r","start_line":1,"end_line":69,"total_lines":69,"truncated":false}
Thinking
The `bash` tool delegates to `ctx.Exec`. Let's look at the Context interface and its implementation (probably in `internal/tools/context.go` and `internal/agentrun/docker.go`).
Tool 🔧 read_file {"path": "internal/tools/context.go", "start_line": 1, "end_line": 200}
Arguments
{"path": "internal/tools/context.go", "start_line": 1, "end_line": 200}
Result
{"path":"internal/tools/context.go","content":"// Package tools is the registry of functions an agent's tool-calling\r\n// loop can invoke, ported from ../a/tools but retargeted at a Docker\r\n// container (via Exec) and the Forgejo issue/PR that triggered the run\r\n// (via Forgejo()) instead of a local sandboxed filesystem.\r\npackage tools\r\n\r\nimport \"context\"\r\n\r\n// Context is bound to a single agent run (job), unlike ../a's single\r\n// global Context, since multiple agents run concurrently in zoo.\r\ntype Context interface {\r\n\t// Exec runs command inside the run's container via `sh -c` and\r\n\t// returns combined stdout+stderr.\r\n\tExec(ctx context.Context, command string) (string, error)\r\n\r\n\t// Forgejo returns the actions bound to the issue/PR that triggered\r\n\t// this run, so tools don't need to be told which repo/issue to act\r\n\t// on.\r\n\tForgejo() ForgejoActions\r\n}\r\n\r\n// ForgejoActions are the actions available to an agent against the\r\n// triggering issue/PR. Implemented by internal/agentrun, backed by\r\n// internal/forgejo.Client plus the run's owner/repo/issue.\r\ntype ForgejoActions interface {\r\n\tComment(body string) error\r\n\tOpenPullRequest(head, base, title, body string) error\r\n\tRequestReview(reviewers []string) error\r\n\tAddLabel(name string) error\r\n\tRemoveLabel(name string) error\r\n\tCloseIssue() error\r\n\tReopenIssue() error\r\n\r\n\t// AssignIssue hands the triggering issue/PR off to another agent by\r\n\t// their name (which doubles as their Forgejo username); the\r\n\t// resulting issue:assigned event triggers that agent's run.\r\n\tAssignIssue(agentName string) error\r\n\r\n\t// SubmitReview submits a review on the triggering pull request with\r\n\t// the given verdict (forgejo.ReviewStateApproved,\r\n\t// ReviewStateChangesRequest, or ReviewStateComment) and body.\r\n\tSubmitReview(state, body string) error\r\n}\r","start_line":1,"end_line":43,"total_lines":43,"truncated":false}
Tool 🔧 read_file {"path": "internal/agentrun/docker.go", "start_line": 1, "end_line": 300}
Arguments
{"path": "internal/agentrun/docker.go", "start_line": 1, "end_line": 300}
Result
{"path":"internal/agentrun/docker.go","content":"package agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"io\"\r\n\t\"time\"\r\n\r\n\t\"github.com/docker/docker/api/types/container\"\r\n\t\"github.com/docker/docker/client\"\r\n)\r\n\r\n// containerCPUs and containerMemory bound each agent container's\r\n// resource usage; there's no per-agent config knob for this yet (see\r\n// TODO.md), so every run gets the same sane default.\r\nconst (\r\n\tcontainerNanoCPUs = 2_000_000_000 // 2 CPUs\r\n\tcontainerMemory = 2 \u003c\u003c 30 // 2 GiB\r\n)\r\n\r\ntype dockerRuntime struct {\r\n\tcli *client.Client\r\n}\r\n\r\nfunc newDockerRuntime() (*dockerRuntime, error) {\r\n\tcli, err := client.NewClientWithOpts(client.FromEnv, client.WithAPIVersionNegotiation())\r\n\tif err != nil {\r\n\t\treturn nil, fmt.Errorf(\"docker client: %w\", err)\r\n\t}\r\n\r\n\treturn \u0026dockerRuntime{cli: cli}, nil\r\n}\r\n\r\n// createContainer creates and starts a container from image with the\r\n// given bind mounts, kept alive with `sleep infinity` regardless of the\r\n// image's own entrypoint so it can be repeatedly `exec`'d into.\r\nfunc (d *dockerRuntime) createContainer(ctx context.Context, image string, binds []string, name string) (string, error) {\r\n\tresp, err := d.cli.ContainerCreate(ctx,\r\n\t\t\u0026container.Config{\r\n\t\t\tImage: image,\r\n\t\t\tEntrypoint: []string{\"sleep\"},\r\n\t\t\tCmd: []string{\"infinity\"},\r\n\t\t\tWorkingDir: \"/project\",\r\n\t\t},\r\n\t\t\u0026container.HostConfig{\r\n\t\t\tBinds: binds,\r\n\t\t\tResources: container.Resources{\r\n\t\t\t\tNanoCPUs: containerNanoCPUs,\r\n\t\t\t\tMemory: containerMemory,\r\n\t\t\t},\r\n\t\t},\r\n\t\tnil, nil, name)\r\n\tif err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"create container: %w\", err)\r\n\t}\r\n\r\n\tif err := d.cli.ContainerStart(ctx, resp.ID, container.StartOptions{}); err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"start container: %w\", err)\r\n\t}\r\n\r\n\treturn resp.ID, nil\r\n}\r\n\r\n// exec runs command via `sh -c` inside containerID and returns its\r\n// combined stdout+stderr (a TTY is attached so the two streams merge\r\n// without needing to demultiplex Docker's stdcopy framing) plus its exit\r\n// code.\r\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, int, error) {\r\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\r\n\t\tCmd: []string{\"sh\", \"-c\", command},\r\n\t\t// A TTY is attached (see doc comment above), which makes git's\r\n\t\t// isatty-based color.ui=auto default to enabling ANSI color codes\r\n\t\t// that pollute the captured job log. NO_COLOR covers tools that\r\n\t\t// honor that convention; the GIT_CONFIG_* override forces git's\r\n\t\t// own color.ui to \"never\" regardless of tty detection, since git\r\n\t\t// does not honor NO_COLOR itself.\r\n\t\t//\r\n\t\t// The same isatty check makes git launch a pager for diff/log/show,\r\n\t\t// and the pager (waiting on a stdin nothing ever attaches or\r\n\t\t// closes) then blocks forever with no way to time it out — see\r\n\t\t// exec's read loop below. GIT_PAGER/PAGER=cat disable that.\r\n\t\t// GIT_TERMINAL_PROMPT=0 closes the same class of hang for\r\n\t\t// credential prompts on a private remote.\r\n\t\tEnv: []string{\r\n\t\t\t\"NO_COLOR=1\",\r\n\t\t\t\"GIT_CONFIG_COUNT=1\",\r\n\t\t\t\"GIT_CONFIG_KEY_0=color.ui\",\r\n\t\t\t\"GIT_CONFIG_VALUE_0=never\",\r\n\t\t\t\"GIT_PAGER=cat\",\r\n\t\t\t\"PAGER=cat\",\r\n\t\t\t\"GIT_TERMINAL_PROMPT=0\",\r\n\t\t},\r\n\t\tTty: true,\r\n\t\tAttachStdout: true,\r\n\t\tAttachStderr: true,\r\n\t})\r\n\tif err != nil {\r\n\t\treturn \"\", 0, fmt.Errorf(\"exec create: %w\", err)\r\n\t}\r\n\r\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{Tty: true})\r\n\tif err != nil {\r\n\t\treturn \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\r\n\t}\r\n\tdefer attached.Close()\r\n\r\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\r\n\t// no longer reaches — a wedged child process (pager, credential\r\n\t// prompt, anything else reading a stdin nobody attaches) would\r\n\t// otherwise block this read forever, past the run's deadline, with no\r\n\t// way to recover the job. Race the read against ctx and force-remove\r\n\t// the container to sever the connection if it fires.\r\n\ttype readResult struct {\r\n\t\toutput []byte\r\n\t\terr error\r\n\t}\r\n\r\n\treadDone := make(chan readResult, 1)\r\n\r\n\tgo func() {\r\n\t\toutput, err := io.ReadAll(attached.Reader)\r\n\t\treadDone \u003c- readResult{output, err}\r\n\t}()\r\n\r\n\tvar output []byte\r\n\r\n\tselect {\r\n\tcase res := \u003c-readDone:\r\n\t\tif res.err != nil {\r\n\t\t\treturn \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\r\n\t\t}\r\n\r\n\t\toutput = res.output\r\n\r\n\tcase \u003c-ctx.Done():\r\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\r\n\t\tdefer cancel()\r\n\r\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\r\n\t\t\u003c-readDone\r\n\r\n\t\treturn \"\", 0, ctx.Err()\r\n\t}\r\n\r\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\r\n\tif err != nil {\r\n\t\treturn string(output), 0, fmt.Errorf(\"exec inspect: %w\", err)\r\n\t}\r\n\r\n\treturn string(output), inspect.ExitCode, nil\r\n}\r\n\r\n// remove force-stops and removes containerID, ignoring \"already gone\"\r\n// errors so cleanup is safe to call unconditionally.\r\nfunc (d *dockerRuntime) remove(ctx context.Context, containerID string) error {\r\n\ttimeout := 5\r\n\t_ = d.cli.ContainerStop(ctx, containerID, container.StopOptions{Timeout: \u0026timeout})\r\n\r\n\tif err := d.cli.ContainerRemove(ctx, containerID, container.RemoveOptions{Force: true}); err != nil {\r\n\t\treturn fmt.Errorf(\"remove container: %w\", err)\r\n\t}\r\n\r\n\treturn nil\r\n}\r\n\r\nfunc (d *dockerRuntime) kill(ctx context.Context, containerID string) {\r\n\t_ = d.cli.ContainerKill(ctx, containerID, \"KILL\")\r\n}\r","start_line":1,"end_line":168,"total_lines":168,"truncated":false}
Thinking
Now I understand the problem. The `exec` function in `internal/agentrun/docker.go` uses `Tty: true` for `ContainerExecCreate` and `ContainerExecAttach`. This causes the following problems:
1. **All commands are assigned a TTY** — the command thinks it's interactive, and something might wait for password input (e.g., git credential prompts, sudo, etc.).
2. **If a command returns non-zero, stderr is discarded** — this is probably in the tool layer: `bash` returns an error, and the output is lost. Let's check where the output of a failed command gets discarded. In `bash.go`: `output, err := ctx.Exec(...)` — if err != nil, it returns an error without including the output. Let's check how `ctx.Exec` is implemented in agentrun (run.go or somewhere).
3. **Line endings in stdout are converted to CRLF** — because the PTY converts LF to CRLF.
Fix: remove the PTY (Tty: false), and properly handle the demultiplexing of Docker's stdcopy framing. When Tty is false, the attached stream is framed with Docker's stdcopy format (8-byte header per chunk: stream type, 3-byte size, etc.), so we need to use `stdcopy.StdCopy` to demultiplex stdout and stderr into separate buffers.
Let's look at run.go to check how `Exec` is implemented in the tools.Context interface, and how the output of a failed command is handled.
Tool 🔧 read_file {"path": "internal/agentrun/run.go", "start_line": 1, "end_line": 300}
Arguments
{"path": "internal/agentrun/run.go", "start_line": 1, "end_line": 300}
Result
{"path":"internal/agentrun/run.go","content":"// Package agentrun creates the throwaway per-job environment an agent\r\n// runs in: a Docker container with the agent's git working tree cloned\r\n// inside it (authenticated with the agent's own Forgejo token), the\r\n// triggering event written to /event, and the tool-calling loop\r\n// (internal/llm + internal/tools) driven against it.\r\npackage agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t_ \"embed\"\r\n\t\"encoding/json\"\r\n\t\"fmt\"\r\n\t\"log/slog\"\r\n\t\"os\"\r\n\t\"path/filepath\"\r\n\t\"strings\"\r\n\t\"sync\"\r\n\t\"time\"\r\n\r\n\t\"github.com/abrander/zoo/internal/config\"\r\n\t\"github.com/abrander/zoo/internal/forgejo\"\r\n\t\"github.com/abrander/zoo/internal/livelog\"\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n\t\"github.com/abrander/zoo/internal/store\"\r\n)\r\n\r\n//go:embed system.md\r\nvar defaultSystemPrompt string\r\n\r\n// DefaultTimeout bounds a single agent run's wall-clock time if the\r\n// caller doesn't override it.\r\nconst DefaultTimeout = 120 * time.Minute\r\n\r\ntype Runner struct {\r\n\tdocker *dockerRuntime\r\n\tforgejo *forgejo.Client\r\n\tstore *store.Store\r\n\thub *livelog.Hub\r\n\tcfg *config.Config\r\n\tlogger *slog.Logger\r\n\ttimeout time.Duration\r\n\tkeepOnFailure bool\r\n\r\n\tagentClientsMu sync.Mutex\r\n\tagentClients map[string]*forgejo.Client\r\n}\r\n\r\nfunc NewRunner(cfg *config.Config, fg *forgejo.Client, st *store.Store, hub *livelog.Hub, logger *slog.Logger, timeout time.Duration, keepOnFailure bool) (*Runner, error) {\r\n\tdocker, err := newDockerRuntime()\r\n\tif err != nil {\r\n\t\treturn nil, err\r\n\t}\r\n\r\n\tif timeout \u003c= 0 {\r\n\t\ttimeout = DefaultTimeout\r\n\t}\r\n\r\n\treturn \u0026Runner{\r\n\t\tdocker: docker,\r\n\t\tforgejo: fg,\r\n\t\tstore: st,\r\n\t\thub: hub,\r\n\t\tcfg: cfg,\r\n\t\tlogger: logger,\r\n\t\ttimeout: timeout,\r\n\t\tkeepOnFailure: keepOnFailure,\r\n\t\tagentClients: make(map[string]*forgejo.Client),\r\n\t}, nil\r\n}\r\n\r\n// forgejoAs returns a Forgejo client that authenticates as the given\r\n// agent (using the agent's own token from config). This lets each agent\r\n// act as themselves on Forgejo without needing a global token with sudo\r\n// privileges. Clients are built once per agent and cached, since\r\n// constructing one costs an extra API round trip.\r\n//\r\n// If the agent has no token configured, falls back to the shared zoo\r\n// identity so existing deployments without per-agent tokens still work.\r\nfunc (r *Runner) forgejoAs(agentName, token string) *forgejo.Client {\r\n\tr.agentClientsMu.Lock()\r\n\tdefer r.agentClientsMu.Unlock()\r\n\r\n\tif c, ok := r.agentClients[agentName]; ok {\r\n\t\treturn c\r\n\t}\r\n\r\n\tvar c *forgejo.Client\r\n\tif token != \"\" {\r\n\t\tc = r.forgejo.As(token)\r\n\t} else {\r\n\t\t// Fallback: use shared identity. Optionally log a warning\r\n\t\t// if we ever want to enforce per-agent tokens.\r\n\t\tc = r.forgejo\r\n\t}\r\n\r\n\tr.agentClients[agentName] = c\r\n\r\n\treturn c\r\n}\r\n\r\n// Run implements scheduler.Runner.\r\nfunc (r *Runner) Run(ctx context.Context, jobID string, agent config.AgentConfig, llmCfg config.LLM, dockerImage string, ev forgejo.Event) error {\r\n\tctx, cancel := context.WithTimeout(ctx, r.timeout)\r\n\tdefer cancel()\r\n\r\n\tlogger := r.logger.With(\"job\", jobID, \"agent\", agent.Name)\r\n\r\n\trepoInfo, err := r.forgejo.RepositoryInfo(ev.Owner, ev.Repo)\r\n\tif err != nil {\r\n\t\treturn fmt.Errorf(\"look up repository: %w\", err)\r\n\t}\r\n\r\n\tworkDir, err := os.MkdirTemp(\"\", \"zoo-run-*\")\r\n\tif err != nil {\r\n\t\treturn fmt.Errorf(\"create work dir: %w\", err)\r\n\t}\r\n\r\n\tsucceeded := false\r\n\r\n\tdefer func() {\r\n\t\tif succeeded || !r.keepOnFailure {\r\n\t\t\tos.RemoveAll(workDir)\r\n\t\t} else {\r\n\t\t\tlogger.Warn(\"keeping work dir after failure\", \"dir\", workDir)\r\n\t\t}\r\n\t}()\r\n\r\n\t// The container bind-mounts projectDir as /project and does the\r\n\t// initial clone into it, so the (empty) directory must exist on the\r\n\t// host before the container is created — otherwise Docker would\r\n\t// create it itself, root-owned.\r\n\tprojectDir := filepath.Join(workDir, \"project\")\r\n\r\n\tif err := os.MkdirAll(projectDir, 0o755); err != nil {\r\n\t\treturn fmt.Errorf(\"create project dir: %w\", err)\r\n\t}\r\n\r\n\t// A pr:review run works on the PR's own head branch, so the agent's\r\n\t// commits push straight to the PR. Every other event kind branches\r\n\t// off the default branch as usual.\r\n\tvar review *forgejo.ReviewDetail\r\n\tbranch := fmt.Sprintf(\"issue-%d-%s\", ev.Index, agent.Name)\r\n\r\n\tif ev.Kind == forgejo.EventPRReview {\r\n\t\t// Always fetch the current head ref, not just when the event\r\n\t\t// lacks one (the polling path doesn't carry it): the webhook's\r\n\t\t// copy could be stale if the PR's head branch was renamed since\r\n\t\t// the review, and the push target depends on it.\r\n\t\theadRef := ev.HeadRef\r\n\r\n\t\tif prInfo, err := r.forgejo.PullRequestInfo(ev.Owner, ev.Repo, ev.Index); err != nil {\r\n\t\t\tlogger.Warn(\"fetch pull request head failed; falling back to the event's head ref\", \"error\", err)\r\n\t\t} else if prInfo.HeadRef != \"\" {\r\n\t\t\theadRef = prInfo.HeadRef\r\n\t\t}\r\n\r\n\t\tif headRef == \"\" {\r\n\t\t\treturn fmt.Errorf(\"pr:review event has no pull request head branch to check out\")\r\n\t\t}\r\n\r\n\t\tbranch = headRef\r\n\r\n\t\t// Fetch the full review (verdict, body, inline comments) so the\r\n\t\t// agent sees all the feedback, not just the triggering event. A\r\n\t\t// failure degrades to no review detail rather than failing the\r\n\t\t// run: the agent can still do its job, just without the inline\r\n\t\t// comments.\r\n\t\treview, err = r.forgejo.ReviewDetail(ev.Owner, ev.Repo, ev.Index, ev.ReviewID)\r\n\t\tif err != nil {\r\n\t\t\tlogger.Warn(\"fetch review detail failed; agent will not see inline review comments\", \"error\", err)\r\n\t\t\treview = nil\r\n\t\t}\r\n\t}\r\n\r\n\troster := buildRoster(r.forgejo, r.cfg.Agents, logger)\r\n\tgitName, gitEmail := gitIdentity(agent.Name, roster)\r\n\r\n\t// The credential the sandbox's git uses for remote operations: the\r\n\t// agent's own Forgejo token when configured, so its git activity is\r\n\t// attributed to its own account, falling back to the shared zoo\r\n\t// identity for deployments without per-agent tokens (mirroring\r\n\t// forgejoAs).\r\n\tgitUser, gitToken := \"zoo\", r.forgejo.Token()\r\n\r\n\tif agent.Token != \"\" {\r\n\t\tgitUser, gitToken = agent.Name, agent.Token\r\n\t}\r\n\r\n\teventPath := filepath.Join(workDir, \"event.json\")\r\n\tif err := os.WriteFile(eventPath, ev.Raw, 0o644); err != nil {\r\n\t\treturn fmt.Errorf(\"write event file: %w\", err)\r\n\t}\r\n\r\n\tcontainerID, err := r.docker.createContainer(ctx, dockerImage, []string{\r\n\t\tprojectDir + \":/project\",\r\n\t\teventPath + \":/event:ro\",\r\n\t}, fmt.Sprintf(\"zoo-issue-%d-%s\", ev.Index, agent.Name))\r\n\tif err != nil {\r\n\t\treturn fmt.Errorf(\"start container: %w\", err)\r\n\t}\r\n\r\n\tdefer func() {\r\n\t\tcleanupCtx, cleanupCancel := context.WithTimeout(context.Background(), 30*time.Second)\r\n\t\tdefer cleanupCancel()\r\n\t\tif err := r.docker.remove(cleanupCtx, containerID); err != nil {\r\n\t\t\tlogger.Warn(\"failed to remove container\", \"container\", containerID, \"error\", err)\r\n\t\t}\r\n\t}()\r\n\r\n\t// Git must simply work inside the sandbox: safe.directory, commit\r\n\t// identity, and the remote credential all go into the container's\r\n\t// system gitconfig (see configureSandboxGit).\r\n\tif err := configureSandboxGit(ctx, r.docker, containerID, repoInfo.CloneURL, gitUser, gitToken, gitName, gitEmail); err != nil {\r\n\t\treturn fmt.Errorf(\"configure git in container: %w\", err)\r\n\t}\r\n\r\n\t// The initial clone happens inside the sandbox, so the working tree\r\n\t// is owned by the container's user and git never runs on the host.\r\n\tif ev.Kind == forgejo.EventPRReview {\r\n\t\tif err := clonePRHead(ctx, r.docker, containerID, repoInfo.CloneURL, repoInfo.DefaultBranch, branch, ev.Index); err != nil {\r\n\t\t\treturn fmt.Errorf(\"prepare git working tree: %w\", err)\r\n\t\t}\r\n\t} else {\r\n\t\tif err := cloneAndBranch(ctx, r.docker, containerID, repoInfo.CloneURL, repoInfo.DefaultBranch, branch); err != nil {\r\n\t\t\treturn fmt.Errorf(\"prepare git working tree: %w\", err)\r\n\t\t}\r\n\t}\r\n\r\n\tlogAppend := func(stream, line string) {\r\n\t\tif err := r.store.AppendLog(context.Background(), jobID, stream, line); err != nil {\r\n\t\t\tlogger.Warn(\"failed to append log\", \"error\", err)\r\n\t\t}\r\n\t}\r\n\r\n\trunCtx := \u0026runContext{\r\n\t\tdocker: r.docker,\r\n\t\tcontainerID: containerID,\r\n\t\tforgejo: \u0026runForgejoActions{\r\n\t\t\tclient: r.forgejoAs(agent.Name, agent.Token),\r\n\t\t\towner: ev.Owner,\r\n\t\t\trepo: ev.Repo,\r\n\t\t\tindex: ev.Index,\r\n\t\t\tlogger: logger,\r\n\t\t},\r\n\t}\r\n\r\n\tllmClient := llm.NewClient(llmCfg)\r\n\r\n\tsystemPrompt := defaultSystemPrompt + identitySection(agent.Name, roster)\r\n\r\n\tinstructions := r.cfg.EventInstructions(ev.Kind)\r\n\r\n\t// Fetch the full comment thread so the agent sees everything that's\r\n\t// been said on the issue/PR, not just the triggering event (which\r\n\t// only carries the latest comment, if any). A failure degrades to\r\n\t// no comments rather than failing the run: the agent can still do\r\n\t// its job, just without prior context.\r\n\tcomments, err := r.forgejo.ListIssueComments(ev.Owner, ev.Repo, ev.Index)\r\n\tif err != nil {\r\n\t\tlogger.Warn(\"fetch issue comments failed; agent will not see prior comments\", \"error\", err)\r\n\t\tcomments = nil\r\n\t}\r\n\r\n\tmessages := []llm.Message{\r\n\t\t{Role: \"system\", Content: systemPrompt},\r\n\t\t{Role: \"user\", Content: seedMessage(ev, branch, repoInfo.DefaultBranch, instructions, comments, review)},\r\n\t}\r\n\r\n\thooks := r.streamHooks(jobID, logAppend)\r\n\r\n\t_, err = runLoop(ctx, llmClient, runCtx, messages, hooks)\r\n\tif err != nil {\r\n\t\treturn fmt.Errorf(\"agent loop: %w\", err)\r\n\t}\r\n\r\n\tsucceeded = true\r\n\r\n\treturn nil\r\n}\r\n\r\n// streamHooks builds the Hooks a single Run passes to runLoop: every\r\n// delta is published live to the hub for connected dashboard viewers,\r\n// and once a reasoning/content block or tool call is complete, it's\r\n// persisted to the store as one row and the hub's replay buffer for\r\n// jobID is checkpointed — so a viewer connecting from this point on\r\n// sees it via the persisted history instead of a live replay, and is\r\n// never shown it twice.\r\nfunc (r *Runner) streamHooks(jobID string, logAppend func(stream, line string)) Hooks {\r\n\tvar reasoningBuf, contentBuf strings.Builder\r\n\r\n\treasoningOpen, contentOpen := false, false\r\n\r\n\treturn Hooks{\r\n\t\tOnReasoningDelta: func(delta string) {\r\n\t\t\tif !reasoningOpen {\r\n\t\t\t\treasoningOpen = true\r\n\t\t\t\treasoningBuf.Reset()\r\n\t\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ReasoningStart})\r\n\t\t\t}\r\n\r","start_line":1,"end_line":300,"total_lines":437,"truncated":true}
Thinking
Let's take a look at the rest of run.go, particularly the implementation of `runContext.Exec`.
Tool 🔧 read_file {"end_line": 437, "path": "internal/agentrun/run.go", "start_line": 300}
Arguments
{"end_line": 437, "path": "internal/agentrun/run.go", "start_line": 300}
Result
{"path":"internal/agentrun/run.go","content":"\r\n\t\t\treasoningBuf.WriteString(delta)\r\n\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ReasoningDelta, Text: delta})\r\n\t\t},\r\n\t\tOnContentDelta: func(delta string) {\r\n\t\t\tif !contentOpen {\r\n\t\t\t\tcontentOpen = true\r\n\t\t\t\tcontentBuf.Reset()\r\n\t\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ContentStart})\r\n\t\t\t}\r\n\r\n\t\t\tcontentBuf.WriteString(delta)\r\n\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ContentDelta, Text: delta})\r\n\t\t},\r\n\t\tOnTurnEnd: func() {\r\n\t\t\tif reasoningOpen {\r\n\t\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ReasoningEnd})\r\n\t\t\t\tlogAppend(\"reasoning\", reasoningBuf.String())\r\n\t\t\t\tr.hub.Checkpoint(jobID)\r\n\t\t\t\treasoningOpen = false\r\n\t\t\t}\r\n\r\n\t\t\tif contentOpen {\r\n\t\t\t\tr.hub.Publish(jobID, livelog.Event{Type: livelog.ContentEnd})\r\n\t\t\t\tlogAppend(\"content\", contentBuf.String())\r\n\t\t\t\tr.hub.Checkpoint(jobID)\r\n\t\t\t\tcontentOpen = false\r\n\t\t\t}\r\n\t\t},\r\n\t\tOnTool: func(name, arguments, result string, toolErr bool) {\r\n\t\t\tr.hub.Publish(jobID, livelog.Event{\r\n\t\t\t\tType: livelog.Tool,\r\n\t\t\t\tName: name,\r\n\t\t\t\tArguments: arguments,\r\n\t\t\t\tResult: result,\r\n\t\t\t\tError: toolErr,\r\n\t\t\t})\r\n\r\n\t\t\tline, err := json.Marshal(store.ToolLogEntry{Name: name, Arguments: arguments, Result: result, Error: toolErr})\r\n\t\t\tif err != nil {\r\n\t\t\t\tr.logger.Warn(\"failed to marshal tool log entry\", \"job\", jobID, \"error\", err)\r\n\t\t\t} else {\r\n\t\t\t\tlogAppend(\"tool\", string(line))\r\n\t\t\t}\r\n\r\n\t\t\tr.hub.Checkpoint(jobID)\r\n\t\t},\r\n\t}\r\n}\r\n\r\nfunc seedMessage(ev forgejo.Event, branch, defaultBranch, instructions string, comments []forgejo.IssueComment, review *forgejo.ReviewDetail) string {\r\n\traw, _ := json.MarshalIndent(json.RawMessage(ev.Raw), \"\", \" \")\r\n\r\n\tvar instructionsSection string\r\n\tif instructions != \"\" {\r\n\t\tinstructionsSection = fmt.Sprintf(\"Instructions for this event, from zoo.hcl:\\n%s\\n\\n\", instructions)\r\n\t}\r\n\r\n\t// A pr:review run works on the PR's own head branch, not a fresh\r\n\t// branch off the default branch.\r\n\tbranchLine := fmt.Sprintf(\"Your working branch is %q, checked out from the default branch %q.\\n\\n\", branch, defaultBranch)\r\n\tif ev.Kind == forgejo.EventPRReview {\r\n\t\tbranchLine = fmt.Sprintf(\"Your working branch is %q, the pull request's head branch — commits you push here update the pull request directly.\\n\\n\", branch)\r\n\t}\r\n\r\n\tvar reviewSection string\r\n\tif review != nil {\r\n\t\treviewSection = renderReviewSection(review)\r\n\t}\r\n\r\n\tvar commentsSection string\r\n\tif len(comments) \u003e 0 {\r\n\t\tvar b strings.Builder\r\n\t\tfmt.Fprintf(\u0026b, \"Comments (%d):\\n\\n\", len(comments))\r\n\r\n\t\tfor i, c := range comments {\r\n\t\t\tfmt.Fprintf(\u0026b, \"%d. %s (%s):\\n%s\\n\\n\", i+1, c.Author, c.Created.Format(time.RFC3339), c.Body)\r\n\t\t}\r\n\r\n\t\tcommentsSection = b.String()\r\n\t}\r\n\r\n\treturn fmt.Sprintf(\r\n\t\t\"You were triggered by a %q event on %s/%s.\\n\\n\"+\r\n\t\t\t\"%s%s\"+\r\n\t\t\t\"%sTitle: %s\\n\\nBody:\\n%s\\n\\n%sFull event payload:\\n```json\\n%s\\n```\",\r\n\t\tev.Kind, ev.Owner, ev.Repo, instructionsSection, branchLine, reviewSection, ev.Title, ev.Body, commentsSection, raw)\r\n}\r\n\r\n// renderReviewSection renders the submitted review as a briefing\r\n// section: the verdict, the review body, and each inline comment with\r\n// its location and id (the id lets the agent refer to a specific\r\n// comment in its reply).\r\nfunc renderReviewSection(review *forgejo.ReviewDetail) string {\r\n\tvar b strings.Builder\r\n\r\n\tfmt.Fprintf(\u0026b, \"Review submitted by %s:\\n\", review.Reviewer)\r\n\tfmt.Fprintf(\u0026b, \" Verdict: %s\\n\", humanReviewState(review.State))\r\n\r\n\tif review.Body != \"\" {\r\n\t\tb.WriteString(\" Review body:\\n\")\r\n\t\tfor _, line := range strings.Split(review.Body, \"\\n\") {\r\n\t\t\tfmt.Fprintf(\u0026b, \" %s\\n\", line)\r\n\t\t}\r\n\t}\r\n\r\n\tif len(review.Comments) \u003e 0 {\r\n\t\tfmt.Fprintf(\u0026b, \" Inline comments (%d):\\n\", len(review.Comments))\r\n\r\n\t\tfor i, c := range review.Comments {\r\n\t\t\twhere := c.Path\r\n\t\t\tif c.Line \u003e 0 {\r\n\t\t\t\twhere = fmt.Sprintf(\"%s:%d\", c.Path, c.Line)\r\n\t\t\t}\r\n\r\n\t\t\tfmt.Fprintf(\u0026b, \" %d. [%s] %s (comment id %d):\\n\", i+1, where, c.Author, c.ID)\r\n\t\t\tfor _, line := range strings.Split(c.Body, \"\\n\") {\r\n\t\t\t\tfmt.Fprintf(\u0026b, \" %s\\n\", line)\r\n\t\t\t}\r\n\t\t}\r\n\t}\r\n\r\n\treturn b.String() + \"\\n\"\r\n}\r\n\r\n// humanReviewState maps a Forgejo review state to a readable verdict.\r\nfunc humanReviewState(state string) string {\r\n\tswitch state {\r\n\tcase \"APPROVED\":\r\n\t\treturn \"approved\"\r\n\tcase \"REQUEST_CHANGES\":\r\n\t\treturn \"changes requested\"\r\n\tcase \"COMMENT\":\r\n\t\treturn \"comment\"\r\n\tdefault:\r\n\t\treturn state\r\n\t}\r\n}\r","start_line":300,"end_line":437,"total_lines":437,"truncated":false}
Thinking
I still haven't found the implementation of `runContext.Exec`. Let me search for it.
Tool 🔧 grep_search {"query": "func \\(c \\*runContext\\) Exec|runContext", "glob": "*.go", "context_after": 15}
Arguments
{"query": "func \\(c \\*runContext\\) Exec|runContext", "glob": "*.go", "context_after": 15}
Result
/project/internal/agentrun/context.go:10:// runContext implements tools.Context for a single agent run, executing
/project/internal/agentrun/context.go-11-// shell commands via docker exec against the run's container, and
/project/internal/agentrun/context.go-12-// binding Forgejo actions to the triggering issue/PR.
/project/internal/agentrun/context.go:13:type runContext struct {
/project/internal/agentrun/context.go-14- docker *dockerRuntime
/project/internal/agentrun/context.go-15- containerID string
/project/internal/agentrun/context.go-16- forgejo tools.ForgejoActions
/project/internal/agentrun/context.go-17-}
/project/internal/agentrun/context.go-18-
/project/internal/agentrun/context.go:19:func (c *runContext) Exec(ctx context.Context, command string) (string, error) {
/project/internal/agentrun/context.go-20- output, exitCode, err := c.docker.exec(ctx, c.containerID, command)
/project/internal/agentrun/context.go-21-
/project/internal/agentrun/context.go-22- if err != nil {
/project/internal/agentrun/context.go-23- return output, err
/project/internal/agentrun/context.go-24- }
/project/internal/agentrun/context.go-25-
/project/internal/agentrun/context.go-26- if exitCode != 0 {
/project/internal/agentrun/context.go-27- return output, fmt.Errorf("command exited with status %d", exitCode)
/project/internal/agentrun/context.go-28- }
/project/internal/agentrun/context.go-29-
/project/internal/agentrun/context.go-30- return output, nil
/project/internal/agentrun/context.go-31-}
/project/internal/agentrun/context.go-32-
/project/internal/agentrun/context.go:33:func (c *runContext) Forgejo() tools.ForgejoActions {
/project/internal/agentrun/context.go-34- return c.forgejo
/project/internal/agentrun/context.go-35-}
--
/project/internal/agentrun/run.go:235: runCtx := &runContext{
/project/internal/agentrun/run.go-236- docker: r.docker,
/project/internal/agentrun/run.go-237- containerID: containerID,
/project/internal/agentrun/run.go-238- forgejo: &runForgejoActions{
/project/internal/agentrun/run.go-239- client: r.forgejoAs(agent.Name, agent.Token),
/project/internal/agentrun/run.go-240- owner: ev.Owner,
/project/internal/agentrun/run.go-241- repo: ev.Repo,
/project/internal/agentrun/run.go-242- index: ev.Index,
/project/internal/agentrun/run.go-243- logger: logger,
/project/internal/agentrun/run.go-244- },
/project/internal/agentrun/run.go-245- }
/project/internal/agentrun/run.go-246-
/project/internal/agentrun/run.go-247- llmClient := llm.NewClient(llmCfg)
/project/internal/agentrun/run.go-248-
/project/internal/agentrun/run.go-249- systemPrompt := defaultSystemPrompt + identitySection(agent.Name, roster)
/project/internal/agentrun/run.go-250-
Thinking
Now I understand the whole flow:
1. `dockerRuntime.exec` in `internal/agentrun/docker.go` — creates an exec with `Tty: true`, attaches with `Tty: true`, and reads the raw stream.
2. `runContext.Exec` in `internal/agentrun/context.go` — calls `docker.exec`, and if `exitCode != 0`, returns `output` along with an error.
3. `bash` in `internal/tools/bash.go` — calls `ctx.Exec`, and if `err != nil`, it returns `fmt.Errorf("command failed: %w", err)` — **discarding the output!** This is the "if a command returns non-zero, stderr is discarded" problem. In fact, the output is completely discarded (both stdout and stderr).
Wait, let me re-read bash.go:
```go
output, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", fmt.Errorf("command failed: %w", err)
}
return output, nil
```
Yeah — when the command fails, the output is completely discarded. The agent never sees the error message. This is the "if a command returns non-zero, stderr is discarded" problem.
Also, in the case of `Tty: true`:
- The command thinks it's interactive (e.g., git might show a pager — although GIT_PAGER=cat is set; but other tools might wait for input).
- The PTY converts LF to CRLF in the output.
The fix the issue is asking for:
1. Remove the PTY (Tty: false).
2. Fix the problem: don't discard output on non-zero exit — include the output in the error message (or return it in some form).
3. Since there's no TTY, we need to demultiplex Docker's stdcopy framing. We can use `github.com/docker/docker/pkg/stdcopy.StdCopy` to split stdout and stderr into separate buffers, and then combine them (preserving order? or separately?).
Design decision: the issue says "the bash tool is combining stdout and stderr. Is that really wise?" — the issue author seems to be against combining them. But the main request is: "if you agree, please remove the PTY and fix the problem."
So the fix is:
1. Remove `Tty: true` from both `ContainerExecCreate` and `ContainerExecAttach`.
2. Demultiplex the stdcopy stream into separate stdout and stderr buffers.
3. Return both, and make sure that on non-zero exit, the output (especially stderr) is included in the error message so the agent can see it.
Let me check how the output is consumed downstream. The `bash` tool returns a string to the LLM. The `read_file`/`write_file` tools use `ctx.Exec` via shellReadFile/shellWriteFile (base64). They decode base64 from the output — if we now return stdout separately from stderr, base64 decoding should use only stdout.
Let me think about the design:
Option A: `dockerRuntime.exec` returns `(stdout, stderr string, exitCode int, err error)`. `runContext.Exec` keeps the signature `(string, error)` and combines them… but then the tool layer can't distinguish them.
Option B: Change the `tools.Context` interface: `Exec(ctx, command) (stdout, stderr string, err error)`. Then:
- The `bash` tool formats the output: if both are present, e.g., prefix stderr lines, or append stderr at the end. On non-zero exit, include the output in the error message.
- `shellReadFile` uses only stdout for base64 decoding.
- `shellWriteFile` ignores the output.
Let me check all callers of `ctx.Exec`:
- `internal/tools/bash.go`
- `internal/tools/shell.go` (shellReadFile, shellWriteFile)
Any others? Let me grep for `.Exec(`.
Also, let me check the docker integration tests and see what they expect.
Also, let me check the `store` schema for logs — there are "streams" in the logs (the "reasoning", "content", "tool" streams in AppendLog). That's a separate thing.
Let me check the docker integration test file and the sandboxgit file (which might also use exec).
Tool 🔧 grep_search {"context_after": 4, "context_before": 2, "glob": "*.go", "query": "\\.Exec\\("}
Arguments
{"context_after": 4, "context_before": 2, "glob": "*.go", "query": "\\.Exec\\("}
Result
/project/internal/tools/grep_search.go-65- cmd := strings.Join(args, " ") + fmt.Sprintf(" | head -n %d", maxResults)
/project/internal/tools/grep_search.go-66-
/project/internal/tools/grep_search.go:67: output, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/grep_search.go-68- if err != nil {
/project/internal/tools/grep_search.go-69- // grep exits non-zero (with empty output) when there are no
/project/internal/tools/grep_search.go-70- // matches; that's a normal result, not a tool failure.
/project/internal/tools/grep_search.go-71- if strings.TrimSpace(output) == "" {
--
/project/internal/tools/remove_file.go-25- p := resolvePath(params.Path)
/project/internal/tools/remove_file.go-26-
/project/internal/tools/remove_file.go:27: if _, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p)); err != nil {
/project/internal/tools/remove_file.go-28- return "", fmt.Errorf("remove %q: %w", params.Path, err)
/project/internal/tools/remove_file.go-29- }
/project/internal/tools/remove_file.go-30-
/project/internal/tools/remove_file.go-31- return "File removed successfully", nil
--
/project/internal/tools/move_file.go-30- cmd := fmt.Sprintf(`mkdir -p "$(dirname %s)" && mv %s %s`, shellQuote(to), shellQuote(from), shellQuote(to))
/project/internal/tools/move_file.go-31-
/project/internal/tools/move_file.go:32: if _, err := ctx.Exec(context.Background(), cmd); err != nil {
/project/internal/tools/move_file.go-33- return "", fmt.Errorf("move %q to %q: %w", params.FromPath, params.ToPath, err)
/project/internal/tools/move_file.go-34- }
/project/internal/tools/move_file.go-35-
/project/internal/tools/move_file.go-36- return fmt.Sprintf("Moved %q to %q", params.FromPath, params.ToPath), nil
--
/project/internal/tools/read_file.go-63- shellQuote(p), from, to)
/project/internal/tools/read_file.go-64-
/project/internal/tools/read_file.go:65: output, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/read_file.go-66- if err != nil {
/project/internal/tools/read_file.go-67- return "", fmt.Errorf("read %q: %w", params.Path, err)
/project/internal/tools/read_file.go-68- }
/project/internal/tools/read_file.go-69-
--
/project/internal/tools/list_files.go-34- }
/project/internal/tools/list_files.go-35-
/project/internal/tools/list_files.go:36: output, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/list_files.go-37- if err != nil {
/project/internal/tools/list_files.go-38- return "", fmt.Errorf("list %q: %w", params.Path, err)
/project/internal/tools/list_files.go-39- }
/project/internal/tools/list_files.go-40-
--
/project/internal/tools/bash.go-46- defer cancel()
/project/internal/tools/bash.go-47-
/project/internal/tools/bash.go:48: output, err := ctx.Exec(execCtx, params.Command)
/project/internal/tools/bash.go-49- if err != nil {
/project/internal/tools/bash.go-50- if execCtx.Err() == context.DeadlineExceeded {
/project/internal/tools/bash.go-51- return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
/project/internal/tools/bash.go-52- }
--
/project/internal/tools/shell.go-40- // special characters in the file content. The output of the command
/project/internal/tools/shell.go-41- // will be base64-encoded, which we then decode in Go.
/project/internal/tools/shell.go:42: output, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
/project/internal/tools/shell.go-43- if err != nil {
/project/internal/tools/shell.go-44- return nil, err
/project/internal/tools/shell.go-45- }
/project/internal/tools/shell.go-46-
--
/project/internal/tools/shell.go-61- shellQuote(p), shellQuote(encoded), shellQuote(p))
/project/internal/tools/shell.go-62-
/project/internal/tools/shell.go:63: _, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/shell.go-64- if err != nil {
/project/internal/tools/shell.go-65- return fmt.Errorf("write %q: %w", path, err)
/project/internal/tools/shell.go-66- }
/project/internal/tools/shell.go-67-
--
/project/internal/store/store.go-32- db.SetMaxOpenConns(1)
/project/internal/store/store.go-33-
/project/internal/store/store.go:34: if _, err := db.Exec(schema); err != nil {
/project/internal/store/store.go-35- db.Close()
/project/internal/store/store.go-36-
/project/internal/store/store.go-37- return nil, fmt.Errorf("apply schema: %w", err)
/project/internal/store/store.go-38- }
--
/project/internal/agentrun/context.go-18-
/project/internal/agentrun/context.go-19-func (c *runContext) Exec(ctx context.Context, command string) (string, error) {
/project/internal/agentrun/context.go:20: output, exitCode, err := c.docker.exec(ctx, c.containerID, command)
/project/internal/agentrun/context.go-21-
/project/internal/agentrun/context.go-22- if err != nil {
/project/internal/agentrun/context.go-23- return output, err
/project/internal/agentrun/context.go-24- }
--
/project/internal/agentrun/sandboxgit.go-39-// non-zero exit code is an error carrying the output.
/project/internal/agentrun/sandboxgit.go-40-func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
/project/internal/agentrun/sandboxgit.go:41: out, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
/project/internal/agentrun/sandboxgit.go-42- if err != nil {
/project/internal/agentrun/sandboxgit.go-43- return out, err
/project/internal/agentrun/sandboxgit.go-44- }
/project/internal/agentrun/sandboxgit.go-45-
--
/project/internal/agentrun/docker_integration_test.go-30- defer rt.remove(context.Background(), containerID)
/project/internal/agentrun/docker_integration_test.go-31-
/project/internal/agentrun/docker_integration_test.go:32: output, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")
/project/internal/agentrun/docker_integration_test.go-33- if err != nil {
/project/internal/agentrun/docker_integration_test.go-34- t.Fatalf("exec: %v", err)
/project/internal/agentrun/docker_integration_test.go-35- }
/project/internal/agentrun/docker_integration_test.go-36- if exitCode != 0 {
--
/project/internal/agentrun/docker_integration_test.go-41- }
/project/internal/agentrun/docker_integration_test.go-42-
/project/internal/agentrun/docker_integration_test.go:43: _, exitCode, err = rt.exec(ctx, containerID, "exit 3")
/project/internal/agentrun/docker_integration_test.go-44- if err != nil {
Tool 🔧 read_file {"path": "internal/agentrun/docker_integration_test.go", "start_line": 1, "end_line": 250}
Arguments
{"path": "internal/agentrun/docker_integration_test.go", "start_line": 1, "end_line": 250}
Result
{"path":"internal/agentrun/docker_integration_test.go","content":"//go:build docker\r\n\r\n// Run with: go test -tags docker ./internal/agentrun/...\r\n// Requires a reachable Docker daemon (DOCKER_HOST or the default socket).\r\npackage agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"os\"\r\n\t\"os/exec\"\r\n\t\"path/filepath\"\r\n\t\"strings\"\r\n\t\"testing\"\r\n\t\"time\"\r\n)\r\n\r\nfunc TestDockerRuntimeExecRoundTrip(t *testing.T) {\r\n\trt, err := newDockerRuntime()\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"docker client: %v\", err)\r\n\t}\r\n\r\n\tctx, cancel := context.WithTimeout(context.Background(), 60*time.Second)\r\n\tdefer cancel()\r\n\r\n\tcontainerID, err := rt.createContainer(ctx, \"debian:unstable\", nil, \"zoo-test-run\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"create container: %v\", err)\r\n\t}\r\n\tdefer rt.remove(context.Background(), containerID)\r\n\r\n\toutput, exitCode, err := rt.exec(ctx, containerID, \"echo hello-from-zoo\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"exec: %v\", err)\r\n\t}\r\n\tif exitCode != 0 {\r\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\r\n\t}\r\n\tif !strings.Contains(output, \"hello-from-zoo\") {\r\n\t\tt.Fatalf(\"unexpected output: %q\", output)\r\n\t}\r\n\r\n\t_, exitCode, err = rt.exec(ctx, containerID, \"exit 3\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"exec: %v\", err)\r\n\t}\r\n\tif exitCode != 3 {\r\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\r\n\t}\r\n}\r\n\r\n// TestDockerRuntimeGitSafeDirectory reproduces the \"detected dubious\r\n// ownership\" error git raises against a bind-mounted repo owned by a\r\n// different UID than the container runs as, and confirms the `git\r\n// config --system --add safe.directory '*'` fix Run() applies (see\r\n// run.go) actually clears it, against the same golang:latest image\r\n// zoo.hcl now defaults to.\r\nfunc TestDockerRuntimeGitSafeDirectory(t *testing.T) {\r\n\tprojectDir := t.TempDir()\r\n\r\n\tfor _, args := range [][]string{\r\n\t\t{\"init\", \"-q\", projectDir},\r\n\t\t{\"-C\", projectDir, \"commit\", \"-q\", \"--allow-empty\", \"-m\", \"init\"},\r\n\t} {\r\n\t\tif out, err := exec.Command(\"git\", args...).CombinedOutput(); err != nil {\r\n\t\t\tt.Fatalf(\"git %v: %v: %s\", args, err, out)\r\n\t\t}\r\n\t}\r\n\r\n\trt, err := newDockerRuntime()\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"docker client: %v\", err)\r\n\t}\r\n\r\n\tctx, cancel := context.WithTimeout(context.Background(), 60*time.Second)\r\n\tdefer cancel()\r\n\r\n\tcontainerID, err := rt.createContainer(ctx, \"golang:latest\", []string{projectDir + \":/project\"}, \"zoo-test-git\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"create container: %v\", err)\r\n\t}\r\n\tdefer rt.remove(context.Background(), containerID)\r\n\r\n\toutput, _, err := rt.exec(ctx, containerID, \"git status\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"exec: %v\", err)\r\n\t}\r\n\tif !strings.Contains(output, \"dubious ownership\") {\r\n\t\tt.Fatalf(\"expected the bind mount to reproduce dubious ownership before the fix, got: %s\", output)\r\n\t}\r\n\r\n\toutput, exitCode, err := rt.exec(ctx, containerID, \"git config --system --add safe.directory '*'\")\r\n\tif err != nil || exitCode != 0 {\r\n\t\tt.Fatalf(\"configure safe.directory: err=%v exit=%d: %s\", err, exitCode, output)\r\n\t}\r\n\r\n\toutput, exitCode, err = rt.exec(ctx, containerID, \"git status\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"exec: %v\", err)\r\n\t}\r\n\tif exitCode != 0 || strings.Contains(output, \"dubious ownership\") {\r\n\t\tt.Fatalf(\"expected git status to succeed after the fix, got exit=%d: %s\", exitCode, output)\r\n\t}\r\n}\r\n\r\n// TestDockerRuntimeSandboxGit exercises the in-sandbox git setup\r\n// Run() performs (see sandboxgit.go): the system gitconfig round-trip\r\n// (including the http.\u003curl\u003e.extraHeader key whose subsection is a URL\r\n// full of dots and colons), the initial clone + branch done inside the\r\n// container, the commit identity taken from the system gitconfig, and\r\n// that the credential never lands in the bind-mounted working tree.\r\n// The clone uses a local path remote (no http involved), so the test\r\n// needs no reachable Forgejo; the header mechanism itself is core git\r\n// behavior.\r\nfunc TestDockerRuntimeSandboxGit(t *testing.T) {\r\n\ttmp := t.TempDir()\r\n\r\n\t// A bare \"remote\" on the host, plus the empty directory the\r\n\t// container will clone into (Run() creates it before the container\r\n\t// exists, for the same reason).\r\n\tseedDir := filepath.Join(tmp, \"seed\")\r\n\tbareDir := filepath.Join(tmp, \"remote.git\")\r\n\tprojectDir := filepath.Join(tmp, \"project\")\r\n\r\n\trun := func(dir string, args ...string) {\r\n\t\tcmd := exec.Command(\"git\", args...)\r\n\t\tcmd.Dir = dir\r\n\r\n\t\tif out, err := cmd.CombinedOutput(); err != nil {\r\n\t\t\tt.Fatalf(\"git %v: %v: %s\", args, err, out)\r\n\t\t}\r\n\t}\r\n\r\n\trun(\"\", \"init\", \"-q\", \"-b\", \"main\", seedDir)\r\n\trun(seedDir, \"config\", \"user.name\", \"zoo-test\")\r\n\trun(seedDir, \"config\", \"user.email\", \"zoo@test\")\r\n\r\n\tif err := os.WriteFile(filepath.Join(seedDir, \"file.txt\"), []byte(\"hello\\n\"), 0o644); err != nil {\r\n\t\tt.Fatalf(\"write seed file: %v\", err)\r\n\t}\r\n\r\n\trun(seedDir, \"add\", \".\")\r\n\trun(seedDir, \"commit\", \"-q\", \"-m\", \"init\")\r\n\trun(\"\", \"clone\", \"-q\", \"--bare\", seedDir, bareDir)\r\n\r\n\tif err := os.MkdirAll(projectDir, 0o755); err != nil {\r\n\t\tt.Fatalf(\"create project dir: %v\", err)\r\n\t}\r\n\r\n\trt, err := newDockerRuntime()\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"docker client: %v\", err)\r\n\t}\r\n\r\n\tctx, cancel := context.WithTimeout(context.Background(), 120*time.Second)\r\n\tdefer cancel()\r\n\r\n\tcontainerID, err := rt.createContainer(ctx, \"golang:latest\", []string{\r\n\t\tbareDir + \":/bare\",\r\n\t\tprojectDir + \":/project\",\r\n\t}, \"zoo-test-sandbox-git\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"create container: %v\", err)\r\n\t}\r\n\tdefer rt.remove(context.Background(), containerID)\r\n\r\n\tconst (\r\n\t\tcloneURL = \"https://forgejo.example/acme/widgets.git\"\r\n\t\tuser = \"greg\"\r\n\t\ttoken = \"super-secret-token\"\r\n\t)\r\n\r\n\tif err := configureSandboxGit(ctx, rt, containerID, cloneURL, user, token, \"Greg Coolio\", \"greg@noreply.localhost\"); err != nil {\r\n\t\tt.Fatalf(\"configureSandboxGit: %v\", err)\r\n\t}\r\n\r\n\t// The credential must round-trip through the system gitconfig,\r\n\t// which is what makes plain `git pull`/`git push` authenticate.\r\n\twantHeader := gitAuthHeader(user, token)\r\n\r\n\tout, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--system\", \"--get\", \"http.\"+forgeHost(cloneURL)+\".extraHeader\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"read back credential: %v\", err)\r\n\t}\r\n\tif got := strings.TrimSpace(out); got != wantHeader {\r\n\t\tt.Fatalf(\"credential round-trip = %q, want %q\", got, wantHeader)\r\n\t}\r\n\r\n\tif err := cloneAndBranch(ctx, rt, containerID, \"/bare\", \"main\", \"issue-1-greg\"); err != nil {\r\n\t\tt.Fatalf(\"cloneAndBranch: %v\", err)\r\n\t}\r\n\r\n\t// The clone happened inside the container: the fresh branch is\r\n\t// checked out in /project.\r\n\tout, err = runSandboxGit(ctx, rt, containerID, \"branch\", \"--show-current\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"branch --show-current: %v\", err)\r\n\t}\r\n\tif got := strings.TrimSpace(out); got != \"issue-1-greg\" {\r\n\t\tt.Fatalf(\"branch = %q, want issue-1-greg\", got)\r\n\t}\r\n\r\n\t// Commits must pick up the identity from the system gitconfig.\r\n\tif _, exitCode, err := rt.exec(ctx, containerID, \"echo more \u003e\u003e file.txt \u0026\u0026 git add file.txt \u0026\u0026 git commit -qm 'from sandbox'\"); err != nil || exitCode != 0 {\r\n\t\tt.Fatalf(\"commit in sandbox: err=%v exit=%d\", err, exitCode)\r\n\t}\r\n\r\n\tout, err = runSandboxGit(ctx, rt, containerID, \"log\", \"-1\", \"--format=%an %ae\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"log: %v\", err)\r\n\t}\r\n\tif got := strings.TrimSpace(out); got != \"Greg Coolio greg@noreply.localhost\" {\r\n\t\tt.Fatalf(\"commit author = %q, want %q\", got, \"Greg Coolio greg@noreply.localhost\")\r\n\t}\r\n\r\n\t// The token must not leak into the bind-mounted working tree.\r\n\tout, _, err = rt.exec(ctx, containerID, \"grep -r super-secret-token /project || true\")\r\n\tif err != nil {\r\n\t\tt.Fatalf(\"grep: %v\", err)\r\n\t}\r\n\tif strings.Contains(out, \"super-secret-token\") {\r\n\t\tt.Fatalf(\"token leaked into the working tree: %s\", out)\r\n\t}\r\n}\r","start_line":1,"end_line":224,"total_lines":224,"truncated":false}
Thinking
Next, let's check the remaining callers and the tools that use `ctx.Exec`:
1. `internal/tools/bash.go` — the main bash tool.
2. `internal/tools/shell.go` — shellReadFile (base64), shellWriteFile.
3. `internal/tools/grep_search.go` — uses exec, and handles the case where grep's exit code is non-zero with empty output.
4. `internal/tools/remove_file.go` — `rm -f`.
5. `internal/tools/move_file.go` — `mv`.
6. `internal/tools/read_file.go` — uses `sed` or something similar.
7. `internal/tools/list_files.go` — uses `find` or something similar.
8. `internal/agentrun/sandboxgit.go` — `runSandboxGit`.
9. `internal/agentrun/context.go` — the `runContext.Exec` implementation.
Let's read the remaining tool files and sandboxgit.go to understand the exact usage patterns.
Tool 🔧 read_file {"path": "internal/tools/grep_search.go", "start_line": 1, "end_line": 120}
Arguments
{"path": "internal/tools/grep_search.go", "start_line": 1, "end_line": 120}
Result
{"path":"internal/tools/grep_search.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"strconv\"\r\n\t\"strings\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\ntype grepSearchParams struct {\r\n\tPattern string `json:\"query\"`\r\n\tGlob string `json:\"glob\"`\r\n\tCaseSensitive bool `json:\"case_sensitive\"`\r\n\tContextBefore int `json:\"context_before\"`\r\n\tContextAfter int `json:\"context_after\"`\r\n\tMaxResults int `json:\"max_results\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"grep_search\",\r\n\t\t\"Search for an extended regular expression (ERE, e.g. 'foo|bar', 'func\\\\(') in project files (in the project container). Supports context lines, a glob filter, and case sensitivity control.\")\r\n\r\n\ttool.AddStringProperty(\"query\", \"The regex pattern to search for\", true)\r\n\ttool.AddStringProperty(\"glob\", \"Optional glob pattern to filter files, e.g. '*.go'\", false)\r\n\ttool.AddBooleanProperty(\"case_sensitive\", \"Whether the search should be case sensitive (default: false)\", false)\r\n\ttool.AddIntegerProperty(\"context_before\", \"Number of lines of context to show before each match (default: 0)\", false)\r\n\ttool.AddIntegerProperty(\"context_after\", \"Number of lines of context to show after each match (default: 0)\", false)\r\n\ttool.AddIntegerProperty(\"max_results\", \"Maximum number of matching lines to return (default: 100, 0 means no limit)\", false)\r\n\r\n\tRegister(tool, grepSearch)\r\n}\r\n\r\nfunc grepSearch(ctx Context, params grepSearchParams) (string, error) {\r\n\tmaxResults := params.MaxResults\r\n\tif maxResults == 0 {\r\n\t\tmaxResults = 100\r\n\t}\r\n\r\n\t// -E makes grep interpret the pattern as an extended regular\r\n\t// expression (ERE), which is the \"real\" regex flavor the tool\r\n\t// promises: |, +, ?, (), {} all work as metacharacters. Without\r\n\t// it, grep falls back to BRE, where those are treated literally.\r\n\targs := []string{\"grep\", \"-Rn\", \"-I\", \"-E\"}\r\n\tif !params.CaseSensitive {\r\n\t\targs = append(args, \"-i\")\r\n\t}\r\n\r\n\tif params.ContextBefore \u003e 0 {\r\n\t\targs = append(args, \"-B\", strconv.Itoa(params.ContextBefore))\r\n\t}\r\n\r\n\tif params.ContextAfter \u003e 0 {\r\n\t\targs = append(args, \"-A\", strconv.Itoa(params.ContextAfter))\r\n\t}\r\n\r\n\tif params.Glob != \"\" {\r\n\t\targs = append(args, \"--include=\"+shellQuote(params.Glob))\r\n\t}\r\n\r\n\targs = append(args, \"-e\", shellQuote(params.Pattern), \"/project\")\r\n\r\n\tcmd := strings.Join(args, \" \") + fmt.Sprintf(\" | head -n %d\", maxResults)\r\n\r\n\toutput, err := ctx.Exec(context.Background(), cmd)\r\n\tif err != nil {\r\n\t\t// grep exits non-zero (with empty output) when there are no\r\n\t\t// matches; that's a normal result, not a tool failure.\r\n\t\tif strings.TrimSpace(output) == \"\" {\r\n\t\t\treturn \"No matches found.\", nil\r\n\t\t}\r\n\r\n\t\treturn \"\", fmt.Errorf(\"grep_search: %w\", err)\r\n\t}\r\n\r\n\tif strings.TrimSpace(output) == \"\" {\r\n\t\treturn \"No matches found.\", nil\r\n\t}\r\n\r\n\treturn output, nil\r\n}\r","start_line":1,"end_line":83,"total_lines":83,"truncated":false}
Tool 🔧 read_file {"path": "internal/tools/read_file.go", "start_line": 1, "end_line": 100}
Arguments
{"path": "internal/tools/read_file.go", "start_line": 1, "end_line": 100}
Result
{"path":"internal/tools/read_file.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"encoding/json\"\r\n\t\"fmt\"\r\n\t\"strconv\"\r\n\t\"strings\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\ntype readFileParams struct {\r\n\tPath string `json:\"path\"`\r\n\tStartLine int `json:\"start_line\"`\r\n\tEndLine int `json:\"end_line\"`\r\n}\r\n\r\ntype readFileResult struct {\r\n\tPath string `json:\"path\"`\r\n\tContent string `json:\"content\"`\r\n\tStartLine int `json:\"start_line\"`\r\n\tEndLine int `json:\"end_line\"`\r\n\tTotalLines int `json:\"total_lines\"`\r\n\tTruncated bool `json:\"truncated\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"read_file\",\r\n\t\t\"Read lines from a file in the project container. Returns the content of the file along with metadata such as total lines.\")\r\n\r\n\ttool.AddStringProperty(\"path\", \"The path to the file to read\", true)\r\n\ttool.AddIntegerProperty(\"start_line\", \"Optional line number to start reading from (1-indexed)\", true)\r\n\ttool.AddIntegerProperty(\"end_line\", \"Optional line number to stop reading at (inclusive, 1-indexed)\", true)\r\n\r\n\tRegister(tool, readFile)\r\n}\r\n\r\nfunc readFile(ctx Context, params readFileParams) (string, error) {\r\n\tfrom := params.StartLine\r\n\tif from == 0 {\r\n\t\tfrom = 1\r\n\t}\r\n\r\n\tto := params.EndLine\r\n\tif to == 0 {\r\n\t\tto = 1 \u003c\u003c 30\r\n\t}\r\n\r\n\tif from \u003c 1 || to \u003c 1 {\r\n\t\treturn \"\", fmt.Errorf(\"line numbers must be \u003e= 1, got start_line=%d, end_line=%d\", from, to)\r\n\t}\r\n\r\n\tif from \u003e to {\r\n\t\treturn \"\", fmt.Errorf(\"start_line (%d) must be \u003c= end_line (%d)\", from, to)\r\n\t}\r\n\r\n\tp := resolvePath(params.Path)\r\n\r\n\tcmd := fmt.Sprintf(\r\n\t\t`f=%s; [ -f \"$f\" ] || { echo \"read_file: no such file: $f\" \u003e\u00262; exit 1; }; wc -l \u003c \"$f\"; sed -n '%d,%dp' \"$f\"`,\r\n\t\tshellQuote(p), from, to)\r\n\r\n\toutput, err := ctx.Exec(context.Background(), cmd)\r\n\tif err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"read %q: %w\", params.Path, err)\r\n\t}\r\n\r\n\tnl := strings.IndexByte(output, '\\n')\r\n\tif nl \u003c 0 {\r\n\t\treturn \"\", fmt.Errorf(\"read %q: unexpected output %q\", params.Path, output)\r\n\t}\r\n\r\n\ttotalLines, err := strconv.Atoi(strings.TrimSpace(output[:nl]))\r\n\tif err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"read %q: parse line count: %w\", params.Path, err)\r\n\t}\r\n\r\n\tcontent := strings.TrimSuffix(output[nl+1:], \"\\n\")\r\n\r\n\ttruncated := to \u003c totalLines\r\n\teffectiveTo := to\r\n\tif effectiveTo \u003e totalLines {\r\n\t\teffectiveTo = totalLines\r\n\t}\r\n\r\n\tresult := readFileResult{\r\n\t\tPath: params.Path,\r\n\t\tContent: content,\r\n\t\tStartLine: from,\r\n\t\tEndLine: effectiveTo,\r\n\t\tTotalLines: totalLines,\r\n\t\tTruncated: truncated,\r\n\t}\r\n\r\n\tjsonBytes, err := json.Marshal(result)\r\n\tif err != nil {\r\n\t\treturn \"\", err\r\n\t}\r","start_line":1,"end_line":100,"total_lines":103,"truncated":true}
Tool 🔧 read_file {"path": "internal/tools/list_files.go", "start_line": 1, "end_line": 80}
Arguments
{"path": "internal/tools/list_files.go", "start_line": 1, "end_line": 80}
Result
{"path":"internal/tools/list_files.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\ntype listFilesParams struct {\r\n\tPath string `json:\"path\"`\r\n\tRecursive bool `json:\"recursive\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"list_files\",\r\n\t\t\"List files in a directory in the project container, optionally recursively. Hidden (dot) entries are skipped.\")\r\n\r\n\ttool.AddStringProperty(\"path\", \"The path to list, relative to the project root, e.g. . or src/\", true)\r\n\ttool.AddBooleanProperty(\"recursive\", \"Whether to list files recursively (default: false)\", false)\r\n\r\n\tRegister(tool, listFiles)\r\n}\r\n\r\nfunc listFiles(ctx Context, params listFilesParams) (string, error) {\r\n\tp := resolvePath(params.Path)\r\n\r\n\tvar cmd string\r\n\tif params.Recursive {\r\n\t\tcmd = fmt.Sprintf(`find %s -mindepth 1 -not -path '*/.*' | sort`, shellQuote(p))\r\n\t} else {\r\n\t\tcmd = fmt.Sprintf(`ls -la %s | tail -n +2`, shellQuote(p))\r\n\t}\r\n\r\n\toutput, err := ctx.Exec(context.Background(), cmd)\r\n\tif err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, err)\r\n\t}\r\n\r\n\treturn output, nil\r\n}\r","start_line":1,"end_line":42,"total_lines":42,"truncated":false}
Tool 🔧 read_file {"path": "internal/agentrun/sandboxgit.go", "start_line": 1, "end_line": 120}
Arguments
{"path": "internal/agentrun/sandboxgit.go", "start_line": 1, "end_line": 120}
Result
{"path":"internal/agentrun/sandboxgit.go","content":"package agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"encoding/base64\"\r\n\t\"fmt\"\r\n\t\"net/url\"\r\n\t\"strings\"\r\n)\r\n\r\n// This file makes git \"just work\" inside the agent's container: the\r\n// initial clone happens in the sandbox, and the sandbox's git\r\n// credential is written to the container's system gitconfig so every\r\n// subsequent remote operation (pull, fetch, push, ...) authenticates\r\n// without any per-invocation plumbing. Zoo itself never runs git\r\n// outside the sandbox.\r\n\r\n// shellQuote wraps s in single quotes for safe interpolation into a\r\n// `sh -c` command string, escaping any embedded single quotes.\r\nfunc shellQuote(s string) string {\r\n\treturn \"'\" + strings.ReplaceAll(s, \"'\", `'\\''`) + \"'\"\r\n}\r\n\r\n// shellGitCmd renders `git \u003cargs...\u003e` as one sh -c command line with\r\n// every argument quoted, for docker exec.\r\nfunc shellGitCmd(args ...string) string {\r\n\tparts := make([]string, 0, len(args)+1)\r\n\tparts = append(parts, \"git\")\r\n\r\n\tfor _, a := range args {\r\n\t\tparts = append(parts, shellQuote(a))\r\n\t}\r\n\r\n\treturn strings.Join(parts, \" \")\r\n}\r\n\r\n// runSandboxGit runs `git \u003cargs...\u003e` inside containerID (in its\r\n// working directory, /project) and returns its combined output. A\r\n// non-zero exit code is an error carrying the output.\r\nfunc runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {\r\n\tout, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))\r\n\tif err != nil {\r\n\t\treturn out, err\r\n\t}\r\n\r\n\tif exitCode != 0 {\r\n\t\treturn out, fmt.Errorf(\"git %s: exit %d: %s\", args[0], exitCode, out)\r\n\t}\r\n\r\n\treturn out, nil\r\n}\r\n\r\n// gitAuthHeader returns the value of an Authorization header that\r\n// authenticates git's smart-HTTP requests as user with token.\r\nfunc gitAuthHeader(user, token string) string {\r\n\tauth := base64.StdEncoding.EncodeToString([]byte(user + \":\" + token))\r\n\r\n\treturn \"Authorization: Basic \" + auth\r\n}\r\n\r\n// forgeHost returns the scheme+host prefix of cloneURL, e.g.\r\n// \"https://code.stdio.dk\" for \"https://code.stdio.dk/abrander/zoo.git\".\r\n// On a parse failure it falls back to the full URL, which is a valid\r\n// (narrower) prefix match too.\r\nfunc forgeHost(cloneURL string) string {\r\n\tu, err := url.Parse(cloneURL)\r\n\tif err != nil || u.Host == \"\" {\r\n\t\treturn cloneURL\r\n\t}\r\n\r\n\treturn u.Scheme + \"://\" + u.Host\r\n}\r\n\r\n// configureSandboxGit writes the container's system gitconfig so git\r\n// works inside the sandbox without further setup:\r\n//\r\n// - safe.directory '*', so the bind-mounted /project is accepted\r\n// regardless of which UID the container runs git as;\r\n// - user.name / user.email, so commits are attributed to the agent;\r\n// - http.\u003chost\u003e.extraHeader carrying the run's Forgejo credential,\r\n// scoped to the forge host the repository lives on, so\r\n// clone/fetch/pull/push all authenticate transparently — including\r\n// for submodules and other repos on the same forge. The token is\r\n// only valid on that forge anyway, so the host scope grants no\r\n// extra access; git never sends it anywhere else;\r\n// - push.autoSetupRemote, so a bare `git push` on the fresh working\r\n// branch pushes it to origin and sets the upstream — after which\r\n// a bare `git pull` works too.\r\n//\r\n// The credential lives in the container's own filesystem (ephemeral,\r\n// torn down with the container), never in the bind-mounted working\r\n// tree: the origin remote keeps the plain cloneURL, so the token can't\r\n// leak into the repo's .git/config, into a work dir zoo keeps on\r\n// failure, or anywhere the host can read it back.\r\nfunc configureSandboxGit(ctx context.Context, rt *dockerRuntime, containerID, cloneURL, user, token, name, email string) error {\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--global\", \"--add\", \"safe.directory\", \"*\"); err != nil {\r\n\t\treturn fmt.Errorf(\"configure safe.directory: %w\", err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--global\", \"user.name\", name); err != nil {\r\n\t\treturn fmt.Errorf(\"configure user.name: %w\", err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--global\", \"user.email\", email); err != nil {\r\n\t\treturn fmt.Errorf(\"configure user.email: %w\", err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--global\", \"http.\"+forgeHost(cloneURL)+\".extraHeader\", gitAuthHeader(user, token)); err != nil {\r\n\t\treturn fmt.Errorf(\"configure git credential: %w\", err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"config\", \"--global\", \"push.autoSetupRemote\", \"true\"); err != nil {\r\n\t\treturn fmt.Errorf(\"configure push.autoSetupRemote: %w\", err)\r\n\t}\r\n\r\n\treturn nil\r\n}\r\n\r\n// cloneAndBranch clones cloneURL into /project inside the container\r\n// and checks out a fresh branch off defaultBranch. The clone\r","start_line":1,"end_line":120,"total_lines":158,"truncated":true}
Thinking
Now I have a grasp of the whole picture. Let me design the fix.
**Problem** (from the issue):
1. `Tty: true` in `ContainerExecCreate`/`ContainerExecAttach` → all commands get a TTY assigned → they think they're interactive (may wait for input, e.g. password prompts).
2. If a command exits non-zero, stderr is discarded — actually in the current code, the `bash` tool discards *all* output on error (returns `""` with an error). The issue says "stderr is discarded if a command returns != 0" — the agent can't see the error message.
3. The PTY converts stdout line endings to CRLF.
**Fix plan:**
1. **Remove the PTY** in `internal/agentrun/docker.go`:
- `Tty: false` (just remove the field) in `ContainerExecCreate`.
- `ContainerExecAttach` with `Tty: false`.
- Since there's no TTY, the attached stream uses Docker's stdcopy framing (8-byte header per frame: [1]=stream ID, [3:7]=big-endian size, [7] unused, then payload). We need to demultiplex with `github.com/docker/docker/pkg/stdcopy.StdCopy` into separate `stdout` and `stderr` buffers.
2. **Return stdout and stderr separately.** Change `dockerRuntime.exec` to return `(stdout, stderr string, exitCode int, err error)`.
3. **Fix the "stderr is discarded on non-zero exit" issue** in the `bash` tool: on non-zero exit, include the output in the error message so the agent can see what happened. E.g.:
```
command failed (exit code 2): <output>
```
4. **Update the `tools.Context` interface**: `Exec(ctx, command) (stdout, stderr string, err error)`. Then update all callers:
- `bash.go`: combine stdout+stderr for display. On error, include the output.
- `shellReadFile`: use stdout only for base64 decoding.
- `shellWriteFile`: ignore output.
- `grep_search.go`: use stdout for matching; on error, check if stdout is empty → "No matches found."
- `read_file.go`: use stdout.
- `list_files.go`: use stdout.
- `remove_file.go`, `move_file.go`: ignore output.
- `agentrun/context.go` (runContext.Exec): return stdout, stderr.
- `agentrun/sandboxgit.go` (runSandboxGit): return combined output (git's progress goes to stderr, so combining is fine here; errors include the output).
- `docker_integration_test.go`: update to the new signature.
Wait — should I change the `tools.Context` interface, or keep it as `(string, error)` and combine internally? The issue title is "bash combining stdout/stderr". The author is questioning whether combining is wise. The concrete asks are: "please remove the PTY and fix the problems." The problems are:
- TTY assignment → interactive expectations / password input hangs
- stderr discarded on non-zero exit
- CRLF line endings
The minimal surgical fix that addresses the issues is:
1. Remove the PTY.
2. Demultiplex stdcopy so stdout and stderr are separate (no more CRLF, no more merging).
3. Make sure the bash tool surfaces both streams, including on non-zero exit.
I think it's cleaner to change `tools.Context.Exec` to return `(stdout, stderr string, err error)`. That way the bash tool can present them in a structured way, and the other tools can pick the stream they need. This is the "elegant" solution.
How should the bash tool format the output? Options:
- If only one stream is non-empty, return it as-is.
- If both are non-empty, return stdout, then stderr (with a marker?).
Since the tool result is just a string fed back to the LLM, a simple approach:
```go
func formatOutput(stdout, stderr string) string {
switch {
case stderr == "":
return stdout
case stdout == "":
return stderr
default:
return stdout + "\n" + stderr
}
}
```
Hmm, but if both are non-empty, concatenating without a separator could be confusing. A common convention (e.g. some agent harnesses) is to append stderr at the end. Since the issue is against combining, maybe it's better to label them:
```
stdout:
...
stderr:
...
```
But that adds noise for the common case (only one stream used). Let me think about what's most useful for the LLM:
- `echo hi` → "hi\n"
- `false` → "" (no output, exit 1) → error "command failed with exit code 1"
- `ls /nonexistent` → stderr: "ls: cannot access '/nonexistent': No such file or directory" → the agent needs to see this.
I think a good format is:
- Both non-empty: `stdout + "\n[stderr]\n" + stderr`? Hmm.
Actually, let me keep it simple and predictable: if both are present, append stderr after stdout, separated by a newline, and on non-zero exit, prefix the error message with the exit code. The LLM will understand "ls: cannot access..." regardless of whether it's labeled. But the issue explicitly complains about combining... The core complaint is that combining via PTY causes the CRLF and interleave problems. Now that we're demultiplexing properly, we can still present both streams in the tool result — the agent needs to see both. The issue's "fix the problems" list is about the TTY, discarded stderr, and CRLF.
Let me re-read the issue:
> As of now, the bash tool combines stdout and stderr. Is this really wise? I think it adds more hassle than it gives us.
>
> All commands will be assigned a TTY, so they expect to be interactive. Something could be waiting for a password input.
> Stderr will be discarded if a command returns != 0.
> Stdout line endings will be converted to CRLF (!)
>
> If you agree, please remove the PTY and fix the problems.
So the author is asking for: remove the PTY and fix the problems. The problems are the three bullet points. The first sentence is rhetorical — the PTY is what causes the combining. Without a PTY, we can demultiplex properly.
My plan:
1. `dockerRuntime.exec`: no TTY; demultiplex stdcopy into stdout/stderr buffers; return `(stdout, stderr string, exitCode int, err error)`.
2. `runContext.Exec`: return `(stdout, stderr string, err error)`; on non-zero exit, return an error that includes the exit code (keep the output separate so the caller can include it).
3. `tools.Context` interface: `Exec(ctx context.Context, command string) (stdout, stderr string, err error)`.
4. `bash` tool:
- On success: return the combined output (stdout, then stderr if both non-empty).
- On non-zero exit: return an error that includes the exit code and the output, so nothing is discarded.
- On timeout: same as before.
5. Update all other tool callers to use stdout.
6. `runSandboxGit`: combine stdout+stderr for its single output string (git's progress is on stderr; keep the behavior of "an error carrying the output").
7. Update the docker integration tests to the new signature; maybe add a test that verifies stdout/stderr separation (echo to each stream, verify no CRLF).
Now, about the read loop in `exec`: currently it races `io.ReadAll(attached.Reader)` against ctx. With stdcopy demultiplexing, we can do `stdcopy.StdCopy(stdoutBuf, stderrBuf, attached.Reader)` in a goroutine. Same race logic applies.
One caveat: `stdcopy.StdCopy` reads until EOF. Same as ReadAll. No problem.
Also, the comment in docker.go about TTY and git colors/pagers needs to be updated: without a TTY, git's isatty check fails, so color.ui=auto → no color, and no pager either. So the env var overrides (NO_COLOR, GIT_CONFIG color.ui=never, GIT_PAGER/PAGER=cat, GIT_TERMINAL_PROMPT=0) are no longer needed for those reasons...
Wait, but should we keep them? Let me think:
- `NO_COLOR=1`: without a TTY, most tools won't colorize. But some tools colorize based on other heuristics. Harmless to keep.
- `GIT_CONFIG_COUNT/KEY/VALUE color.ui=never`: without a TTY, git won't colorize. Harmless to keep.
- `GIT_PAGER=cat`/`PAGER=cat`: without a TTY, git won't launch a pager. Harmless.
- `GIT_TERMINAL_PROMPT=0`: this is still valuable! Without a TTY, git's credential prompt would fail immediately anyway (no terminal to read from), but GIT_TERMINAL_PROMPT=0 makes it fail cleanly with an error instead of hanging or misbehaving. Actually, without a TTY, git can't prompt anyway. But it's a good defense-in-depth measure: e.g. if someone later re-adds a TTY, or if a command uses /dev/tty directly. I'll keep GIT_TERMINAL_PROMPT=0 and drop the rest? Or keep them all?
The issue says "make surgical changes". The env vars were added specifically to work around the TTY (per the comment: "A TTY is attached (see doc comment above), which makes git's isatty-based color.ui=auto default to enabling ANSI color codes..."). Now that the TTY is gone, those workarounds are dead weight. But removing them is also a behavior change... They're harmless though. Hmm.
I think the cleanest thing is: since their stated purpose was TTY-related, remove the TTY-specific env vars (NO_COLOR, GIT_CONFIG color.ui, GIT_PAGER, PAGER), and keep GIT_TERMINAL_PROMPT=0. It's a general safety net against credential prompt hangs (e.g. if a command opens /dev/tty directly, or if the image has a getty... no, that's not right). Actually, let me reconsider: GIT_TERMINAL_PROMPT=0 prevents git from prompting for credentials on the terminal. Without a TTY, git would fail with "terminal prompts disabled" anyway... Actually, without a TTY, git's credential prompt fails because there's no terminal to read from. GIT_TERMINAL_PROMPT=0 makes it deterministic. I'll keep it — it directly addresses the "something could be waiting for a password input" concern for git specifically.
Hmm, but wait. Let me be careful about scope. The issue asks to remove the PTY and fix the problems. The env var comment explicitly says they exist because of the TTY. Removing the TTY makes the comment stale. I'll update the comment and keep only GIT_TERMINAL_PROMPT=0 (with an updated comment explaining it's a safety net against credential prompt hangs). Actually — is GIT_TERMINAL_PROMPT=0 still needed? The concern in the issue: "All commands will be assigned a TTY, so they expect to be interactive. Something could be waiting for a password input." Without a TTY, commands that need a password will fail (not hang), because there's no terminal. E.g. `git push` to a private repo without credentials: with a TTY it might prompt and hang; without a TTY it fails with "could not read Username for ...: No such device or address". GIT_TERMINAL_PROMPT=0 makes that failure cleaner: "terminal prompts disabled".
I'll keep GIT_TERMINAL_PROMPT=0 as defense-in-depth and remove the rest with a comment update. Hmm, actually, let me reconsider once more. Removing NO_COLOR and the git color config: any risk? If a command writes to a TTY... there's no TTY anymore. The only way a command gets a TTY is if it opens /dev/tty itself (rare, e.g. sudo). In that case NO_COLOR won't help anyway (it's an env var for the child process... no, actually, NO_COLOR is inherited by the child process, so it would help if sudo's child honors it). Well — these are all belt-and-suspenders.
Decision: keep it simple and surgical. Remove the TTY, demultiplex the streams, and update the env var block: keep GIT_TERMINAL_PROMPT=0 (still a meaningful safety net against credential prompt hangs), remove the TTY-specific workarounds (NO_COLOR, GIT_CONFIG_* color.ui, GIT_PAGER, PAGER) since without a TTY git won't colorize or page. Update the doc comment accordingly.
Hmm, wait. Actually, let me reconsider keeping PAGER=cat. Without a TTY, git doesn't page. But what about `less` explicitly invoked by the user? `less` without a TTY... `less` detects no terminal and just dumps the input (or exits). Not our concern.
OK, one more consideration: the `read_file` tool's command:
```sh
f='...'; [ -f "$f" ] || { echo "read_file: no such file: $f" >&2; exit 1; }; wc -l < "$f"; sed -n 'from,top' "$f"
```
This writes the error to stderr and exits 1. Currently, with the TTY, the combined output includes the error message, and `readFile` returns `fmt.Errorf("read %q: %w", ...)` — discarding the output! So currently, "no such file" messages are also discarded (the agent just sees `read "x": command exited with status 1`). With my change, I should include the output in these errors so the agent gets useful feedback. That's part of "fix the problems" — the general pattern of discarding output on failure.
Let me be careful about scope: the issue is specifically about the bash tool. But the root cause (PTY + discarding output on error) affects all tools that use Exec. The most valuable fix for the agent experience:
1. No PTY (docker.go).
2. Demultiplexed stdout/stderr (docker.go).
3. `bash` tool: include output in the error on non-zero exit.
4. Other tools: use stdout for parsing (they already parse `output`, which will now be stdout only — good, since stderr noise like sed warnings would previously have broken parsing... actually, with the TTY, stderr was merged into output, so e.g. `wc -l` output could be interleaved with stderr. Now stdout is clean. Strictly an improvement).
For tools like read_file/list_files/grep_search, I'll make the error messages include stderr (or the combined output) so failures are informative. Let me check each:
- `read_file.go`: `return "", fmt.Errorf("read %q: %w", params.Path, err)` — err is "command exited with status 1". The "no such file" message on stderr is lost. I'll include the output: `fmt.Errorf("read %q: %w: %s", ...)` hmm, need to be careful about formatting. Let me think about the shape of the error from `runContext.Exec`.
Design for `runContext.Exec`:
```go
func (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {
stdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)
if err != nil {
return stdout, stderr, err
}
if exitCode != 0 {
return stdout, stderr, fmt.Errorf("command exited with status %d", exitCode)
}
return stdout, stderr, nil
}
```
And the bash tool:
```go
stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", fmt.Errorf("command failed: %w\n%s", err, combined)
}
return combined, nil
```
Hmm, wait, what should the combined output look like? Let me define a helper in the tools package:
```go
// combinedOutput merges stdout and stderr into a single string for
// presentation: stdout first, then stderr if the command wrote to
// both.
func combinedOutput(stdout, stderr string) string {
switch {
case stdout == "" && stderr == "":
return ""
case stderr == "":
return stdout
case stdout == "":
return stderr
default:
return stdout + "\n" + stderr
}
}
```
Hmm, if both are non-empty and stdout doesn't end with a newline, `stdout + "\n" + stderr` handles it. Good.
Should stderr be labeled? E.g.:
```
<stdout content>
[stderr]
<stderr content>
```
I think labeling is more honest and helps the LLM understand where the error message came from. But it adds noise. Let me think about what an experienced developer would do... Many agent harnesses (e.g. Claude Code) show stderr inline without a label. But this issue is from a maintainer who is annoyed by combining. A label makes it explicit that the streams are separate.
Hmm, let me look at how the tool result is consumed: it's fed back to the LLM as the tool result, and logged to the store/hub. I'll go with a light label only when both streams are non-empty:
Actually, you know what — let me keep it minimal: no label, stdout then stderr. The LLM handles "ls: cannot access..." fine. Adding a "[stderr]" marker is a judgment call...
Let me reconsider the issue author's intent once more: "the bash tool combines stdout and stderr. Is this really wise? I think it adds more hassle than it gives us." — I read this as: the PTY-based combining is bad (CRLF, interleaving, interactive expectations). The fix is to remove the PTY. Whether the final tool result presents both streams in one string is a separate question — the agent needs to see both to be effective. The three concrete problems are the TTY, discarded stderr, and CRLF. I'll fix those and present both streams in the result (stdout first, stderr after), which is strictly better than the PTY merge (no CRLF, no interleaving, nothing discarded).
Now, the timeout case: currently on timeout, the container is force-removed and the error is "command timed out after N seconds". The partial output is discarded. Should we include the partial output on timeout? The read goroutine may have partial output. With the current structure, on ctx.Done we discard `res.output` (we `<-readDone` to drain but don't use it). We could include the partial output in the timeout error. That's a nice improvement: "command timed out after N seconds: <partial output>". Hmm, but partial output on timeout could be large... The tool result has no explicit size limit here. Let me check if there's a truncation mechanism for tool results somewhere in the llm loop.
Let me check loop.go for how tool results are handled (truncation, etc.).
Also, I need to check `go.mod` for the docker dependency version to make sure `pkg/stdcopy` is available.
Let me also check the rest of `sandboxgit.go` (lines 120-158) and `loop.go`.
Let me look at the remaining pieces — the rest of sandboxgit.go, the loop, and go.mod:
Tool 🔧 read_file {"end_line": 158, "path": "internal/agentrun/sandboxgit.go", "start_line": 120}
Arguments
{"end_line": 158, "path": "internal/agentrun/sandboxgit.go", "start_line": 120}
Result
{"path":"internal/agentrun/sandboxgit.go","content":"// and checks out a fresh branch off defaultBranch. The clone\r\n// authenticates via the http.\u003chost\u003e.extraHeader configured by\r\n// configureSandboxGit, and the origin remote is left with the plain\r\n// cloneURL: no credential ends up in the working tree.\r\nfunc cloneAndBranch(ctx context.Context, rt *dockerRuntime, containerID, cloneURL, defaultBranch, branch string) error {\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"clone\", \"--branch\", defaultBranch, \"--single-branch\", cloneURL, \"/project\"); err != nil {\r\n\t\treturn fmt.Errorf(\"clone: %w\", err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"checkout\", \"-b\", branch); err != nil {\r\n\t\treturn fmt.Errorf(\"checkout branch %q: %w\", branch, err)\r\n\t}\r\n\r\n\treturn nil\r\n}\r\n\r\n// clonePRHead clones cloneURL into /project inside the container and\r\n// checks out the pull request's head as a local branch named headRef,\r\n// so commits the agent makes push straight to the PR. The head is\r\n// fetched via the PR's refs/pull/\u003cn\u003e/head ref rather than by branch\r\n// name, which also works for PRs opened from a fork, where the head\r\n// branch doesn't exist in the base repo.\r\nfunc clonePRHead(ctx context.Context, rt *dockerRuntime, containerID, cloneURL, defaultBranch, headRef string, index int64) error {\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"clone\", \"--branch\", defaultBranch, \"--single-branch\", cloneURL, \"/project\"); err != nil {\r\n\t\treturn fmt.Errorf(\"clone: %w\", err)\r\n\t}\r\n\r\n\tfetchRef := fmt.Sprintf(\"refs/pull/%d/head\", index)\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"fetch\", \"--no-tags\", \"origin\", fetchRef); err != nil {\r\n\t\treturn fmt.Errorf(\"fetch PR %d head: %w\", index, err)\r\n\t}\r\n\r\n\tif _, err := runSandboxGit(ctx, rt, containerID, \"checkout\", \"-B\", headRef, \"FETCH_HEAD\"); err != nil {\r\n\t\treturn fmt.Errorf(\"checkout PR head %q: %w\", headRef, err)\r\n\t}\r\n\r\n\treturn nil\r\n}\r","start_line":120,"end_line":158,"total_lines":158,"truncated":false}
Tool 🔧 read_file {"path": "go.mod", "start_line": 1, "end_line": 60}
Arguments
{"path": "go.mod", "start_line": 1, "end_line": 60}
Result
{"path":"go.mod","content":"module github.com/abrander/zoo\r\n\r\ngo 1.26.4\r\n\r\nrequire (\r\n\tcodeberg.org/mvdkleijn/forgejo-sdk/forgejo/v2 v2.2.0\r\n\tgithub.com/docker/docker v28.5.2+incompatible\r\n\tgithub.com/google/uuid v1.6.0\r\n\tgithub.com/hashicorp/hcl/v2 v2.24.0\r\n\tmodernc.org/sqlite v1.56.0\r\n)\r\n\r\nrequire (\r\n\tgithub.com/42wim/httpsig v1.2.3 // indirect\r\n\tgithub.com/Microsoft/go-winio v0.6.2 // indirect\r\n\tgithub.com/agext/levenshtein v1.2.1 // indirect\r\n\tgithub.com/apparentlymart/go-textseg/v15 v15.0.0 // indirect\r\n\tgithub.com/cespare/xxhash/v2 v2.3.0 // indirect\r\n\tgithub.com/containerd/errdefs v1.0.0 // indirect\r\n\tgithub.com/containerd/errdefs/pkg v0.3.0 // indirect\r\n\tgithub.com/containerd/log v0.1.0 // indirect\r\n\tgithub.com/davidmz/go-pageant v1.0.2 // indirect\r\n\tgithub.com/distribution/reference v0.6.0 // indirect\r\n\tgithub.com/docker/go-connections v0.8.1 // indirect\r\n\tgithub.com/docker/go-units v0.5.0 // indirect\r\n\tgithub.com/dustin/go-humanize v1.0.1 // indirect\r\n\tgithub.com/felixge/httpsnoop v1.1.0 // indirect\r\n\tgithub.com/go-fed/httpsig v1.1.0 // indirect\r\n\tgithub.com/go-logr/logr v1.4.4 // indirect\r\n\tgithub.com/go-logr/stdr v1.2.2 // indirect\r\n\tgithub.com/google/go-cmp v0.7.0 // indirect\r\n\tgithub.com/hashicorp/go-version v1.7.0 // indirect\r\n\tgithub.com/mattn/go-isatty v0.0.24 // indirect\r\n\tgithub.com/mitchellh/go-wordwrap v1.0.1 // indirect\r\n\tgithub.com/moby/docker-image-spec v1.3.1 // indirect\r\n\tgithub.com/moby/sys/atomicwriter v0.1.0 // indirect\r\n\tgithub.com/moby/term v0.5.2 // indirect\r\n\tgithub.com/morikuni/aec v1.1.0 // indirect\r\n\tgithub.com/ncruces/go-strftime v1.0.0 // indirect\r\n\tgithub.com/opencontainers/go-digest v1.0.0 // indirect\r\n\tgithub.com/opencontainers/image-spec v1.1.1 // indirect\r\n\tgithub.com/pkg/errors v0.9.1 // indirect\r\n\tgithub.com/remyoudompheng/bigfft v0.0.0-20230129092748-24d4a6f8daec // indirect\r\n\tgithub.com/zclconf/go-cty v1.16.3 // indirect\r\n\tgo.opentelemetry.io/auto/sdk v1.2.1 // indirect\r\n\tgo.opentelemetry.io/contrib/instrumentation/net/http/otelhttp v0.70.0 // indirect\r\n\tgo.opentelemetry.io/otel v1.45.0 // indirect\r\n\tgo.opentelemetry.io/otel/exporters/otlp/otlptrace/otlptracehttp v1.45.0 // indirect\r\n\tgo.opentelemetry.io/otel/metric v1.45.0 // indirect\r\n\tgo.opentelemetry.io/otel/trace v1.45.0 // indirect\r\n\tgolang.org/x/crypto v0.39.0 // indirect\r\n\tgolang.org/x/mod v0.37.0 // indirect\r\n\tgolang.org/x/sync v0.22.0 // indirect\r\n\tgolang.org/x/sys v0.47.0 // indirect\r\n\tgolang.org/x/text v0.40.0 // indirect\r\n\tgolang.org/x/time v0.15.0 // indirect\r\n\tgolang.org/x/tools v0.47.0 // indirect\r\n\tgotest.tools/v3 v3.5.2 // indirect\r\n\tmodernc.org/libc v1.74.4 // indirect\r\n\tmodernc.org/mathutil v1.7.1 // indirect\r","start_line":1,"end_line":60,"total_lines":62,"truncated":true}
Tool 🔧 read_file {"path": "internal/agentrun/loop.go", "start_line": 1, "end_line": 150}
Arguments
{"path": "internal/agentrun/loop.go", "start_line": 1, "end_line": 150}
Result
{"path":"internal/agentrun/loop.go","content":"package agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"io\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n\t\"github.com/abrander/zoo/internal/tools\"\r\n)\r\n\r\n// Hooks lets a caller observe a runLoop invocation live, as the model\r\n// streams and tool calls execute, in addition to the final []llm.Message\r\n// it returns. Any of these may be nil.\r\ntype Hooks struct {\r\n\t// OnReasoningDelta and OnContentDelta fire with just the newly\r\n\t// streamed text for the current turn, not the accumulated total.\r\n\tOnReasoningDelta func(delta string)\r\n\tOnContentDelta func(delta string)\r\n\r\n\t// OnTurnEnd fires once per completed streamer round-trip, after the\r\n\t// model's message for that turn is fully received and before any of\r\n\t// its tool calls run.\r\n\tOnTurnEnd func()\r\n\r\n\t// OnTool fires once per tool call, after it has run.\r\n\tOnTool func(name, arguments, result string, toolErr bool)\r\n}\r\n\r\n// runLoop is a headless port of ../a's App.generate(): send messages +\r\n// tool defs, get a completion, run any tool_calls and append their\r\n// results, repeat until a plain finish or ctx is done.\r\nfunc runLoop(ctx context.Context, client *llm.Client, toolsCtx tools.Context, messages []llm.Message, hooks Hooks) ([]llm.Message, error) {\r\n\tfor {\r\n\t\tif err := ctx.Err(); err != nil {\r\n\t\t\treturn messages, err\r\n\t\t}\r\n\r\n\t\tstreamer, err := client.StreamChatCompletion(ctx, \u0026llm.ChatCompletionRequest{\r\n\t\t\tMessages: messages,\r\n\t\t\tStream: true,\r\n\t\t\tTools: tools.All(),\r\n\t\t})\r\n\t\tif err != nil {\r\n\t\t\treturn messages, fmt.Errorf(\"chat completion: %w\", err)\r\n\t\t}\r\n\r\n\t\tvar completion *llm.ChatCompletion\r\n\r\n\t\tvar prevContent, prevReasoning string\r\n\r\n\t\tfor {\r\n\t\t\tc, err := streamer.Get()\r\n\t\t\tif err == io.EOF {\r\n\t\t\t\tbreak\r\n\t\t\t}\r\n\r\n\t\t\tif err != nil {\r\n\t\t\t\treturn messages, fmt.Errorf(\"stream completion: %w\", err)\r\n\t\t\t}\r\n\r\n\t\t\tcompletion = c\r\n\r\n\t\t\tif len(c.Choices) \u003e 0 {\r\n\t\t\t\tmsg := c.Choices[0].Message\r\n\r\n\t\t\t\tif hooks.OnReasoningDelta != nil \u0026\u0026 len(msg.ReasoningContent) \u003e len(prevReasoning) {\r\n\t\t\t\t\thooks.OnReasoningDelta(msg.ReasoningContent[len(prevReasoning):])\r\n\t\t\t\t}\r\n\t\t\t\tprevReasoning = msg.ReasoningContent\r\n\r\n\t\t\t\tif hooks.OnContentDelta != nil \u0026\u0026 len(msg.Content) \u003e len(prevContent) {\r\n\t\t\t\t\thooks.OnContentDelta(msg.Content[len(prevContent):])\r\n\t\t\t\t}\r\n\t\t\t\tprevContent = msg.Content\r\n\t\t\t}\r\n\t\t}\r\n\r\n\t\tif hooks.OnTurnEnd != nil {\r\n\t\t\thooks.OnTurnEnd()\r\n\t\t}\r\n\r\n\t\tif completion == nil || len(completion.Choices) == 0 {\r\n\t\t\treturn messages, fmt.Errorf(\"model returned an empty completion\")\r\n\t\t}\r\n\r\n\t\tchoice := completion.Choices[0]\r\n\t\tmessages = append(messages, choice.Message)\r\n\r\n\t\tif choice.FinishReason != \"tool_calls\" || len(choice.Message.ToolCalls) == 0 {\r\n\t\t\treturn messages, nil\r\n\t\t}\r\n\r\n\t\tfor _, tc := range choice.Message.ToolCalls {\r\n\t\t\tif err := ctx.Err(); err != nil {\r\n\t\t\t\treturn messages, err\r\n\t\t\t}\r\n\r\n\t\t\tresult, err := tools.Call(toolsCtx, tc.FunctionCall)\r\n\r\n\t\t\ttoolErr := err != nil\r\n\t\t\tif toolErr {\r\n\t\t\t\tresult = fmt.Sprintf(\"ERROR CALLING TOOL: %s\", err.Error())\r\n\t\t\t}\r\n\r\n\t\t\tif hooks.OnTool != nil {\r\n\t\t\t\thooks.OnTool(tc.FunctionCall.Name, tc.FunctionCall.Arguments, result, toolErr)\r\n\t\t\t}\r\n\r\n\t\t\tmessages = append(messages, llm.Message{\r\n\t\t\t\tRole: \"tool\",\r\n\t\t\t\tContent: result,\r\n\t\t\t\tToolCallID: tc.Id,\r\n\t\t\t\tName: tc.FunctionCall.Name,\r\n\t\t\t})\r\n\t\t}\r\n\t}\r\n}\r","start_line":1,"end_line":118,"total_lines":118,"truncated":false}
Thinking
Now I have a grasp of the whole picture. Let me check whether `github.com/docker/docker/pkg/stdcopy` is available in the module cache (docker v28.5.2+incompatible — the `pkg/stdcopy` package is part of the docker module, so it should be available).
Let me check if Go is available in this container, and whether there's a vendor directory. Also, let me check the README for how to run tests.
Plan:
1. **`internal/agentrun/docker.go`**:
- Remove `Tty: true` from `ContainerExecCreate` and `ContainerExecAttach`.
- Use `stdcopy.StdCopy` to demultiplex into separate stdout/stderr buffers.
- Return `(stdout, stderr string, exitCode int, err error)`.
- Update the doc comment and the env-var block: keep `GIT_TERMINAL_PROMPT=0`, remove the TTY-specific workarounds (NO_COLOR, GIT_CONFIG color.ui, GIT_PAGER, PAGER).
Wait, let me reconsider removing NO_COLOR and the git color config. The comment says these exist because of the TTY. Without a TTY, `git` with `color.ui=auto` won't emit color codes. So they're unnecessary. But are they harmful? No. Is removing them "surgical"? The issue says "remove the PTY and fix the problems" — cleaning up workarounds that exist only for the PTY is part of doing that properly. I'll remove them and keep GIT_TERMINAL_PROMPT=0 with a comment.
Hmm, actually let me think about GIT_TERMINAL_PROMPT=0 a bit more carefully. The issue's concern: "Something could be waiting for a password input." Without a TTY, a program that wants to prompt for a password will fail with EIO/ENXIO when it tries to read from the terminal (e.g., git: "could not read Username for 'https://...': No such device or address"). So it won't hang. GIT_TERMINAL_PROMPT=0 gives git a deterministic "terminal prompts disabled" error. It's a small safety net, so I'll keep it.
Actually, hmm, one more consideration: `sudo` opens /dev/tty directly. If a command runs `sudo` inside the container, it'll try /dev/tty and fail (no such device) — won't hang. OK.
2. **`internal/agentrun/context.go`**: `runContext.Exec` returns `(stdout, stderr string, err error)`.
3. **`internal/tools/context.go`**: Update the interface + doc comment:
```go
// Exec runs command inside the run's container via `sh -c` and
// returns its stdout and stderr separately. A non-zero exit code is
// an error.
Exec(ctx context.Context, command string) (stdout, stderr string, err error)
```
4. **`internal/tools/bash.go`**:
```go
stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", fmt.Errorf("command failed: %w\n%s", err, combined)
}
return combined, nil
```
Where combined = stdout + stderr (with a separator if both are non-empty).
Should the timeout error include partial output? On timeout, docker.go's exec returns `ctx.Err()` and discards the partial output. We could return partial output... but then the signature would need to change more. Let me keep it simple: timeout error as before. Hmm, but partial output on timeout could be useful. The issue doesn't mention it. Surgical: leave it.
Actually wait — there's a subtlety in the timeout path of docker.go's exec: on ctx.Done, it force-removes the container and then `<-readDone`. The partial output is discarded. That's fine.
But wait, there's an existing subtle bug in the timeout path of bash.go: it checks `execCtx.Err() == context.DeadlineExceeded` — but execCtx is a context with a timeout, so if the command fails for another reason AND the deadline also expired... edge case, not our concern.
Another subtlety: if the command times out, the container is force-removed by docker.exec. Then the run continues? Actually wait — if the container is removed, subsequent tool calls will fail. That's existing behavior (the comment says "force-remove the container to sever the connection if it fires"). Hmm, that seems drastic, but it's existing behavior and not part of this issue. Actually wait, let me re-read:
```go
case <-ctx.Done():
killCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)
defer cancel()
_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})
<-readDone
return "", 0, ctx.Err()
```
Yeah, on timeout it kills the whole container. That's existing behavior and out of scope for this issue. Hmm, but it is related to the "waiting for password input" hang class... The issue's ask is specifically about the PTY. I'll leave the container-kill behavior as is.
5. **`internal/tools/shell.go`**:
- `shellReadFile`: `output, _, err := ctx.Exec(...)` — use stdout only.
- `shellWriteFile`: `_, _, err := ctx.Exec(...)`.
6. **`internal/tools/grep_search.go`**:
- `output, stderr, err := ctx.Exec(...)`.
- On error: if stdout is empty → "No matches found." (grep exits with 1 on no matches, 2 on error). But if stderr is non-empty, that's a real error (e.g., bad pattern). Currently: `if strings.TrimSpace(output) == ""` → no matches. With streams separated, we can be more precise:
```go
if err != nil {
if strings.TrimSpace(stdout) == "" && strings.TrimSpace(stderr) == "" {
return "No matches found.", nil
}
return "", fmt.Errorf("grep_search: %w: %s", err, combined)
}
```
Hmm wait, but grep exits 1 on no matches and 2 on error (bad regex, unreadable file). On exit 2, stderr has the error. On exit 1, both are empty. So:
- err != nil and both empty → "No matches found."
- err != nil and stderr non-empty → real error, include stderr.
- err != nil and stdout non-empty (e.g., grep found some matches but hit an error on some file, exit 2) → hmm, that's partial results. The current code treats this as an error. Let's keep it: return an error with the output included. Actually, for exit 2 with partial stdout... the current behavior returns an error. Let's keep that but include the output in the message.
Actually, let me keep it simpler and closer to the current behavior:
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
// grep exits non-zero (with empty output) when there are no
// matches; that's a normal result, not a tool failure.
if strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) == "" {
return "No matches found.", nil
}
return "", fmt.Errorf("grep_search: %w\n%s", err, output+stderr)
}
```
Hmm, the `head -n` in the pipeline means the exit code is head's (0), not grep's! Wait: `grep ... | head -n 100` — the pipeline's exit status is the last command's (head), which is 0 unless head fails. So err from Exec is basically never non-zero here... unless `set -o pipefail` is set (it's not; sh -c default). So the "No matches found" path via err is basically dead code; the real path is `if strings.TrimSpace(output) == ""` after success. OK, so the change is minimal: use stdout for parsing.
Wait, actually there's a subtlety: with the TTY, grep's stderr (e.g., "grep: /project/.git: binary file matches" — no wait, -I skips binaries; "grep: warning: ...") was being merged into output. Now stderr is separated, so the output parsing is cleaner.
7. **`internal/tools/read_file.go`**:
- `output, stderr, err := ctx.Exec(...)`.
- On error: include stderr in the error message (the "no such file" message):
```go
if err != nil {
return "", fmt.Errorf("read %q: %w: %s", params.Path, err, strings.TrimSpace(stderr))
}
```
Hmm, if stderr is empty, this produces a trailing ": ". Let me handle it:
```go
if err != nil {
if msg := strings.TrimSpace(stderr); msg != "" {
return "", fmt.Errorf("read %q: %w: %s", params.Path, err, msg)
}
return "", fmt.Errorf("read %q: %w", params.Path, err)
}
```
Or use a helper. Let me write a small helper in shell.go or a new file:
```go
// execError formats an Exec failure, appending any output the
// command produced so the caller (and the agent) can see why it
// failed.
func execError(op, path string, err error, stdout, stderr string) error
```
Hmm, let me not over-engineer. Each tool has a slightly different format. Let me just do it inline with a small helper for combining:
Actually, the cleanest thing is: add to shell.go (or a new file `exec.go` in the tools package):
```go
// combineOutput merges a command's stdout and stderr into the
// single string a tool result presents: stdout first, then stderr
// if the command wrote to both.
func combineOutput(stdout, stderr string) string {
if stdout == "" {
return stderr
}
if stderr == "" {
return stdout
}
if !strings.HasSuffix(stdout, "\n") {
return stdout + "\n" + stderr
}
return stdout + stderr
}
```
And for errors:
```go
// execErr wraps an Exec failure with whatever the command printed,
// so a non-zero exit doesn't swallow the error message.
func execErr(err error, stdout, stderr string) error {
if out := strings.TrimSpace(combineOutput(stdout, stderr)); out != "" {
return fmt.Errorf("%w: %s", err, out)
}
return err
}
```
Then read_file: `return "", fmt.Errorf("read %q: %w", params.Path, execErr(err, stdout, stderr))`.
8. **`internal/tools/list_files.go`**: `output, _, err := ctx.Exec(...)`; on error, include output via execErr.
9. **`internal/tools/remove_file.go` / `move_file.go`**: `if _, _, err := ctx.Exec(...); err != nil { return "", fmt.Errorf("remove %q: %w", params.Path, execErr(err, stdout, stderr)) }`. Need to capture stdout/stderr.
10. **`internal/agentrun/sandboxgit.go`** `runSandboxGit`:
```go
func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
if err != nil {
return stdout + stderr, err
}
out := stdout + stderr // hmm
if exitCode != 0 {
return out, fmt.Errorf("git %s: exit %d: %s", args[0], exitCode, out)
}
return out, nil
}
```
For git, combining stdout+stderr is fine (progress goes to stderr). But order matters: for `git clone`, stderr has the progress and stdout is usually empty. For `git log`, stdout has the log. If both are non-empty, the concatenation order stdout-then-stderr could be misleading, but for error messages it doesn't matter much. Let me use a similar combine: stdout, then stderr (with a newline separator if needed).
Actually, for runSandboxGit, the returned string on success is used e.g. for `git config --get` (stdout only), `git branch --show-current` (stdout only), `git log --format` (stdout only). Combining is harmless there.
11. **`internal/agentrun/docker_integration_test.go`**: Update to the new 4-value return signature. Add a test that verifies:
- stdout and stderr are separated (e.g., `echo out; echo err >&2` → stdout "out\n", stderr "err\n").
- No CRLF conversion (check that the output contains "out\n" and not "out\r\n").
- No TTY: `[ -t 1 ] && echo tty || echo notty` → "notty".
- Non-zero exit with stderr: the exit code is returned and stderr is captured.
Let me extend `TestDockerRuntimeExecRoundTrip` with these checks.
12. **`internal/agentrun/context.go`**: Update the signature.
Now — are there other implementations of `tools.Context`? Let me search for implementations (tests may have a fake). Let me grep for "Exec(ctx context.Context, command string)" and check tools_test.go.
Also, let me check whether `internal/tools/tools_test.go` has a fake Context.
Now let me check the tools tests and any other `tools.Context` implementations:
Tool 🔧 read_file {"path": "internal/tools/tools_test.go", "start_line": 1, "end_line": 120}
Arguments
{"path": "internal/tools/tools_test.go", "start_line": 1, "end_line": 120}
Result
{"path":"internal/tools/tools_test.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"strings\"\r\n\t\"testing\"\r\n)\r\n\r\ntype fakeForgejoActions struct {\r\n\tcomments []string\r\n\tassigned []string\r\n\treviews []string\r\n}\r\n\r\nfunc (f *fakeForgejoActions) Comment(body string) error {\r\n\tf.comments = append(f.comments, body)\r\n\treturn nil\r\n}\r\nfunc (f *fakeForgejoActions) OpenPullRequest(head, base, title, body string) error { return nil }\r\nfunc (f *fakeForgejoActions) RequestReview(reviewers []string) error { return nil }\r\nfunc (f *fakeForgejoActions) AddLabel(name string) error { return nil }\r\nfunc (f *fakeForgejoActions) RemoveLabel(name string) error { return nil }\r\nfunc (f *fakeForgejoActions) CloseIssue() error { return nil }\r\nfunc (f *fakeForgejoActions) ReopenIssue() error { return nil }\r\nfunc (f *fakeForgejoActions) AssignIssue(agentName string) error {\r\n\tf.assigned = append(f.assigned, agentName)\r\n\treturn nil\r\n}\r\nfunc (f *fakeForgejoActions) SubmitReview(state, body string) error {\r\n\tf.reviews = append(f.reviews, state)\r\n\treturn nil\r\n}\r\n\r\ntype fakeContext struct {\r\n\tlastCmd string\r\n\toutput string\r\n\terr error\r\n\tfg *fakeForgejoActions\r\n}\r\n\r\nfunc (f *fakeContext) Exec(ctx context.Context, command string) (string, error) {\r\n\tf.lastCmd = command\r\n\treturn f.output, f.err\r\n}\r\n\r\nfunc (f *fakeContext) Forgejo() ForgejoActions {\r\n\treturn f.fg\r\n}\r\n\r\nfunc TestShellQuote(t *testing.T) {\r\n\tcases := map[string]string{\r\n\t\t\"simple\": \"'simple'\",\r\n\t\t\"it's a dir\": `'it'\\''s a dir'`,\r\n\t}\r\n\tfor in, want := range cases {\r\n\t\tif got := shellQuote(in); got != want {\r\n\t\t\tt.Errorf(\"shellQuote(%q) = %q, want %q\", in, got, want)\r\n\t\t}\r\n\t}\r\n}\r\n\r\nfunc TestReadFileParsesMetaAndContent(t *testing.T) {\r\n\tfc := \u0026fakeContext{output: \"3\\nline one\\nline two\\nline three\\n\"}\r\n\r\n\tout, err := readFile(fc, readFileParams{Path: \"src/main.go\"})\r\n\tif err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\r\n\tif !strings.Contains(fc.lastCmd, \"/project/src/main.go\") {\r\n\t\tt.Fatalf(\"expected command to reference /project/src/main.go, got %q\", fc.lastCmd)\r\n\t}\r\n\tif !strings.Contains(out, \"line one\") || !strings.Contains(out, `\"total_lines\":3`) {\r\n\t\tt.Fatalf(\"unexpected result: %s\", out)\r\n\t}\r\n\tif strings.Contains(out, `\"truncated\":true`) {\r\n\t\tt.Fatalf(\"full read should not be truncated: %s\", out)\r\n\t}\r\n}\r\n\r\nfunc TestCommentToolCallsForgejo(t *testing.T) {\r\n\tfg := \u0026fakeForgejoActions{}\r\n\tfc := \u0026fakeContext{fg: fg}\r\n\r\n\tif _, err := comment(fc, commentParams{Body: \"hello\"}); err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\r\n\tif len(fg.comments) != 1 || fg.comments[0] != \"hello\" {\r\n\t\tt.Fatalf(\"unexpected comments: %v\", fg.comments)\r\n\t}\r\n}\r\n\r\nfunc TestAssignIssueToolCallsForgejo(t *testing.T) {\r\n\tfg := \u0026fakeForgejoActions{}\r\n\tfc := \u0026fakeContext{fg: fg}\r\n\r\n\tout, err := assignIssue(fc, assignIssueParams{Agent: \"greg\"})\r\n\tif err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\tif out != \"Assigned to greg\" {\r\n\t\tt.Fatalf(\"unexpected result: %q\", out)\r\n\t}\r\n\tif len(fg.assigned) != 1 || fg.assigned[0] != \"greg\" {\r\n\t\tt.Fatalf(\"unexpected assignments: %v\", fg.assigned)\r\n\t}\r\n}\r\n\r\nfunc TestSubmitReviewToolCallsForgejo(t *testing.T) {\r\n\tfg := \u0026fakeForgejoActions{}\r\n\tfc := \u0026fakeContext{fg: fg}\r\n\r\n\tout, err := submitReview(fc, submitReviewParams{State: \"changes_requested\", Body: \"please fix\"})\r\n\tif err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\tif out != \"Review submitted\" {\r\n\t\tt.Fatalf(\"unexpected result: %q\", out)\r","start_line":1,"end_line":120,"total_lines":182,"truncated":true}
Tool 🔧 grep_search {"glob": "*.go", "query": "Exec\\(ctx context\\.Context, command string\\)"}
Arguments
{"glob": "*.go", "query": "Exec\\(ctx context\\.Context, command string\\)"}
Result
/project/internal/tools/context.go:14: Exec(ctx context.Context, command string) (string, error)
/project/internal/tools/tools_test.go:42:func (f *fakeContext) Exec(ctx context.Context, command string) (string, error) {
/project/internal/agentrun/context.go:19:func (c *runContext) Exec(ctx context.Context, command string) (string, error) {
Thinking
Let's check the rest of tools_test.go and see whether there are any other tests that use fakeContext with output/err.
Tool 🔧 read_file {"end_line": 182, "path": "internal/tools/tools_test.go", "start_line": 120}
Arguments
{"end_line": 182, "path": "internal/tools/tools_test.go", "start_line": 120}
Result
{"path":"internal/tools/tools_test.go","content":"\t\tt.Fatalf(\"unexpected result: %q\", out)\r\n\t}\r\n\tif len(fg.reviews) != 1 || fg.reviews[0] != \"changes_requested\" {\r\n\t\tt.Fatalf(\"unexpected reviews: %v\", fg.reviews)\r\n\t}\r\n}\r\n\r\n// An approval needs no body, but any other verdict does.\r\nfunc TestSubmitReviewRequiresBodyUnlessApproved(t *testing.T) {\r\n\tfg := \u0026fakeForgejoActions{}\r\n\tfc := \u0026fakeContext{fg: fg}\r\n\r\n\tif _, err := submitReview(fc, submitReviewParams{State: \"approved\", Body: \"\"}); err != nil {\r\n\t\tt.Fatalf(\"approval with empty body should be allowed, got %v\", err)\r\n\t}\r\n\r\n\tif _, err := submitReview(fc, submitReviewParams{State: \"changes_requested\", Body: \" \"}); err == nil {\r\n\t\tt.Fatal(\"expected an error for a changes_requested review with an empty body\")\r\n\t}\r\n}\r\n\r\nfunc TestGrepSearchUsesExtendedRegex(t *testing.T) {\r\n\tfc := \u0026fakeContext{output: \"/project/foo.go:1:foo|bar\\n\"}\r\n\r\n\tout, err := grepSearch(fc, grepSearchParams{Pattern: `foo|bar`})\r\n\tif err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\tif !strings.Contains(fc.lastCmd, \"grep -Rn -I -E\") {\r\n\t\tt.Fatalf(\"expected grep to be invoked with -E (extended regex), got %q\", fc.lastCmd)\r\n\t}\r\n\tif !strings.Contains(out, \"foo|bar\") {\r\n\t\tt.Fatalf(\"unexpected result: %s\", out)\r\n\t}\r\n}\r\n\r\nfunc TestGrepSearchNoMatches(t *testing.T) {\r\n\tfc := \u0026fakeContext{output: \"\", err: fmt.Errorf(\"exit status 1\")}\r\n\r\n\tout, err := grepSearch(fc, grepSearchParams{Pattern: \"nomatch\"})\r\n\tif err != nil {\r\n\t\tt.Fatal(err)\r\n\t}\r\n\tif out != \"No matches found.\" {\r\n\t\tt.Fatalf(\"unexpected result: %q\", out)\r\n\t}\r\n}\r\n\r\nfunc TestRegistryRoundTrip(t *testing.T) {\r\n\tif len(All()) == 0 {\r\n\t\tt.Fatal(\"expected registered tools\")\r\n\t}\r\n\r\n\tfound := false\r\n\tfor _, tl := range All() {\r\n\t\tif tl.Function.Name == \"bash\" {\r\n\t\t\tfound = true\r\n\t\t}\r\n\t}\r\n\tif !found {\r\n\t\tt.Fatal(\"expected bash tool to be registered\")\r\n\t}\r\n}\r","start_line":120,"end_line":182,"total_lines":182,"truncated":false}
Thinking
Now I have a grasp of the overall picture. Let me check whether Go is available in this container and whether the project can be built.
Let me draw up a final design:
### Design
**`internal/agentrun/docker.go` — `exec`:**
- Remove `Tty: true` from `ContainerExecCreate` and `ContainerExecAttach`.
- Demultiplex the attached stream with `stdcopy.StdCopy(stdoutBuf, stderrBuf, attached.Reader)` (Docker's stdcopy framing when there's no TTY).
- Return `(stdout, stderr string, exitCode int, err error)`.
- Environment variables: keep only `GIT_TERMINAL_PROMPT=0` (a safety measure against credential prompts), and remove the TTY-specific workarounds (`NO_COLOR`, `GIT_CONFIG_*` color.ui, `GIT_PAGER`, `PAGER`). These were only needed because the TTY made git think it was attached to a terminal. Update the doc comment to explain the no-TTY rationale.
Wait, actually, let me reconsider whether to keep NO_COLOR. Hmm. Without a TTY, git won't colorize. But what about other tools that colorize based on, say, `--color=always`? That's explicit, so the user asked for it. Tools that colorize "when output is a terminal" won't, because there's no TTY. So NO_COLOR is unnecessary. Remove it.
Hmm, one more point about `GIT_PAGER=cat`/`PAGER=cat`: without a TTY, git won't invoke a pager. Remove it.
**`internal/agentrun/context.go` — `runContext.Exec`:**
```go
// Exec runs command inside the container via `sh -c` and returns its
// stdout and stderr separately. A non-zero exit code is an error.
func (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {
stdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)
if err != nil {
return stdout, stderr, err
}
if exitCode != 0 {
return stdout, stderr, fmt.Errorf("command exited with status %d", exitCode)
}
return stdout, stderr, nil
}
```
**`internal/tools/context.go` — interface:**
```go
// Exec runs command inside the run's container via `sh -c` and
// returns its stdout and stderr as separate strings. A non-zero exit
// code is an error; the output is still returned so callers can
// surface it.
Exec(ctx context.Context, command string) (stdout, stderr string, err error)
```
**`internal/tools/shell.go`** (or a new file) — helpers:
```go
// combineOutput merges a command's stdout and stderr into the single
// string a tool result presents: stdout first, then stderr if the
// command wrote to both.
func combineOutput(stdout, stderr string) string {
switch {
case stdout == "":
return stderr
case stderr == "":
return stdout
case strings.HasSuffix(stdout, "\n"):
return stdout + stderr
default:
return stdout + "\n" + stderr
}
}
// execErr wraps an Exec failure with whatever the command printed, so
// a non-zero exit code doesn't swallow the error message.
func execErr(err error, stdout, stderr string) error {
if out := strings.TrimSpace(combineOutput(stdout, stderr)); out != "" {
return fmt.Errorf("%w: %s", err, out)
}
return err
}
```
**`internal/tools/bash.go`:**
```go
stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", fmt.Errorf("command failed: %w", execErr(err, stdout, stderr))
}
return combineOutput(stdout, stderr), nil
```
Wait — `fmt.Errorf("command failed: %w", execErr(err, stdout, stderr))` — execErr returns either err or a wrapped error, and %w works with either. Good.
**`internal/tools/shell.go`:**
- shellReadFile: `output, _, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))`
- shellWriteFile: `if _, _, err := ctx.Exec(context.Background(), cmd); err != nil { return fmt.Errorf("write %q: %w", path, execErr(err, stdout, stderr)) }` — need to capture the values:
```go
stdout, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return fmt.Errorf("write %q: %w", path, execErr(err, stdout, stderr))
}
```
**`internal/tools/grep_search.go`:**
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
// grep exits non-zero (with empty output) when there are no
// matches; that's a normal result, not a tool failure.
if strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) == "" {
return "No matches found.", nil
}
return "", fmt.Errorf("grep_search: %w", execErr(err, output, stderr))
}
```
(The rest is unchanged — parse `output`.)
**`internal/tools/read_file.go`:**
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("read %q: %w", params.Path, execErr(err, output, stderr))
}
```
(The "no such file" message is emitted to stderr, so it now shows up.)
**`internal/tools/list_files.go`:**
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("list %q: %w", params.Path, execErr(err, output, stderr))
}
```
**`internal/tools/remove_file.go`:**
```go
stdout, stderr, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p))
if err != nil {
return "", fmt.Errorf("remove %q: %w", params.Path, execErr(err, stdout, stderr))
}
```
**`internal/tools/move_file.go`:** Same pattern.
**`internal/agentrun/sandboxgit.go` — runSandboxGit:**
```go
func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
out := stdout + stderr // hmm, need to be careful about newlines
if err != nil {
return out, err
}
if exitCode != 0 {
return out, fmt.Errorf("git %s: exit %d: %s", args[0], exitCode, out)
}
return out, nil
}
```
For git, combining is fine (progress is emitted to stderr). The agentrun package doesn't have the combineOutput helper (that's in the tools package). I could either write a small local combine or just concatenate. For the error message, the order of stdout+stderr doesn't matter much. Let me write it cleanly:
```go
func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
// git writes progress to stderr, so the two streams are combined
// for the single output string callers expect.
out := stdout
if stderr != "" {
if out != "" && !strings.HasSuffix(out, "\n") {
out += "\n"
}
out += stderr
}
if err != nil {
return out, err
}
if exitCode != 0 {
return out, fmt.Errorf("git %s: exit %d: %s", args[0], exitCode, out)
}
return out, nil
}
```
Hmm, wait. Actually, for the success case of `git config --get`, stdout is the value and stderr is empty. For `git clone`, stdout is empty and stderr is the progress. For `git log`, stdout is the log. Combining is fine.
**`internal/agentrun/docker_integration_test.go`:** Update the calls to the new signature and add stream-separation checks:
```go
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")
...
if stdout != "hello-from-zoo\n" { t.Fatalf(...) }
if stderr != "" { ... }
// streams are separate and unframed: no TTY, no CRLF conversion
stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "echo out; echo err 1>&2; [ -t 1 ] && echo tty || echo no-tty")
```
Hmm, let me write a dedicated test:
```go
func TestDockerRuntimeExecStreams(t *testing.T) {
rt, err := newDockerRuntime()
...
containerID, err := rt.createContainer(ctx, "debian:unstable", nil, "zoo-test-streams")
...
// stdout and stderr come back as separate, unframed strings —
// no TTY, so no CRLF conversion and no interleaving.
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo out; echo err 1>&2")
if err != nil { t.Fatalf("exec: %v", err) }
if exitCode != 0 { t.Fatalf("expected exit code 0, got %d", exitCode) }
if stdout != "out\n" { t.Fatalf("stdout = %q, want %q", stdout, "out\n") }
if stderr != "err\n" { t.Fatalf("stderr = %q, want %q", stderr, "err\n") }
// the command must not see a TTY on its stdout
stdout, _, exitCode, err = rt.exec(ctx, containerID, "[ -t 1 ] && echo tty || echo no-tty")
...
if stdout != "no-tty\n" { ... }
// a non-zero exit still returns its stderr
stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "echo boom 1>&2; exit 3")
if err != nil { t.Fatalf("exec: %v", err) }
if exitCode != 3 { ... }
if stdout != "" { ... }
if stderr != "boom\n" { ... }
}
```
And update the existing round-trip test to the new signature.
Also, the `TestDockerRuntimeGitSafeDirectory` test uses `output, _, err := rt.exec(...)` — wait, that's a 3-value call: `output, _, err = rt.exec(ctx, containerID, "git status")`. Now it becomes 4 values: `output, _, _, err`. And `output, exitCode, err := rt.exec(...)` → `output, _, exitCode, err`.
Let me enumerate all the rt.exec call sites in the integration tests:
1. Line 32: `output, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")` → `output, _, exitCode, err`
2. Line 43: `_, exitCode, err = rt.exec(ctx, containerID, "exit 3")` → `_, _, exitCode, err =`
3. Line 77: `output, _, err := rt.exec(ctx, containerID, "git status")` → `output, _, _, err :=`
4. Line 86: `output, exitCode, err := rt.exec(ctx, containerID, "git config --system --add safe.directory '*'")` → `output, _, exitCode, err :=`
5. Line 91: `output, exitCode, err = rt.exec(ctx, containerID, "git status")` → `output, _, exitCode, err =`
6. Line 180: `if _, exitCode, err := rt.exec(ctx, containerID, "echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'"); ...` → `if _, _, exitCode, err := ...`
7. Line 201: `out, _, err = rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")` → `out, _, _, err =`
Also, in TestDockerRuntimeGitSafeDirectory, the first `git status` before the fix: the output contains "dubious ownership" — that message is emitted to **stderr**! Let me verify: git's "detected dubious ownership" fatal error goes to stderr. With TTY it was combined, so `output` contained it. Without TTY, `output` (stdout) is empty, and the message is in stderr. So that test needs to check stderr (or the combined output):
```go
stdout, stderr, _, err := rt.exec(ctx, containerID, "git status")
if err != nil { t.Fatalf("exec: %v", err) }
if !strings.Contains(stderr, "dubious ownership") {
t.Fatalf("expected the bind mount to reproduce dubious ownership before the fix, got stdout=%q stderr=%q", stdout, stderr)
}
```
Good catch — this test actually validates stream separation.
And the second `git status` after the fix: `exitCode != 0 || strings.Contains(output, "dubious ownership")` → check both streams:
```go
stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "git status")
if err != nil { t.Fatalf("exec: %v", err) }
if exitCode != 0 || strings.Contains(stdout, "dubious ownership") || strings.Contains(stderr, "dubious ownership") {
t.Fatalf("expected git status to succeed after the fix, got exit=%d: %s%s", exitCode, stdout, stderr)
}
```
Also, the `git status` output in the fixed case: "On branch main..." goes to stdout. No problem.
In TestDockerRuntimeSandboxGit:
- `runSandboxGit(ctx, rt, containerID, "config", "--system", "--get", ...)` — stdout, no change.
- `runSandboxGit(ctx, rt, containerID, "branch", "--show-current")` — stdout.
- `runSandboxGit(ctx, rt, containerID, "log", "-1", ...)` — stdout.
- `rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")` — grep's output is stdout. `out, _, _, err`.
Now, `configureSandboxGit` uses runSandboxGit — no change in signature.
Next, the stdcopy import: `github.com/docker/docker/pkg/stdcopy`. Let me check whether it's in the module cache. The docker module v28.5.2+incompatible contains pkg/stdcopy. Let me verify with `go build` after the change.
Also, is there network access for `go mod download`? Let me check whether the Go toolchain is available and whether the module cache is populated. Let me try `go build ./...` first.
Another consideration: **the read loop with stdcopy.** `stdcopy.StdCopy(dstOut, dstErr, src)` reads from src until EOF and demultiplexes. It returns an error if the framing is invalid. Replace `io.ReadAll(attached.Reader)` with `stdcopy.StdCopy(&outBuf, &errBuf, attached.Reader)`.
Edge case: if the exec fails to start (e.g., container not running), `ContainerExecCreate` returns an error — no change.
Now, about the `Tty` field on `ContainerExecAttach`: `container.ExecAttachOptions{Tty: true}` → remove it (default false).
Let me also re-check the docker client API for v28: `ContainerExecCreate(ctx, containerID, container.ExecOptions{...})` — in docker v28, ExecOptions has `Tty bool`, `AttachStdout bool`, `AttachStderr bool`. `ContainerExecAttach(ctx, execID, container.ExecAttachOptions{Tty: bool})` returns `(types.HijackedResponse, error)`, which has `.Reader` (io.Reader) and `.Close()`. In v28, the hijacked response's `types.HijackedResponse` — let me check the actual type. In docker v25+, `ContainerExecAttach` returns `types.HijackedResponse`, which is an interface with `io.Reader`, `io.Writer`, `Close()`, `Conn()`, `Broker()`, etc. The current code uses `attached.Reader` and `attached.Close()`, so that works.
Let me verify the current code compiles and check the Go version. Then I'll make the changes.
One more thing — the doc comment on `exec` in docker.go needs to be rewritten:
```go
// exec runs command via `sh -c` inside containerID and returns its
// stdout and stderr separately, plus its exit code.
//
// No TTY is attached: a TTY would make every command believe it is
// interactive (pager launches, credential prompts, ...), and the
// line discipline would rewrite stdout's line endings to CRLF.
// Without a TTY, Docker frames the attached stream with its stdcopy
// format, so the two streams are demultiplexed with stdcopy.StdCopy.
```
And the env comment:
```go
// GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a
// credential from the terminal: with no TTY attached such a prompt
// would just fail, but failing fast with a clear error is better
// than any chance of a hang.
Env: []string{
"GIT_TERMINAL_PROMPT=0",
},
```
Hmm, wait, should I really remove NO_COLOR and the like? Let me think about who runs in the container: the agent's commands. If the agent runs `git diff` — no TTY → no color, no pager. `ls --color=auto` → no color (not a TTY). So yes, the workarounds are dead. Removing them is the right cleanup.
But hmm, one more scenario: a command that explicitly opens /dev/tty (e.g., `sudo`, `ssh` asking for a passphrase, `passwd`). Without a TTY, /dev/tty doesn't exist in the exec session... actually, /dev/tty opens the controlling terminal. A docker exec without a TTY has no controlling terminal, so opening /dev/tty fails with ENXIO. So no hang. Good — this is exactly the fix for the "something could be waiting for a password input" problem: previously, with a TTY, a password prompt could hang forever waiting for input that would never come (well, until the 300-second timeout, and then the whole container would be killed). Now, such commands fail immediately with an error, and the agent can see it.
Wait, actually, hmm: with a TTY, would a password prompt hang? The TTY's stdin is... in the current code, stdin is not attached (no AttachStdin), so reading from the TTY's stdin would... the TTY is created by docker with stdin connected to nothing. A read would block forever (EOF doesn't come). Yes, it would hang until timeout → container killed. That's the worst case the issue describes. Without a TTY: immediate ENXIO error.
Now, let me also think about whether removing the TTY breaks anything in the current flow:
1. `configureSandboxGit` — git config commands: no TTY needed. No problem.
2. `cloneAndBranch`/`clonePRHead` — git clone/fetch/checkout: no TTY needed (GIT_TERMINAL_PROMPT=0 + extraHeader auth means no prompt). No problem.
3. The tools: all plain commands. No problem.
4. The agent's own git operations (push, etc.): no TTY needed. No problem.
One risk: some programs behave differently without a TTY (e.g., `cat` is fine; `less` dumps; `vim` fails — but the agent shouldn't be running vim). No problem.
Now, the CRLF issue: with a TTY, the line discipline converts LF→CRLF on output. Without a TTY, raw bytes. Fixed.
Also, let me think about whether `stdcopy.StdCopy` can handle the case where the stream is closed without proper framing... If the process is killed, Docker closes the stream. StdCopy reads until EOF. If a frame is truncated, it returns an error like "invalid header" — hmm, that would surface as an exec error. But that only happens if the stream is truncated mid-frame, which Docker shouldn't do (it closes after the process exits, and frames are written atomically per chunk). The old code had the same property with ReadAll (no error on truncation, just partial data). A minor edge case, acceptable.
Actually, wait — one more important consideration. When ctx is cancelled (timeout), the current code force-removes the container, which severs the connection, and the read goroutine gets an error or EOF. `<-readDone` drains it. No change.
Now, let me also double-check the `bash` tool's timeout handling. `execCtx` is derived from `context.Background()` (not the run's ctx) — interesting, so a bash timeout doesn't cancel the run. No problem, no change.
Also, `bash.go` has a subtle existing issue: on timeout, `execCtx.Err() == context.DeadlineExceeded` — but if `ctx.Exec` returns an error for another reason (e.g., exec create failure) and the deadline hasn't expired, it returns "command failed: ...". No problem.
But hmm — there's an edge: if the command times out, docker.exec returns `ctx.Err()` = context.DeadlineExceeded. bash.go checks `execCtx.Err() == context.DeadlineExceeded` → "command timed out after N seconds". But if params.Timeout == 0 (no timeout), execCtx never expires, so that branch is dead. No problem.
Now, the interface change ripples to `fakeContext` in tools_test.go:
```go
type fakeContext struct {
lastCmd string
stdout string
stderr string
err error
fg *fakeForgejoActions
}
func (f *fakeContext) Exec(ctx context.Context, command string) (string, string, error) {
f.lastCmd = command
return f.stdout, f.stderr, f.err
}
```
Update the tests that set `output:` to `stdout:`.
Tests that use `output`:
- TestReadFileParsesMetaAndContent: `fc := &fakeContext{output: "3\nline one\nline two\nline three\n"}` → `stdout: ...`
- TestGrepSearchUsesExtendedRegex: `output: "/project/foo.go:1:foo|bar\n"` → `stdout: ...`
- TestGrepSearchNoMatches: `output: "", err: fmt.Errorf("exit status 1")` → `stdout: "", err: ...`
Let me also add a test for the bash tool's behavior: non-zero exit with output → the error includes the output. And a test for combineOutput. Let me add:
```go
func TestBashSurfacesOutputOnFailure(t *testing.T) {
fc := &fakeContext{stdout: "", stderr: "ls: cannot access '/nope': No such file or directory\n", err: fmt.Errorf("command exited with status 2")}
_, err := bash(fc, bashParams{Command: "ls /nope"})
if err == nil {
t.Fatal("expected an error")
}
if !strings.Contains(err.Error(), "cannot access") {
t.Fatalf("expected the command's stderr in the error, got: %v", err)
}
}
func TestBashReturnsCombinedOutput(t *testing.T) {
fc := &fakeContext{stdout: "out\n", stderr: "err\n"}
out, err := bash(fc, bashParams{Command: "cmd"})
if err != nil {
t.Fatal(err)
}
if out != "out\nerr\n" {
t.Fatalf("unexpected output: %q", out)
}
}
```
And a unit test for combineOutput:
```go
func TestCombineOutput(t *testing.T) {
cases := []struct {
stdout, stderr, want string
}{
{"a\n", "", "a\n"},
{"", "b\n", "b\n"},
{"", "", ""},
{"a\n", "b\n", "a\nb\n"},
{"a", "b\n", "a\nb\n"},
}
...
}
```
Now, where to put combineOutput/execErr? These are used by bash.go, shell.go, grep_search.go, read_file.go, list_files.go, remove_file.go, move_file.go. shell.go is a shared helper file for the tools package (shellQuote, resolvePath, shellReadFile, shellWriteFile). I'll add them there.
Now, let me think once more about the bash tool's error format. Currently: `fmt.Errorf("command failed: %w", err)`, where err = "command exited with status 2". New: `fmt.Errorf("command failed: %w", execErr(err, stdout, stderr))` → "command failed: command exited with status 2: ls: cannot access...". Hmm, a bit redundant ("command failed: command exited with status 2"). Let me make it cleaner:
In runContext.Exec, the error is "command exited with status %d". In bash:
```go
return "", fmt.Errorf("%w: %s", err, out) // via execErr
```
→ "command exited with status 2: ls: cannot access '/nope': No such file or directory"
And keep the "command failed:" prefix? The loop prepends "ERROR CALLING TOOL: " anyway. Let me do this:
```go
stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", execErr(err, stdout, stderr)
}
return combineOutput(stdout, stderr), nil
```
So the error is: "command exited with status 2: ls: cannot access '/nope': No such file or directory". Clean, and includes the exit code and the message.
For other tools:
- read_file: `fmt.Errorf("read %q: %w", params.Path, execErr(err, output, stderr))` → `read "src/x": command exited with status 1: read_file: no such file: /project/src/x`.
- list_files: `list %q: %w` similarly.
- remove_file: `remove %q: %w`.
- move_file: `move %q to %q: %w`.
- grep_search: `grep_search: %w`.
- shellWriteFile: `write %q: %w`.
- shellReadFile: currently just returns err. The base64 command failing means the file doesn't exist, and stderr has "base64: /project/x: No such file or directory". Let me improve it:
```go
output, stderr, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
if err != nil {
return nil, execErr(err, output, stderr)
}
```
This improves the read_file tool's error too (it calls shellReadFile... wait, does it? read_file.go builds its own sed command, not shellReadFile. Who uses shellReadFile? Let me grep.)
Let me check the callers of shellReadFile/shellWriteFile.
Let me check who uses `shellReadFile`/`shellWriteFile`, and verify the Go toolchain works:
Tool 🔧 grep_search {"glob": "*.go", "query": "shellReadFile|shellWriteFile"}
Arguments
{"glob": "*.go", "query": "shellReadFile|shellWriteFile"}
Result
/project/internal/tools/write_file.go:28: err := shellWriteFile(ctx, p, []byte(params.Content))
/project/internal/tools/edit-file.go:34: content, err := shellReadFile(ctx, p)
/project/internal/tools/edit-file.go:54: err = shellWriteFile(ctx, p, content)
/project/internal/tools/shell.go:36:func shellReadFile(ctx Context, path string) ([]byte, error) {
/project/internal/tools/shell.go:55:func shellWriteFile(ctx Context, path string, content []byte) error {
Tool 🔧 bash {"command": "cd /project && go version && go build ./... 2>&1 | head -20 && echo BUILD_OK", "timeout": 180}
Arguments
{"command": "cd /project && go version && go build ./... 2>&1 | head -20 && echo BUILD_OK", "timeout": 180}
Result
go version go1.26.7 linux/amd64 go: downloading github.com/docker/docker v28.5.2+incompatible go: downloading github.com/hashicorp/hcl/v2 v2.24.0 go: downloading codeberg.org/mvdkleijn/forgejo-sdk/forgejo/v2 v2.2.0 go: downloading github.com/google/uuid v1.6.0 go: downloading modernc.org/sqlite v1.56.0 go: downloading github.com/docker/go-connections v0.8.1 go: downloading github.com/docker/go-units v0.5.0 go: downloading github.com/moby/docker-image-spec v1.3.1 go: downloading github.com/opencontainers/image-spec v1.1.1 go: downloading github.com/containerd/errdefs v1.0.0 go: downloading github.com/containerd/errdefs/pkg v0.3.0 go: downloading github.com/distribution/reference v0.6.0 go: downloading github.com/opencontainers/go-digest v1.0.0 go: downloading github.com/pkg/errors v0.9.1 go: downloading go.opentelemetry.io/contrib/instrumentation/net/http/otelhttp v0.70.0 go: downloading go.opentelemetry.io/otel/trace v1.45.0 go: downloading go.opentelemetry.io/otel v1.45.0 go: downloading github.com/42wim/httpsig v1.2.3 go: downloading github.com/go-fed/httpsig v1.1.0 go: downloading github.com/hashicorp/go-version v1.7.0 BUILD_OK
Thinking
The build works (dependencies are already downloaded). Next, let's check whether the `stdcopy` package is available within the docker module:
Build works. Let me verify the `stdcopy` package is available in the docker module:
Tool 🔧 bash {"command": "ls $(go env GOMODCACHE)/github.com/docker/docker@v28.5.2+incompatible/pkg/stdcopy/ 2>/dev/null && grep -n \"func StdCopy\" $(go env GOMODCACHE)/github.com/docker/docker@v28.5.2+incompatible/pkg/stdcopy/stdcopy.go | head -5"}
Arguments
{"command": "ls $(go env GOMODCACHE)/github.com/docker/docker@v28.5.2+incompatible/pkg/stdcopy/ 2>/dev/null && grep -n \"func StdCopy\" $(go env GOMODCACHE)/github.com/docker/docker@v28.5.2+incompatible/pkg/stdcopy/stdcopy.go | head -5"}
Result
stdcopy.go stdcopy_test.go
94:func StdCopy(dstout, dsterr io.Writer, src io.Reader) (written int64, _ error) {
Thinking
`stdcopy.StdCopy(dstout, dsterr io.Writer, src io.Reader)` is available.
Alright, let's implement the changes:
### 1. `internal/agentrun/docker.go`
Rewrite `exec`:
```go
// exec runs command via `sh -c` inside containerID and returns its
// stdout and stderr as separate strings, plus its exit code.
//
// No TTY is attached: a TTY would make every command believe it is
// interactive (launching pagers, prompting for credentials, ...) and
// the line discipline would rewrite stdout's line endings to CRLF.
// Without a TTY, Docker frames the attached stream with its stdcopy
// format, so the two streams are demultiplexed with stdcopy.StdCopy.
func (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, string, int, error) {
created, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{
Cmd: []string{"sh", "-c", command},
// GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a
// credential from the terminal. With no TTY attached such a
// prompt would fail anyway, but failing fast with a clear
// error is preferable to any chance of a hang.
Env: []string{"GIT_TERMINAL_PROMPT=0"},
AttachStdout: true,
AttachStderr: true,
})
if err != nil {
return "", "", 0, fmt.Errorf("exec create: %w", err)
}
attached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{})
if err != nil {
return "", "", 0, fmt.Errorf("exec attach: %w", err)
}
defer attached.Close()
// Once hijacked, this stream is a raw connection that ctx cancellation
// no longer reaches — a wedged child process (anything else reading a
// stdin nobody attaches) would otherwise block this read forever, past
// the run's deadline, with no way to recover the job. Race the read
// against ctx and force-remove the container to sever the connection
// if it fires.
type readResult struct {
stdout []byte
stderr []byte
err error
}
readDone := make(chan readResult, 1)
go func() {
var stdout, stderr bytes.Buffer
// Without a TTY the attached stream is Docker's stdcopy-framed
// multiplex of the process's stdout and stderr; StdCopy splits
// it back into the two separate streams.
_, err := stdcopy.StdCopy(&stdout, &stderr, attached.Reader)
readDone <- readResult{stdout.Bytes(), stderr.Bytes(), err}
}()
var stdout, stderr []byte
select {
case res := <-readDone:
if res.err != nil {
return "", "", 0, fmt.Errorf("exec read output: %w", res.err)
}
stdout, stderr = res.stdout, res.stderr
case <-ctx.Done():
killCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)
defer cancel()
_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})
<-readDone
return "", "", 0, ctx.Err()
}
inspect, err := d.cli.ContainerExecInspect(ctx, created.ID)
if err != nil {
return string(stdout), string(stderr), 0, fmt.Errorf("exec inspect: %w", err)
}
return string(stdout), string(stderr), inspect.ExitCode, nil
}
```
Imports: add "bytes" and "github.com/docker/docker/pkg/stdcopy".
Wait, one question: should I keep the NO_COLOR / GIT_CONFIG / PAGER environment variables? I decided to remove them. Let me reconsider just one more time... The comment block says they exist because of the TTY. Without the TTY:
- git's color.ui=auto → disabled (not a TTY).
- git's pager → not launched (not a TTY).
- NO_COLOR → unnecessary.
Removing them is the correct cleanup. GIT_TERMINAL_PROMPT=0 is kept as a safety measure.
### 2. `internal/agentrun/context.go`
```go
func (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {
stdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)
if err != nil {
return stdout, stderr, err
}
if exitCode != 0 {
return stdout, stderr, fmt.Errorf("command exited with status %d", exitCode)
}
return stdout, stderr, nil
}
```
### 3. `internal/tools/context.go`
Update the interface's doc and signature:
```go
// Exec runs command inside the run's container via `sh -c` and
// returns its stdout and stderr as separate strings. A non-zero
// exit code is an error; the output is still returned so callers
// can surface it.
Exec(ctx context.Context, command string) (stdout, stderr string, err error)
```
### 4. `internal/tools/shell.go` — add helpers
```go
// combineOutput merges a command's stdout and stderr into the single
// string a tool result presents: stdout first, then stderr if the
// command wrote to both.
func combineOutput(stdout, stderr string) string {
switch {
case stdout == "":
return stderr
case stderr == "":
return stdout
case strings.HasSuffix(stdout, "\n"):
return stdout + stderr
default:
return stdout + "\n" + stderr
}
}
// execErr wraps an Exec failure with whatever the command printed, so
// a non-zero exit code doesn't swallow the error message.
func execErr(err error, stdout, stderr string) error {
if out := strings.TrimSpace(combineOutput(stdout, stderr)); out != "" {
return fmt.Errorf("%w: %s", err, out)
}
return err
}
```
And update shellReadFile/shellWriteFile:
```go
func shellReadFile(ctx Context, path string) ([]byte, error) {
p := resolvePath(path)
// We use base64 encoding to avoid issues with binary data and
// special characters in the file content. The output of the command
// will be base64-encoded, which we then decode in Go.
output, stderr, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
if err != nil {
return nil, execErr(err, output, stderr)
}
decoded, err := base64.StdEncoding.DecodeString(output)
if err != nil {
return nil, fmt.Errorf("decode base64 output of %q: %w", path, err)
}
return decoded, nil
}
func shellWriteFile(ctx Context, path string, content []byte) error {
p := resolvePath(path)
encoded := base64.StdEncoding.EncodeToString(content)
cmd := fmt.Sprintf(
`mkdir -p "$(dirname %s)" && echo %s | base64 -d > %s`,
shellQuote(p), shellQuote(encoded), shellQuote(p))
stdout, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return fmt.Errorf("write %q: %w", path, execErr(err, stdout, stderr))
}
return nil
}
```
### 5. `internal/tools/bash.go`
```go
stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
return "", execErr(err, stdout, stderr)
}
return combineOutput(stdout, stderr), nil
```
### 6. `internal/tools/grep_search.go`
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
// grep exits non-zero (with empty output) when there are no
// matches; that's a normal result, not a tool failure.
if strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) == "" {
return "No matches found.", nil
}
return "", fmt.Errorf("grep_search: %w", execErr(err, output, stderr))
}
```
### 7. `internal/tools/read_file.go`
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("read %q: %w", params.Path, execErr(err, output, stderr))
}
```
### 8. `internal/tools/list_files.go`
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("list %q: %w", params.Path, execErr(err, output, stderr))
}
```
### 9. `internal/tools/remove_file.go`
```go
stdout, stderr, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p))
if err != nil {
return "", fmt.Errorf("remove %q: %w", params.Path, execErr(err, stdout, stderr))
}
```
### 10. `internal/tools/move_file.go`
```go
stdout, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("move %q to %q: %w", params.FromPath, params.ToPath, execErr(err, stdout, stderr))
}
```
### 11. `internal/agentrun/sandboxgit.go` — runSandboxGit
```go
// runSandboxGit runs `git <args...>` inside containerID (in its
// working directory, /project) and returns its combined output (git
// writes progress to stderr, so the two streams are merged). A
// non-zero exit code is an error carrying the output.
func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
out := stdout
if stderr != "" {
if out != "" && !strings.HasSuffix(out, "\n") {
out += "\n"
}
out += stderr
}
if err != nil {
return out, err
}
if exitCode != 0 {
return out, fmt.Errorf("git %s: exit %d: %s", args[0], exitCode, out)
}
return out, nil
}
```
### 12. `internal/agentrun/docker_integration_test.go`
Update all the call sites and add a stream separation test.
### 13. `internal/tools/tools_test.go`
Update fakeContext and the tests, and add new tests for bash.
Alright, let's write all of these changes. Starting with docker.go.
The `stdcopy` package is available. Now I have a complete picture. Let me summarize the problem and my plan:
**Current state** (`internal/agentrun/docker.go`): `exec` creates the exec with `Tty: true` and reads the raw merged stream. This causes all three issues:
1. Commands see a TTY → they assume they're interactive (pager/credential prompts could hang forever)
2. The `bash` tool (and other tools) discards all output when the exit code is non-zero
3. The PTY's line discipline rewrites LF → CRLF
**Plan:**
1. Remove the TTY from `exec`, and demultiplex Docker's stdcopy framing into separate `stdout`/`stderr` buffers (using `pkg/stdcopy.StdCopy`)
2. Change `dockerRuntime.exec` → `(stdout, stderr string, exitCode int, err error)`, and propagate it through `runContext.Exec` and the `tools.Context` interface
3. Make the `bash` tool (and other tools that parse output) surface both streams, and include the output in the error when the exit code is non-zero — nothing gets discarded
4. Update all callers + tests, and add coverage for stream separation
Let's start with `docker.go`:
Tool 🔧 edit_file {"path": "internal/agentrun/docker.go", "find": "import (\n\t\"context\"\n\t\"fmt\"\n\t\"io\"\n\t\"time\"\n\n\t\"github.com/docker/docker/api/types/container\"\n\t\"github.com/docker/docker/client\"\n)", "replace": "import (\n\t\"bytes\"\n\t\"context\"\n\t\"fmt\"\n\t\"time\"\n\n\t\"github.com/docker/docker/api/types/container\"\n\t\"github.com/docker/docker/client\"\n\t\"github.com/docker/docker/pkg/stdcopy\"\n)"}
Arguments
{"path": "internal/agentrun/docker.go", "find": "import (\n\t\"context\"\n\t\"fmt\"\n\t\"io\"\n\t\"time\"\n\n\t\"github.com/docker/docker/api/types/container\"\n\t\"github.com/docker/docker/client\"\n)", "replace": "import (\n\t\"bytes\"\n\t\"context\"\n\t\"fmt\"\n\t\"time\"\n\n\t\"github.com/docker/docker/api/types/container\"\n\t\"github.com/docker/docker/client\"\n\t\"github.com/docker/docker/pkg/stdcopy\"\n)"}
Result
1 occurrences replaced
Thinking
Next, I'll rewrite the exec function.
Tool 🔧 edit_file {"path": "internal/agentrun/docker.go", "find": "// exec runs command via `sh -c` inside containerID and returns its\n// combined stdout+stderr (a TTY is attached so the two streams merge\n// without needing to demultiplex Docker's stdcopy framing) plus its exit\n// code.\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, int, error) {\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\n\t\tCmd: []string{\"sh\", \"-c\", command},\n\t\t// A TTY is attached (see doc comment above), which makes git's\n\t\t// isatty-based color.ui=auto default to enabling ANSI color codes\n\t\t// that pollute the captured job log. NO_COLOR covers tools that\n\t\t// honor that convention; the GIT_CONFIG_* override forces git's\n\t\t// own color.ui to \"never\" regardless of tty detection, since git\n\t\t// does not honor NO_COLOR itself.\n\t\t//\n\t\t// The same isatty check makes git launch a pager for diff/log/show,\n\t\t// and the pager (waiting on a stdin nothing ever attaches or\n\t\t// closes) then blocks forever with no way to time it out — see\n\t\t// exec's read loop below. GIT_PAGER/PAGER=cat disable that.\n\t\t// GIT_TERMINAL_PROMPT=0 closes the same class of hang for\n\t\t// credential prompts on a private remote.\n\t\tEnv: []string{\n\t\t\t\"NO_COLOR=1\",\n\t\t\t\"GIT_CONFIG_COUNT=1\",\n\t\t\t\"GIT_CONFIG_KEY_0=color.ui\",\n\t\t\t\"GIT_CONFIG_VALUE_0=never\",\n\t\t\t\"GIT_PAGER=cat\",\n\t\t\t\"PAGER=cat\",\n\t\t\t\"GIT_TERMINAL_PROMPT=0\",\n\t\t},\n\t\tTty: true,\n\t\tAttachStdout: true,\n\t\tAttachStderr: true,\n\t})\n\tif err != nil {\n\t\treturn \"\", 0, fmt.Errorf(\"exec create: %w\", err)\n\t}\n\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{Tty: true})\n\tif err != nil {\n\t\treturn \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\n\t}\n\tdefer attached.Close()\n\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\n\t// no longer reaches — a wedged child process (pager, credential\n\t// prompt, anything else reading a stdin nobody attaches) would\n\t// otherwise block this read forever, past the run's deadline, with no\n\t// way to recover the job. Race the read against ctx and force-remove\n\t// the container to sever the connection if it fires.\n\ttype readResult struct {\n\t\toutput []byte\n\t\terr error\n\t}\n\n\treadDone := make(chan readResult, 1)\n\n\tgo func() {\n\t\toutput, err := io.ReadAll(attached.Reader)\n\t\treadDone <- readResult{output, err}\n\t}()\n\n\tvar output []byte\n\n\tselect {\n\tcase res := <-readDone:\n\t\tif res.err != nil {\n\t\t\treturn \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\n\t\t}\n\n\t\toutput = res.output\n\n\tcase <-ctx.Done():\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\n\t\tdefer cancel()\n\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\n\t\t<-readDone\n\n\t\treturn \"\", 0, ctx.Err()\n\t}\n\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\n\tif err != nil {\n\t\treturn string(output), 0, fmt.Errorf(\"exec inspect: %w\", err)\n\t}\n\n\treturn string(output), inspect.ExitCode, nil\n}", "replace": "// exec runs command via `sh -c` inside containerID and returns its\n// stdout and stderr as separate strings, plus its exit code.\n//\n// No TTY is attached: a TTY would make every command believe it is\n// interactive (launching pagers, prompting for credentials, ...) and\n// the line discipline would rewrite stdout's line endings to CRLF.\n// Without a TTY, Docker frames the attached stream with its stdcopy\n// format, so the two streams are demultiplexed back apart with\n// stdcopy.StdCopy.\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, string, int, error) {\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\n\t\tCmd: []string{\"sh\", \"-c\", command},\n\t\t// GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a\n\t\t// credential from the terminal. With no TTY attached such a\n\t\t// prompt would fail anyway, but failing fast with a clear error\n\t\t// is preferable to any chance of a hang.\n\t\tEnv: []string{\"GIT_TERMINAL_PROMPT=0\"},\n\t\tAttachStdout: true,\n\t\tAttachStderr: true,\n\t})\n\tif err != nil {\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec create: %w\", err)\n\t}\n\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{})\n\tif err != nil {\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\n\t}\n\tdefer attached.Close()\n\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\n\t// no longer reaches — a wedged child process (anything reading a stdin\n\t// nobody attaches) would otherwise block this read forever, past the\n\t// run's deadline, with no way to recover the job. Race the read against\n\t// ctx and force-remove the container to sever the connection if it\n\t// fires.\n\ttype readResult struct {\n\t\tstdout []byte\n\t\tstderr []byte\n\t\terr error\n\t}\n\n\treadDone := make(chan readResult, 1)\n\n\tgo func() {\n\t\tvar stdout, stderr bytes.Buffer\n\n\t\t// Without a TTY the attached stream is Docker's stdcopy-framed\n\t\t// multiplex of the process's stdout and stderr; StdCopy splits\n\t\t// it back into the two separate streams.\n\t\t_, err := stdcopy.StdCopy(&stdout, &stderr, attached.Reader)\n\n\t\treadDone <- readResult{stdout.Bytes(), stderr.Bytes(), err}\n\t}()\n\n\tvar stdout, stderr []byte\n\n\tselect {\n\tcase res := <-readDone:\n\t\tif res.err != nil {\n\t\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\n\t\t}\n\n\t\tstdout, stderr = res.stdout, res.stderr\n\n\tcase <-ctx.Done():\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\n\t\tdefer cancel()\n\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\n\t\t<-readDone\n\n\t\treturn \"\", \"\", 0, ctx.Err()\n\t}\n\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\n\tif err != nil {\n\t\treturn string(stdout), string(stderr), 0, fmt.Errorf(\"exec inspect: %w\", err)\n\t}\n\n\treturn string(stdout), string(stderr), inspect.ExitCode, nil\n}"}
Arguments
{"path": "internal/agentrun/docker.go", "find": "// exec runs command via `sh -c` inside containerID and returns its\n// combined stdout+stderr (a TTY is attached so the two streams merge\n// without needing to demultiplex Docker's stdcopy framing) plus its exit\n// code.\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, int, error) {\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\n\t\tCmd: []string{\"sh\", \"-c\", command},\n\t\t// A TTY is attached (see doc comment above), which makes git's\n\t\t// isatty-based color.ui=auto default to enabling ANSI color codes\n\t\t// that pollute the captured job log. NO_COLOR covers tools that\n\t\t// honor that convention; the GIT_CONFIG_* override forces git's\n\t\t// own color.ui to \"never\" regardless of tty detection, since git\n\t\t// does not honor NO_COLOR itself.\n\t\t//\n\t\t// The same isatty check makes git launch a pager for diff/log/show,\n\t\t// and the pager (waiting on a stdin nothing ever attaches or\n\t\t// closes) then blocks forever with no way to time it out — see\n\t\t// exec's read loop below. GIT_PAGER/PAGER=cat disable that.\n\t\t// GIT_TERMINAL_PROMPT=0 closes the same class of hang for\n\t\t// credential prompts on a private remote.\n\t\tEnv: []string{\n\t\t\t\"NO_COLOR=1\",\n\t\t\t\"GIT_CONFIG_COUNT=1\",\n\t\t\t\"GIT_CONFIG_KEY_0=color.ui\",\n\t\t\t\"GIT_CONFIG_VALUE_0=never\",\n\t\t\t\"GIT_PAGER=cat\",\n\t\t\t\"PAGER=cat\",\n\t\t\t\"GIT_TERMINAL_PROMPT=0\",\n\t\t},\n\t\tTty: true,\n\t\tAttachStdout: true,\n\t\tAttachStderr: true,\n\t})\n\tif err != nil {\n\t\treturn \"\", 0, fmt.Errorf(\"exec create: %w\", err)\n\t}\n\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{Tty: true})\n\tif err != nil {\n\t\treturn \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\n\t}\n\tdefer attached.Close()\n\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\n\t// no longer reaches — a wedged child process (pager, credential\n\t// prompt, anything else reading a stdin nobody attaches) would\n\t// otherwise block this read forever, past the run's deadline, with no\n\t// way to recover the job. Race the read against ctx and force-remove\n\t// the container to sever the connection if it fires.\n\ttype readResult struct {\n\t\toutput []byte\n\t\terr error\n\t}\n\n\treadDone := make(chan readResult, 1)\n\n\tgo func() {\n\t\toutput, err := io.ReadAll(attached.Reader)\n\t\treadDone <- readResult{output, err}\n\t}()\n\n\tvar output []byte\n\n\tselect {\n\tcase res := <-readDone:\n\t\tif res.err != nil {\n\t\t\treturn \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\n\t\t}\n\n\t\toutput = res.output\n\n\tcase <-ctx.Done():\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\n\t\tdefer cancel()\n\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\n\t\t<-readDone\n\n\t\treturn \"\", 0, ctx.Err()\n\t}\n\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\n\tif err != nil {\n\t\treturn string(output), 0, fmt.Errorf(\"exec inspect: %w\", err)\n\t}\n\n\treturn string(output), inspect.ExitCode, nil\n}", "replace": "// exec runs command via `sh -c` inside containerID and returns its\n// stdout and stderr as separate strings, plus its exit code.\n//\n// No TTY is attached: a TTY would make every command believe it is\n// interactive (launching pagers, prompting for credentials, ...) and\n// the line discipline would rewrite stdout's line endings to CRLF.\n// Without a TTY, Docker frames the attached stream with its stdcopy\n// format, so the two streams are demultiplexed back apart with\n// stdcopy.StdCopy.\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, string, int, error) {\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\n\t\tCmd: []string{\"sh\", \"-c\", command},\n\t\t// GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a\n\t\t// credential from the terminal. With no TTY attached such a\n\t\t// prompt would fail anyway, but failing fast with a clear error\n\t\t// is preferable to any chance of a hang.\n\t\tEnv: []string{\"GIT_TERMINAL_PROMPT=0\"},\n\t\tAttachStdout: true,\n\t\tAttachStderr: true,\n\t})\n\tif err != nil {\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec create: %w\", err)\n\t}\n\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{})\n\tif err != nil {\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\n\t}\n\tdefer attached.Close()\n\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\n\t// no longer reaches — a wedged child process (anything reading a stdin\n\t// nobody attaches) would otherwise block this read forever, past the\n\t// run's deadline, with no way to recover the job. Race the read against\n\t// ctx and force-remove the container to sever the connection if it\n\t// fires.\n\ttype readResult struct {\n\t\tstdout []byte\n\t\tstderr []byte\n\t\terr error\n\t}\n\n\treadDone := make(chan readResult, 1)\n\n\tgo func() {\n\t\tvar stdout, stderr bytes.Buffer\n\n\t\t// Without a TTY the attached stream is Docker's stdcopy-framed\n\t\t// multiplex of the process's stdout and stderr; StdCopy splits\n\t\t// it back into the two separate streams.\n\t\t_, err := stdcopy.StdCopy(&stdout, &stderr, attached.Reader)\n\n\t\treadDone <- readResult{stdout.Bytes(), stderr.Bytes(), err}\n\t}()\n\n\tvar stdout, stderr []byte\n\n\tselect {\n\tcase res := <-readDone:\n\t\tif res.err != nil {\n\t\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\n\t\t}\n\n\t\tstdout, stderr = res.stdout, res.stderr\n\n\tcase <-ctx.Done():\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\n\t\tdefer cancel()\n\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\n\t\t<-readDone\n\n\t\treturn \"\", \"\", 0, ctx.Err()\n\t}\n\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\n\tif err != nil {\n\t\treturn string(stdout), string(stderr), 0, fmt.Errorf(\"exec inspect: %w\", err)\n\t}\n\n\treturn string(stdout), string(stderr), inspect.ExitCode, nil\n}"}
Result
1 occurrences replaced
Thinking
Next, I'll update `internal/agentrun/context.go`:
Now `internal/agentrun/context.go`:
Tool 🔧 read_file {"path": "internal/agentrun/context.go", "start_line": 1, "end_line": 40}
Arguments
{"path": "internal/agentrun/context.go", "start_line": 1, "end_line": 40}
Result
{"path":"internal/agentrun/context.go","content":"package agentrun\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\r\n\t\"github.com/abrander/zoo/internal/tools\"\r\n)\r\n\r\n// runContext implements tools.Context for a single agent run, executing\r\n// shell commands via docker exec against the run's container, and\r\n// binding Forgejo actions to the triggering issue/PR.\r\ntype runContext struct {\r\n\tdocker *dockerRuntime\r\n\tcontainerID string\r\n\tforgejo tools.ForgejoActions\r\n}\r\n\r\nfunc (c *runContext) Exec(ctx context.Context, command string) (string, error) {\r\n\toutput, exitCode, err := c.docker.exec(ctx, c.containerID, command)\r\n\r\n\tif err != nil {\r\n\t\treturn output, err\r\n\t}\r\n\r\n\tif exitCode != 0 {\r\n\t\treturn output, fmt.Errorf(\"command exited with status %d\", exitCode)\r\n\t}\r\n\r\n\treturn output, nil\r\n}\r\n\r\nfunc (c *runContext) Forgejo() tools.ForgejoActions {\r\n\treturn c.forgejo\r\n}\r","start_line":1,"end_line":35,"total_lines":35,"truncated":false}
Thinking
The file has CRLF line endings (the `\r\n` is visible in the content). Wait — actually, looking at the read_file output, the content shows `\r\n`... hmm, does this mean the file actually contains CRLF line endings? Or is the read_file tool displaying it that way? Let me check with bash.
Actually, the JSON output shows "content":"package agentrun\r\n\r\nimport..." — this suggests the file really does have CRLF line endings. Interesting. Let me verify with `file` or `od`.
Tool 🔧 bash {"command": "cd /project && file internal/agentrun/context.go internal/agentrun/docker.go internal/tools/bash.go && git config core.autocrlf; git ls-files --eol internal/agentrun/context.go"}
Arguments
{"command": "cd /project && file internal/agentrun/context.go internal/agentrun/docker.go internal/tools/bash.go && git config core.autocrlf; git ls-files --eol internal/agentrun/context.go"}
Result
sh: 1: file: not found i/lf w/lf attr/ internal/agentrun/context.go
Thinking
`git ls-files --eol` shows `i/lf w/lf` — the file is LF in the index and on disk. So the `\r\n` in the read_file output is just the tool's display format (or the JSON encoding). Wait, that's weird. Let me double-check with od.
Actually, `git ls-files --eol` says `i/lf w/lf attr/` — meaning the index is LF and the worktree is also LF. So the file is LF. The read_file tool must be displaying the content with `\r\n` for some other reason (maybe it's normalizing the display). Alright — my edits with LF should be fine. The edit_file tool matched the text without issue (it found the import block and the exec function), so the line endings are being handled correctly.
Next, I'll update context.go:
Files are LF (the `\r\n` in read_file output is just display encoding). Now update `runContext.Exec`:
Tool 🔧 edit_file {"path": "internal/agentrun/context.go", "find": "func (c *runContext) Exec(ctx context.Context, command string) (string, error) {\n\toutput, exitCode, err := c.docker.exec(ctx, c.containerID, command)\n\n\tif err != nil {\n\t\treturn output, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn output, fmt.Errorf(\"command exited with status %d\", exitCode)\n\t}\n\n\treturn output, nil\n}", "replace": "// Exec runs command inside the container via `sh -c` and returns its\n// stdout and stderr as separate strings. A non-zero exit code is an\n// error; the output is still returned so callers can surface it.\nfunc (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {\n\tstdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)\n\n\tif err != nil {\n\t\treturn stdout, stderr, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn stdout, stderr, fmt.Errorf(\"command exited with status %d\", exitCode)\n\t}\n\n\treturn stdout, stderr, nil\n}"}
Arguments
{"path": "internal/agentrun/context.go", "find": "func (c *runContext) Exec(ctx context.Context, command string) (string, error) {\n\toutput, exitCode, err := c.docker.exec(ctx, c.containerID, command)\n\n\tif err != nil {\n\t\treturn output, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn output, fmt.Errorf(\"command exited with status %d\", exitCode)\n\t}\n\n\treturn output, nil\n}", "replace": "// Exec runs command inside the container via `sh -c` and returns its\n// stdout and stderr as separate strings. A non-zero exit code is an\n// error; the output is still returned so callers can surface it.\nfunc (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {\n\tstdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)\n\n\tif err != nil {\n\t\treturn stdout, stderr, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn stdout, stderr, fmt.Errorf(\"command exited with status %d\", exitCode)\n\t}\n\n\treturn stdout, stderr, nil\n}"}
Result
1 occurrences replaced
Thinking
Next, the `tools.Context` interface in `internal/tools/context.go`:
Tool 🔧 edit_file {"path": "internal/tools/context.go", "find": "\t// Exec runs command inside the run's container via `sh -c` and\n\t// returns combined stdout+stderr.\n\tExec(ctx context.Context, command string) (string, error)", "replace": "\t// Exec runs command inside the run's container via `sh -c` and\n\t// returns its stdout and stderr as separate strings. A non-zero\n\t// exit code is an error; the output is still returned so callers\n\t// can surface it.\n\tExec(ctx context.Context, command string) (stdout, stderr string, err error)"}
Arguments
{"path": "internal/tools/context.go", "find": "\t// Exec runs command inside the run's container via `sh -c` and\n\t// returns combined stdout+stderr.\n\tExec(ctx context.Context, command string) (string, error)", "replace": "\t// Exec runs command inside the run's container via `sh -c` and\n\t// returns its stdout and stderr as separate strings. A non-zero\n\t// exit code is an error; the output is still returned so callers\n\t// can surface it.\n\tExec(ctx context.Context, command string) (stdout, stderr string, err error)"}
Result
1 occurrences replaced
Thinking
Next, I'll update `internal/tools/shell.go` — adding the `combineOutput` and `execErr` helpers, and updating `shellReadFile`/`shellWriteFile`.
Now `internal/tools/shell.go` — add the shared helpers and update the two shell file helpers:
Tool 🔧 edit_file {"path": "internal/tools/shell.go", "find": "func shellReadFile(ctx Context, path string) ([]byte, error) {\n\tp := resolvePath(path)\n\n\t// We use base64 encoding to avoid issues with binary data and\n\t// special characters in the file content. The output of the command\n\t// will be base64-encoded, which we then decode in Go.\n\toutput, err := ctx.Exec(context.Background(), \"base64 \"+shellQuote(p))\n\tif err != nil {\n\t\treturn nil, err\n\t}\n\n\tdecoded, err := base64.StdEncoding.DecodeString(output)\n\tif err != nil {\n\t\treturn nil, fmt.Errorf(\"decode base64 output of %q: %w\", path, err)\n\t}\n\n\treturn decoded, nil\n}", "replace": "// combineOutput merges a command's stdout and stderr into the single\n// string a tool result presents: stdout first, then stderr if the\n// command wrote to both.\nfunc combineOutput(stdout, stderr string) string {\n\tswitch {\n\tcase stdout == \"\":\n\t\treturn stderr\n\tcase stderr == \"\":\n\t\treturn stdout\n\tcase strings.HasSuffix(stdout, \"\\n\"):\n\t\treturn stdout + stderr\n\tdefault:\n\t\treturn stdout + \"\\n\" + stderr\n\t}\n}\n\n// execErr wraps an Exec failure with whatever the command printed, so\n// a non-zero exit code doesn't swallow the error message.\nfunc execErr(err error, stdout, stderr string) error {\n\tif out := strings.TrimSpace(combineOutput(stdout, stderr)); out != \"\" {\n\t\treturn fmt.Errorf(\"%w: %s\", err, out)\n\t}\n\n\treturn err\n}\n\nfunc shellReadFile(ctx Context, path string) ([]byte, error) {\n\tp := resolvePath(path)\n\n\t// We use base64 encoding to avoid issues with binary data and\n\t// special characters in the file content. The output of the command\n\t// will be base64-encoded, which we then decode in Go.\n\toutput, stderr, err := ctx.Exec(context.Background(), \"base64 \"+shellQuote(p))\n\tif err != nil {\n\t\treturn nil, execErr(err, output, stderr)\n\t}\n\n\tdecoded, err := base64.StdEncoding.DecodeString(output)\n\tif err != nil {\n\t\treturn nil, fmt.Errorf(\"decode base64 output of %q: %w\", path, err)\n\t}\n\n\treturn decoded, nil\n}"}
Arguments
{"path": "internal/tools/shell.go", "find": "func shellReadFile(ctx Context, path string) ([]byte, error) {\n\tp := resolvePath(path)\n\n\t// We use base64 encoding to avoid issues with binary data and\n\t// special characters in the file content. The output of the command\n\t// will be base64-encoded, which we then decode in Go.\n\toutput, err := ctx.Exec(context.Background(), \"base64 \"+shellQuote(p))\n\tif err != nil {\n\t\treturn nil, err\n\t}\n\n\tdecoded, err := base64.StdEncoding.DecodeString(output)\n\tif err != nil {\n\t\treturn nil, fmt.Errorf(\"decode base64 output of %q: %w\", path, err)\n\t}\n\n\treturn decoded, nil\n}", "replace": "// combineOutput merges a command's stdout and stderr into the single\n// string a tool result presents: stdout first, then stderr if the\n// command wrote to both.\nfunc combineOutput(stdout, stderr string) string {\n\tswitch {\n\tcase stdout == \"\":\n\t\treturn stderr\n\tcase stderr == \"\":\n\t\treturn stdout\n\tcase strings.HasSuffix(stdout, \"\\n\"):\n\t\treturn stdout + stderr\n\tdefault:\n\t\treturn stdout + \"\\n\" + stderr\n\t}\n}\n\n// execErr wraps an Exec failure with whatever the command printed, so\n// a non-zero exit code doesn't swallow the error message.\nfunc execErr(err error, stdout, stderr string) error {\n\tif out := strings.TrimSpace(combineOutput(stdout, stderr)); out != \"\" {\n\t\treturn fmt.Errorf(\"%w: %s\", err, out)\n\t}\n\n\treturn err\n}\n\nfunc shellReadFile(ctx Context, path string) ([]byte, error) {\n\tp := resolvePath(path)\n\n\t// We use base64 encoding to avoid issues with binary data and\n\t// special characters in the file content. The output of the command\n\t// will be base64-encoded, which we then decode in Go.\n\toutput, stderr, err := ctx.Exec(context.Background(), \"base64 \"+shellQuote(p))\n\tif err != nil {\n\t\treturn nil, execErr(err, output, stderr)\n\t}\n\n\tdecoded, err := base64.StdEncoding.DecodeString(output)\n\tif err != nil {\n\t\treturn nil, fmt.Errorf(\"decode base64 output of %q: %w\", path, err)\n\t}\n\n\treturn decoded, nil\n}"}
Result
1 occurrences replaced
Thinking
Wait, I need to re-check the comment in shellReadFile — it says "the command's output is base64-encoded", and now it's decoding `output`, but this is stdout only. That's correct (base64 writes to stdout).
Next, I'll update shellWriteFile:
Tool 🔧 edit_file {"path": "internal/tools/shell.go", "find": "\tcmd := fmt.Sprintf(\n\t\t`mkdir -p \"$(dirname %s)\" && echo %s | base64 -d > %s`,\n\t\tshellQuote(p), shellQuote(encoded), shellQuote(p))\n\n\t_, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn fmt.Errorf(\"write %q: %w\", path, err)\n\t}\n\n\treturn nil\n}", "replace": "\tcmd := fmt.Sprintf(\n\t\t`mkdir -p \"$(dirname %s)\" && echo %s | base64 -d > %s`,\n\t\tshellQuote(p), shellQuote(encoded), shellQuote(p))\n\n\tstdout, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn fmt.Errorf(\"write %q: %w\", path, execErr(err, stdout, stderr))\n\t}\n\n\treturn nil\n}"}
Arguments
{"path": "internal/tools/shell.go", "find": "\tcmd := fmt.Sprintf(\n\t\t`mkdir -p \"$(dirname %s)\" && echo %s | base64 -d > %s`,\n\t\tshellQuote(p), shellQuote(encoded), shellQuote(p))\n\n\t_, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn fmt.Errorf(\"write %q: %w\", path, err)\n\t}\n\n\treturn nil\n}", "replace": "\tcmd := fmt.Sprintf(\n\t\t`mkdir -p \"$(dirname %s)\" && echo %s | base64 -d > %s`,\n\t\tshellQuote(p), shellQuote(encoded), shellQuote(p))\n\n\tstdout, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn fmt.Errorf(\"write %q: %w\", path, execErr(err, stdout, stderr))\n\t}\n\n\treturn nil\n}"}
Result
1 occurrences replaced
Thinking
Next, the `bash` tool itself — the core of this issue. On non-zero exit, the output must not be discarded:
Tool 🔧 edit_file {"path": "internal/tools/bash.go", "find": "\toutput, err := ctx.Exec(execCtx, params.Command)\n\tif err != nil {\n\t\tif execCtx.Err() == context.DeadlineExceeded {\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"command failed: %w\", err)\n\t}\n\n\treturn output, nil\n}", "replace": "\tstdout, stderr, err := ctx.Exec(execCtx, params.Command)\n\tif err != nil {\n\t\tif execCtx.Err() == context.DeadlineExceeded {\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\n\t\t}\n\n\t\t// A non-zero exit is not a tool failure in itself, but the\n\t\t// output (usually the error message on stderr) must still reach\n\t\t// the agent, so it's carried in the error.\n\t\treturn \"\", execErr(err, stdout, stderr)\n\t}\n\n\treturn combineOutput(stdout, stderr), nil\n}"}
Arguments
{"path": "internal/tools/bash.go", "find": "\toutput, err := ctx.Exec(execCtx, params.Command)\n\tif err != nil {\n\t\tif execCtx.Err() == context.DeadlineExceeded {\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"command failed: %w\", err)\n\t}\n\n\treturn output, nil\n}", "replace": "\tstdout, stderr, err := ctx.Exec(execCtx, params.Command)\n\tif err != nil {\n\t\tif execCtx.Err() == context.DeadlineExceeded {\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\n\t\t}\n\n\t\t// A non-zero exit is not a tool failure in itself, but the\n\t\t// output (usually the error message on stderr) must still reach\n\t\t// the agent, so it's carried in the error.\n\t\treturn \"\", execErr(err, stdout, stderr)\n\t}\n\n\treturn combineOutput(stdout, stderr), nil\n}"}
Result
1 occurrences replaced
Thinking
Next, I'll update the remaining tool callers: grep_search.go, read_file.go, list_files.go, remove_file.go, move_file.go.
Now the remaining tool callers:
Tool 🔧 edit_file {"path": "internal/tools/grep_search.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\t// grep exits non-zero (with empty output) when there are no\n\t\t// matches; that's a normal result, not a tool failure.\n\t\tif strings.TrimSpace(output) == \"\" {\n\t\t\treturn \"No matches found.\", nil\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"grep_search: %w\", err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\t// grep exits non-zero (with empty output) when there are no\n\t\t// matches; that's a normal result, not a tool failure.\n\t\tif strings.TrimSpace(output) == \"\" && strings.TrimSpace(stderr) == \"\" {\n\t\t\treturn \"No matches found.\", nil\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"grep_search: %w\", execErr(err, output, stderr))\n\t}"}
Arguments
{"path": "internal/tools/grep_search.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\t// grep exits non-zero (with empty output) when there are no\n\t\t// matches; that's a normal result, not a tool failure.\n\t\tif strings.TrimSpace(output) == \"\" {\n\t\t\treturn \"No matches found.\", nil\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"grep_search: %w\", err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\t// grep exits non-zero (with empty output) when there are no\n\t\t// matches; that's a normal result, not a tool failure.\n\t\tif strings.TrimSpace(output) == \"\" && strings.TrimSpace(stderr) == \"\" {\n\t\t\treturn \"No matches found.\", nil\n\t\t}\n\n\t\treturn \"\", fmt.Errorf(\"grep_search: %w\", execErr(err, output, stderr))\n\t}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/read_file.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"read %q: %w\", params.Path, err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"read %q: %w\", params.Path, execErr(err, output, stderr))\n\t}"}
Arguments
{"path": "internal/tools/read_file.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"read %q: %w\", params.Path, err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"read %q: %w\", params.Path, execErr(err, output, stderr))\n\t}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/list_files.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}"}
Arguments
{"path": "internal/tools/list_files.go", "find": "\toutput, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, err)\n\t}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}"}
Result
1 occurrences replaced
Thinking
Next, let's check remove_file.go and move_file.go. First, I'll read them to get the exact context.
Tool 🔧 read_file {"end_line": 40, "path": "internal/tools/remove_file.go", "start_line": 15}
Arguments
{"end_line": 40, "path": "internal/tools/remove_file.go", "start_line": 15}
Result
{"path":"internal/tools/remove_file.go","content":"\ttool := llm.NewTool(\r\n\t\t\"remove_file\",\r\n\t\t\"Remove an existing file in the project container.\")\r\n\r\n\ttool.AddStringProperty(\"path\", \"The path to the file to remove\", true)\r\n\r\n\tRegister(tool, removeFile)\r\n}\r\n\r\nfunc removeFile(ctx Context, params removeFileParams) (string, error) {\r\n\tp := resolvePath(params.Path)\r\n\r\n\tif _, err := ctx.Exec(context.Background(), \"rm -f \"+shellQuote(p)); err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"remove %q: %w\", params.Path, err)\r\n\t}\r\n\r\n\treturn \"File removed successfully\", nil\r\n}\r","start_line":15,"end_line":32,"total_lines":32,"truncated":false}
Tool 🔧 read_file {"end_line": 45, "path": "internal/tools/move_file.go", "start_line": 20}
Arguments
{"end_line": 45, "path": "internal/tools/move_file.go", "start_line": 20}
Result
{"path":"internal/tools/move_file.go","content":"\ttool.AddStringProperty(\"from_path\", \"The current path to the file or directory\", true)\r\n\ttool.AddStringProperty(\"to_path\", \"The new path for the file or directory\", true)\r\n\r\n\tRegister(tool, moveFile)\r\n}\r\n\r\nfunc moveFile(ctx Context, params moveFileParams) (string, error) {\r\n\tfrom := resolvePath(params.FromPath)\r\n\tto := resolvePath(params.ToPath)\r\n\r\n\tcmd := fmt.Sprintf(`mkdir -p \"$(dirname %s)\" \u0026\u0026 mv %s %s`, shellQuote(to), shellQuote(from), shellQuote(to))\r\n\r\n\tif _, err := ctx.Exec(context.Background(), cmd); err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"move %q to %q: %w\", params.FromPath, params.ToPath, err)\r\n\t}\r\n\r\n\treturn fmt.Sprintf(\"Moved %q to %q\", params.FromPath, params.ToPath), nil\r\n}\r","start_line":20,"end_line":37,"total_lines":37,"truncated":false}
Thinking
`rm -f` doesn't fail on non-existent files, so the error is rare, but let's keep it consistent. For `rm -f`, stderr is almost never output. For `mv`, stderr is important (e.g., "cannot move: No such file or directory"). Let's update both.
Tool 🔧 edit_file {"path": "internal/tools/remove_file.go", "find": "\tif _, err := ctx.Exec(context.Background(), \"rm -f \"+shellQuote(p)); err != nil {\n\t\treturn \"\", fmt.Errorf(\"remove %q: %w\", params.Path, err)\n\t}", "replace": "\tstdout, stderr, err := ctx.Exec(context.Background(), \"rm -f \"+shellQuote(p))\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"remove %q: %w\", params.Path, execErr(err, stdout, stderr))\n\t}"}
Arguments
{"path": "internal/tools/remove_file.go", "find": "\tif _, err := ctx.Exec(context.Background(), \"rm -f \"+shellQuote(p)); err != nil {\n\t\treturn \"\", fmt.Errorf(\"remove %q: %w\", params.Path, err)\n\t}", "replace": "\tstdout, stderr, err := ctx.Exec(context.Background(), \"rm -f \"+shellQuote(p))\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"remove %q: %w\", params.Path, execErr(err, stdout, stderr))\n\t}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/move_file.go", "find": "\tif _, err := ctx.Exec(context.Background(), cmd); err != nil {\n\t\treturn \"\", fmt.Errorf(\"move %q to %q: %w\", params.FromPath, params.ToPath, err)\n\t}", "replace": "\tstdout, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"move %q to %q: %w\", params.FromPath, params.ToPath, execErr(err, stdout, stderr))\n\t}"}
Arguments
{"path": "internal/tools/move_file.go", "find": "\tif _, err := ctx.Exec(context.Background(), cmd); err != nil {\n\t\treturn \"\", fmt.Errorf(\"move %q to %q: %w\", params.FromPath, params.ToPath, err)\n\t}", "replace": "\tstdout, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"move %q to %q: %w\", params.FromPath, params.ToPath, execErr(err, stdout, stderr))\n\t}"}
Result
1 occurrences replaced
Thinking
Next, `internal/agentrun/sandboxgit.go` — `runSandboxGit`:
Now `runSandboxGit` in `internal/agentrun/sandboxgit.go`:
Tool 🔧 edit_file {"path": "internal/agentrun/sandboxgit.go", "find": "// runSandboxGit runs `git <args...>` inside containerID (in its\n// working directory, /project) and returns its combined output. A\n// non-zero exit code is an error carrying the output.\nfunc runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {\n\tout, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))\n\tif err != nil {\n\t\treturn out, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn out, fmt.Errorf(\"git %s: exit %d: %s\", args[0], exitCode, out)\n\t}\n\n\treturn out, nil\n}", "replace": "// runSandboxGit runs `git <args...>` inside containerID (in its\n// working directory, /project) and returns its output (git writes\n// progress to stderr, so the two streams are merged). A non-zero exit\n// code is an error carrying the output.\nfunc runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))\n\n\tout := stdout\n\n\tif stderr != \"\" {\n\t\tif out != \"\" && !strings.HasSuffix(out, \"\\n\") {\n\t\t\tout += \"\\n\"\n\t\t}\n\n\t\tout += stderr\n\t}\n\n\tif err != nil {\n\t\treturn out, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn out, fmt.Errorf(\"git %s: exit %d: %s\", args[0], exitCode, out)\n\t}\n\n\treturn out, nil\n}"}
Arguments
{"path": "internal/agentrun/sandboxgit.go", "find": "// runSandboxGit runs `git <args...>` inside containerID (in its\n// working directory, /project) and returns its combined output. A\n// non-zero exit code is an error carrying the output.\nfunc runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {\n\tout, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))\n\tif err != nil {\n\t\treturn out, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn out, fmt.Errorf(\"git %s: exit %d: %s\", args[0], exitCode, out)\n\t}\n\n\treturn out, nil\n}", "replace": "// runSandboxGit runs `git <args...>` inside containerID (in its\n// working directory, /project) and returns its output (git writes\n// progress to stderr, so the two streams are merged). A non-zero exit\n// code is an error carrying the output.\nfunc runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))\n\n\tout := stdout\n\n\tif stderr != \"\" {\n\t\tif out != \"\" && !strings.HasSuffix(out, \"\\n\") {\n\t\t\tout += \"\\n\"\n\t\t}\n\n\t\tout += stderr\n\t}\n\n\tif err != nil {\n\t\treturn out, err\n\t}\n\n\tif exitCode != 0 {\n\t\treturn out, fmt.Errorf(\"git %s: exit %d: %s\", args[0], exitCode, out)\n\t}\n\n\treturn out, nil\n}"}
Result
1 occurrences replaced
Thinking
Next, I'll update the docker integration tests. Let me rewrite the relevant parts:
1. `TestDockerRuntimeExecRoundTrip` — update the signature and add stream separation checks.
2. `TestDockerRuntimeGitSafeDirectory` — the "dubious ownership" message is output to stderr, so check stderr.
3. `TestDockerRuntimeSandboxGit` — update the call sites.
Now update the Docker integration test for the new signature, and add explicit stream-separation coverage:
Tool 🔧 edit_file {"path": "internal/agentrun/docker_integration_test.go", "find": "\toutput, exitCode, err := rt.exec(ctx, containerID, \"echo hello-from-zoo\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif !strings.Contains(output, \"hello-from-zoo\") {\n\t\tt.Fatalf(\"unexpected output: %q\", output)\n\t}\n\n\t_, exitCode, err = rt.exec(ctx, containerID, \"exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n}", "replace": "\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"echo hello-from-zoo\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"hello-from-zoo\\n\" {\n\t\tt.Fatalf(\"unexpected stdout: %q\", stdout)\n\t}\n\tif stderr != \"\" {\n\t\tt.Fatalf(\"unexpected stderr: %q\", stderr)\n\t}\n\n\t_, _, exitCode, err = rt.exec(ctx, containerID, \"exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n}\n\n// TestDockerRuntimeExecStreams verifies the no-TTY exec contract:\n// stdout and stderr come back as separate, unframed strings (no CRLF\n// rewriting by a line discipline, no interleaving), the command sees no\n// TTY on its stdout, and a non-zero exit still returns its stderr.\nfunc TestDockerRuntimeExecStreams(t *testing.T) {\n\trt, err := newDockerRuntime()\n\tif err != nil {\n\t\tt.Fatalf(\"docker client: %v\", err)\n\t}\n\n\tctx, cancel := context.WithTimeout(context.Background(), 60*time.Second)\n\tdefer cancel()\n\n\tcontainerID, err := rt.createContainer(ctx, \"debian:unstable\", nil, \"zoo-test-streams\")\n\tif err != nil {\n\t\tt.Fatalf(\"create container: %v\", err)\n\t}\n\tdefer rt.remove(context.Background(), containerID)\n\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"echo out; echo err 1>&2\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"out\\n\" {\n\t\tt.Fatalf(\"stdout = %q, want %q\", stdout, \"out\\n\")\n\t}\n\tif stderr != \"err\\n\" {\n\t\tt.Fatalf(\"stderr = %q, want %q\", stderr, \"err\\n\")\n\t}\n\n\tstdout, _, exitCode, err = rt.exec(ctx, containerID, \"[ -t 1 ] && echo tty || echo no-tty\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"no-tty\\n\" {\n\t\tt.Fatalf(\"expected no TTY on stdout, got %q\", stdout)\n\t}\n\n\tstdout, stderr, exitCode, err = rt.exec(ctx, containerID, \"echo boom 1>&2; exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n\tif stdout != \"\" {\n\t\tt.Fatalf(\"unexpected stdout: %q\", stdout)\n\t}\n\tif stderr != \"boom\\n\" {\n\t\tt.Fatalf(\"stderr = %q, want %q\", stderr, \"boom\\n\")\n\t}\n}"}
Arguments
{"path": "internal/agentrun/docker_integration_test.go", "find": "\toutput, exitCode, err := rt.exec(ctx, containerID, \"echo hello-from-zoo\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif !strings.Contains(output, \"hello-from-zoo\") {\n\t\tt.Fatalf(\"unexpected output: %q\", output)\n\t}\n\n\t_, exitCode, err = rt.exec(ctx, containerID, \"exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n}", "replace": "\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"echo hello-from-zoo\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"hello-from-zoo\\n\" {\n\t\tt.Fatalf(\"unexpected stdout: %q\", stdout)\n\t}\n\tif stderr != \"\" {\n\t\tt.Fatalf(\"unexpected stderr: %q\", stderr)\n\t}\n\n\t_, _, exitCode, err = rt.exec(ctx, containerID, \"exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n}\n\n// TestDockerRuntimeExecStreams verifies the no-TTY exec contract:\n// stdout and stderr come back as separate, unframed strings (no CRLF\n// rewriting by a line discipline, no interleaving), the command sees no\n// TTY on its stdout, and a non-zero exit still returns its stderr.\nfunc TestDockerRuntimeExecStreams(t *testing.T) {\n\trt, err := newDockerRuntime()\n\tif err != nil {\n\t\tt.Fatalf(\"docker client: %v\", err)\n\t}\n\n\tctx, cancel := context.WithTimeout(context.Background(), 60*time.Second)\n\tdefer cancel()\n\n\tcontainerID, err := rt.createContainer(ctx, \"debian:unstable\", nil, \"zoo-test-streams\")\n\tif err != nil {\n\t\tt.Fatalf(\"create container: %v\", err)\n\t}\n\tdefer rt.remove(context.Background(), containerID)\n\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"echo out; echo err 1>&2\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"out\\n\" {\n\t\tt.Fatalf(\"stdout = %q, want %q\", stdout, \"out\\n\")\n\t}\n\tif stderr != \"err\\n\" {\n\t\tt.Fatalf(\"stderr = %q, want %q\", stderr, \"err\\n\")\n\t}\n\n\tstdout, _, exitCode, err = rt.exec(ctx, containerID, \"[ -t 1 ] && echo tty || echo no-tty\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 {\n\t\tt.Fatalf(\"expected exit code 0, got %d\", exitCode)\n\t}\n\tif stdout != \"no-tty\\n\" {\n\t\tt.Fatalf(\"expected no TTY on stdout, got %q\", stdout)\n\t}\n\n\tstdout, stderr, exitCode, err = rt.exec(ctx, containerID, \"echo boom 1>&2; exit 3\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 3 {\n\t\tt.Fatalf(\"expected exit code 3, got %d\", exitCode)\n\t}\n\tif stdout != \"\" {\n\t\tt.Fatalf(\"unexpected stdout: %q\", stdout)\n\t}\n\tif stderr != \"boom\\n\" {\n\t\tt.Fatalf(\"stderr = %q, want %q\", stderr, \"boom\\n\")\n\t}\n}"}
Result
1 occurrences replaced
Thinking
Next, I'll update `TestDockerRuntimeGitSafeDirectory` — the "dubious ownership" message is output to **stderr**:
Tool 🔧 edit_file {"path": "internal/agentrun/docker_integration_test.go", "find": "\toutput, _, err := rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif !strings.Contains(output, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected the bind mount to reproduce dubious ownership before the fix, got: %s\", output)\n\t}\n\n\toutput, exitCode, err := rt.exec(ctx, containerID, \"git config --system --add safe.directory '*'\")\n\tif err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"configure safe.directory: err=%v exit=%d: %s\", err, exitCode, output)\n\t}\n\n\toutput, exitCode, err = rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 || strings.Contains(output, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected git status to succeed after the fix, got exit=%d: %s\", exitCode, output)\n\t}", "replace": "\t// git writes the \"dubious ownership\" fatal to stderr.\n\tstdout, stderr, _, err := rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif !strings.Contains(stderr, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected the bind mount to reproduce dubious ownership before the fix, got stdout=%q stderr=%q\", stdout, stderr)\n\t}\n\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"git config --system --add safe.directory '*'\")\n\tif err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"configure safe.directory: err=%v exit=%d: %s%s\", err, exitCode, stdout, stderr)\n\t}\n\n\tstdout, stderr, exitCode, err = rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 || strings.Contains(stdout, \"dubious ownership\") || strings.Contains(stderr, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected git status to succeed after the fix, got exit=%d: %s%s\", exitCode, stdout, stderr)\n\t}"}
Arguments
{"path": "internal/agentrun/docker_integration_test.go", "find": "\toutput, _, err := rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif !strings.Contains(output, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected the bind mount to reproduce dubious ownership before the fix, got: %s\", output)\n\t}\n\n\toutput, exitCode, err := rt.exec(ctx, containerID, \"git config --system --add safe.directory '*'\")\n\tif err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"configure safe.directory: err=%v exit=%d: %s\", err, exitCode, output)\n\t}\n\n\toutput, exitCode, err = rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 || strings.Contains(output, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected git status to succeed after the fix, got exit=%d: %s\", exitCode, output)\n\t}", "replace": "\t// git writes the \"dubious ownership\" fatal to stderr.\n\tstdout, stderr, _, err := rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif !strings.Contains(stderr, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected the bind mount to reproduce dubious ownership before the fix, got stdout=%q stderr=%q\", stdout, stderr)\n\t}\n\n\tstdout, stderr, exitCode, err := rt.exec(ctx, containerID, \"git config --system --add safe.directory '*'\")\n\tif err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"configure safe.directory: err=%v exit=%d: %s%s\", err, exitCode, stdout, stderr)\n\t}\n\n\tstdout, stderr, exitCode, err = rt.exec(ctx, containerID, \"git status\")\n\tif err != nil {\n\t\tt.Fatalf(\"exec: %v\", err)\n\t}\n\tif exitCode != 0 || strings.Contains(stdout, \"dubious ownership\") || strings.Contains(stderr, \"dubious ownership\") {\n\t\tt.Fatalf(\"expected git status to succeed after the fix, got exit=%d: %s%s\", exitCode, stdout, stderr)\n\t}"}
Result
1 occurrences replaced
Thinking
Next, the remaining `rt.exec` call sites inside `TestDockerRuntimeSandboxGit`:
1. `if _, exitCode, err := rt.exec(ctx, containerID, "echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'"); err != nil || exitCode != 0 {`
2. `out, _, err = rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")`
Tool 🔧 edit_file {"path": "internal/agentrun/docker_integration_test.go", "find": "\tif _, exitCode, err := rt.exec(ctx, containerID, \"echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'\"); err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"commit in sandbox: err=%v exit=%d\", err, exitCode)\n\t}", "replace": "\tif _, _, exitCode, err := rt.exec(ctx, containerID, \"echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'\"); err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"commit in sandbox: err=%v exit=%d\", err, exitCode)\n\t}"}
Arguments
{"path": "internal/agentrun/docker_integration_test.go", "find": "\tif _, exitCode, err := rt.exec(ctx, containerID, \"echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'\"); err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"commit in sandbox: err=%v exit=%d\", err, exitCode)\n\t}", "replace": "\tif _, _, exitCode, err := rt.exec(ctx, containerID, \"echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'\"); err != nil || exitCode != 0 {\n\t\tt.Fatalf(\"commit in sandbox: err=%v exit=%d\", err, exitCode)\n\t}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/agentrun/docker_integration_test.go", "find": "\tout, _, err = rt.exec(ctx, containerID, \"grep -r super-secret-token /project || true\")", "replace": "\tout, _, _, err = rt.exec(ctx, containerID, \"grep -r super-secret-token /project || true\")"}
Arguments
{"path": "internal/agentrun/docker_integration_test.go", "find": "\tout, _, err = rt.exec(ctx, containerID, \"grep -r super-secret-token /project || true\")", "replace": "\tout, _, _, err = rt.exec(ctx, containerID, \"grep -r super-secret-token /project || true\")"}
Result
1 occurrences replaced
Thinking
Next, I'll update `internal/tools/tools_test.go` — the `fakeContext` and the tests that use `output:`, and I'll add new tests for the bash tool's behavior.
Now update the tools test fake and add coverage for the new bash behavior:
Tool 🔧 edit_file {"path": "internal/tools/tools_test.go", "find": "type fakeContext struct {\n\tlastCmd string\n\toutput string\n\terr error\n\tfg *fakeForgejoActions\n}\n\nfunc (f *fakeContext) Exec(ctx context.Context, command string) (string, error) {\n\tf.lastCmd = command\n\treturn f.output, f.err\n}", "replace": "type fakeContext struct {\n\tlastCmd string\n\tstdout string\n\tstderr string\n\terr error\n\tfg *fakeForgejoActions\n}\n\nfunc (f *fakeContext) Exec(ctx context.Context, command string) (string, string, error) {\n\tf.lastCmd = command\n\treturn f.stdout, f.stderr, f.err\n}"}
Arguments
{"path": "internal/tools/tools_test.go", "find": "type fakeContext struct {\n\tlastCmd string\n\toutput string\n\terr error\n\tfg *fakeForgejoActions\n}\n\nfunc (f *fakeContext) Exec(ctx context.Context, command string) (string, error) {\n\tf.lastCmd = command\n\treturn f.output, f.err\n}", "replace": "type fakeContext struct {\n\tlastCmd string\n\tstdout string\n\tstderr string\n\terr error\n\tfg *fakeForgejoActions\n}\n\nfunc (f *fakeContext) Exec(ctx context.Context, command string) (string, string, error) {\n\tf.lastCmd = command\n\treturn f.stdout, f.stderr, f.err\n}"}
Result
1 occurrences replaced
Thinking
Next, I'll update the tests that reference the `output:` field:
1. `TestReadFileParsesMetaAndContent`: `fc := &fakeContext{output: "3\nline one\nline two\nline three\n"}`
2. `TestGrepSearchUsesExtendedRegex`: `fc := &fakeContext{output: "/project/foo.go:1:foo|bar\n"}`
3. `TestGrepSearchNoMatches`: `fc := &fakeContext{output: "", err: fmt.Errorf("exit status 1")}`
Tool 🔧 edit_file {"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"3\\nline one\\nline two\\nline three\\n\"}", "replace": "\tfc := &fakeContext{stdout: \"3\\nline one\\nline two\\nline three\\n\"}"}
Arguments
{"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"3\\nline one\\nline two\\nline three\\n\"}", "replace": "\tfc := &fakeContext{stdout: \"3\\nline one\\nline two\\nline three\\n\"}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"/project/foo.go:1:foo|bar\\n\"}", "replace": "\tfc := &fakeContext{stdout: \"/project/foo.go:1:foo|bar\\n\"}"}
Arguments
{"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"/project/foo.go:1:foo|bar\\n\"}", "replace": "\tfc := &fakeContext{stdout: \"/project/foo.go:1:foo|bar\\n\"}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"\", err: fmt.Errorf(\"exit status 1\")}", "replace": "\tfc := &fakeContext{err: fmt.Errorf(\"exit status 1\")}"}
Arguments
{"path": "internal/tools/tools_test.go", "find": "\tfc := &fakeContext{output: \"\", err: fmt.Errorf(\"exit status 1\")}", "replace": "\tfc := &fakeContext{err: fmt.Errorf(\"exit status 1\")}"}
Result
1 occurrences replaced
Thinking
Next, I'll add new tests for the bash tool and combineOutput/execErr. I'll append them near the end of tools_test.go (before TestRegistryRoundTrip, or after it). I'll add the following:
```go
func TestBashReturnsCombinedOutput(t *testing.T) {
fc := &fakeContext{stdout: "out\n", stderr: "err\n"}
out, err := bash(fc, bashParams{Command: "cmd"})
if err != nil {
t.Fatal(err)
}
if out != "out\nerr\n" {
t.Fatalf("unexpected output: %q", out)
}
}
func TestBashCarriesOutputInError(t *testing.T) {
fc := &fakeContext{
stderr: "ls: cannot access '/nope': No such file or directory\n",
err: fmt.Errorf("command exited with status 2"),
}
_, err := bash(fc, bashParams{Command: "ls /nope"})
if err == nil {
t.Fatal("expected an error for a non-zero exit")
}
if !strings.Contains(err.Error(), "exited with status 2") || !strings.Contains(err.Error(), "cannot access") {
t.Fatalf("expected the exit code and the command's stderr in the error, got: %v", err)
}
}
func TestBashSilentFailure(t *testing.T) {
fc := &fakeContext{err: fmt.Errorf("command exited with status 1")}
_, err := bash(fc, bashParams{Command: "false"})
if err == nil {
t.Fatal("expected an error for a non-zero exit")
}
if !strings.Contains(err.Error(), "exited with status 1") {
t.Fatalf("unexpected error: %v", err)
}
}
func TestCombineOutput(t *testing.T) {
cases := []struct {
stdout, stderr, want string
}{
{"a\n", "", "a\n"},
{"", "b\n", "b\n"},
{"", "", ""},
{"a\n", "b\n", "a\nb\n"},
{"a", "b\n", "a\nb\n"},
}
for _, c := range cases {
if got := combineOutput(c.stdout, c.stderr); got != c.want {
t.Errorf("combineOutput(%q, %q) = %q, want %q", c.stdout, c.stderr, got, c.want)
}
}
}
```
I'll add these after TestGrepSearchNoMatches.
Now add tests for the new bash behavior and helpers:
Tool 🔧 edit_file {"path": "internal/tools/tools_test.go", "find": "func TestRegistryRoundTrip(t *testing.T) {", "replace": "func TestBashReturnsCombinedOutput(t *testing.T) {\n\tfc := &fakeContext{stdout: \"out\\n\", stderr: \"err\\n\"}\n\n\tout, err := bash(fc, bashParams{Command: \"cmd\"})\n\tif err != nil {\n\t\tt.Fatal(err)\n\t}\n\tif out != \"out\\nerr\\n\" {\n\t\tt.Fatalf(\"unexpected output: %q\", out)\n\t}\n}\n\nfunc TestBashCarriesOutputInError(t *testing.T) {\n\tfc := &fakeContext{\n\t\tstderr: \"ls: cannot access '/nope': No such file or directory\\n\",\n\t\terr: fmt.Errorf(\"command exited with status 2\"),\n\t}\n\n\t_, err := bash(fc, bashParams{Command: \"ls /nope\"})\n\tif err == nil {\n\t\tt.Fatal(\"expected an error for a non-zero exit\")\n\t}\n\tif !strings.Contains(err.Error(), \"exited with status 2\") || !strings.Contains(err.Error(), \"cannot access\") {\n\t\tt.Fatalf(\"expected the exit code and the command's stderr in the error, got: %v\", err)\n\t}\n}\n\nfunc TestBashSilentFailure(t *testing.T) {\n\tfc := &fakeContext{err: fmt.Errorf(\"command exited with status 1\")}\n\n\t_, err := bash(fc, bashParams{Command: \"false\"})\n\tif err == nil {\n\t\tt.Fatal(\"expected an error for a non-zero exit\")\n\t}\n\tif !strings.Contains(err.Error(), \"exited with status 1\") {\n\t\tt.Fatalf(\"unexpected error: %v\", err)\n\t}\n}\n\nfunc TestCombineOutput(t *testing.T) {\n\tcases := []struct {\n\t\tstdout, stderr, want string\n\t}{\n\t\t{\"a\\n\", \"\", \"a\\n\"},\n\t\t{\"\", \"b\\n\", \"b\\n\"},\n\t\t{\"\", \"\", \"\"},\n\t\t{\"a\\n\", \"b\\n\", \"a\\nb\\n\"},\n\t\t{\"a\", \"b\\n\", \"a\\nb\\n\"},\n\t}\n\n\tfor _, c := range cases {\n\t\tif got := combineOutput(c.stdout, c.stderr); got != c.want {\n\t\t\tt.Errorf(\"combineOutput(%q, %q) = %q, want %q\", c.stdout, c.stderr, got, c.want)\n\t\t}\n\t}\n}\n\nfunc TestRegistryRoundTrip(t *testing.T) {"}
Arguments
{"path": "internal/tools/tools_test.go", "find": "func TestRegistryRoundTrip(t *testing.T) {", "replace": "func TestBashReturnsCombinedOutput(t *testing.T) {\n\tfc := &fakeContext{stdout: \"out\\n\", stderr: \"err\\n\"}\n\n\tout, err := bash(fc, bashParams{Command: \"cmd\"})\n\tif err != nil {\n\t\tt.Fatal(err)\n\t}\n\tif out != \"out\\nerr\\n\" {\n\t\tt.Fatalf(\"unexpected output: %q\", out)\n\t}\n}\n\nfunc TestBashCarriesOutputInError(t *testing.T) {\n\tfc := &fakeContext{\n\t\tstderr: \"ls: cannot access '/nope': No such file or directory\\n\",\n\t\terr: fmt.Errorf(\"command exited with status 2\"),\n\t}\n\n\t_, err := bash(fc, bashParams{Command: \"ls /nope\"})\n\tif err == nil {\n\t\tt.Fatal(\"expected an error for a non-zero exit\")\n\t}\n\tif !strings.Contains(err.Error(), \"exited with status 2\") || !strings.Contains(err.Error(), \"cannot access\") {\n\t\tt.Fatalf(\"expected the exit code and the command's stderr in the error, got: %v\", err)\n\t}\n}\n\nfunc TestBashSilentFailure(t *testing.T) {\n\tfc := &fakeContext{err: fmt.Errorf(\"command exited with status 1\")}\n\n\t_, err := bash(fc, bashParams{Command: \"false\"})\n\tif err == nil {\n\t\tt.Fatal(\"expected an error for a non-zero exit\")\n\t}\n\tif !strings.Contains(err.Error(), \"exited with status 1\") {\n\t\tt.Fatalf(\"unexpected error: %v\", err)\n\t}\n}\n\nfunc TestCombineOutput(t *testing.T) {\n\tcases := []struct {\n\t\tstdout, stderr, want string\n\t}{\n\t\t{\"a\\n\", \"\", \"a\\n\"},\n\t\t{\"\", \"b\\n\", \"b\\n\"},\n\t\t{\"\", \"\", \"\"},\n\t\t{\"a\\n\", \"b\\n\", \"a\\nb\\n\"},\n\t\t{\"a\", \"b\\n\", \"a\\nb\\n\"},\n\t}\n\n\tfor _, c := range cases {\n\t\tif got := combineOutput(c.stdout, c.stderr); got != c.want {\n\t\t\tt.Errorf(\"combineOutput(%q, %q) = %q, want %q\", c.stdout, c.stderr, got, c.want)\n\t\t}\n\t}\n}\n\nfunc TestRegistryRoundTrip(t *testing.T) {"}
Result
1 occurrences replaced
Thinking
Alright, let's build and run the tests:
Now build and run the test suite:
Tool 🔧 bash {"command": "cd /project && go build ./... && go vet ./... && go test ./... 2>&1 | tail -20", "timeout": 300}
Arguments
{"command": "cd /project && go build ./... && go vet ./... && go test ./... 2>&1 | tail -20", "timeout": 300}
Result
go: downloading modernc.org/sqlite v1.56.0 go: downloading golang.org/x/crypto v0.39.0 go: downloading github.com/felixge/httpsnoop v1.1.0 go: downloading go.opentelemetry.io/otel/metric v1.45.0 go: downloading github.com/agext/levenshtein v1.2.1 go: downloading github.com/apparentlymart/go-textseg/v15 v15.0.0 go: downloading github.com/mitchellh/go-wordwrap v1.0.1 go: downloading github.com/zclconf/go-cty v1.16.3 go: downloading github.com/go-logr/logr v1.4.4 go: downloading github.com/google/go-cmp v0.7.0 go: downloading golang.org/x/sys v0.47.0 go: downloading github.com/go-logr/stdr v1.2.2 go: downloading go.opentelemetry.io/auto/sdk v1.2.1 go: downloading github.com/cespare/xxhash/v2 v2.3.0 go: downloading golang.org/x/text v0.40.0 go: downloading modernc.org/libc v1.74.4 go: downloading github.com/dustin/go-humanize v1.0.1 go: downloading modernc.org/mathutil v1.7.1 go: downloading modernc.org/memory v1.11.0 go: downloading github.com/remyoudompheng/bigfft v0.0.0-20230129092748-24d4a6f8daec ? github.com/abrander/zoo/cmd/zoo [no test files] ok github.com/abrander/zoo/internal/agentrun 0.004s ok github.com/abrander/zoo/internal/config 0.006s ok github.com/abrander/zoo/internal/forgejo 1.388s ok github.com/abrander/zoo/internal/livelog 0.052s ok github.com/abrander/zoo/internal/llm 0.003s ok github.com/abrander/zoo/internal/scheduler 2.798s ok github.com/abrander/zoo/internal/store 1.549s ok github.com/abrander/zoo/internal/tools 0.003s ok github.com/abrander/zoo/internal/web 0.788s
Thinking
All tests pass. Next, let's check whether Docker is available in this environment and see if we can run the docker-tagged integration tests:
All unit tests pass. Let me check if Docker is available to run the integration tests (the `docker` build tag):
Tool 🔧 bash {"command": "cd /project && (docker version >/dev/null 2>&1 && echo DOCKER_AVAILABLE || echo NO_DOCKER); ls /var/run/docker.sock 2>/dev/null || true"}
Arguments
{"command": "cd /project && (docker version >/dev/null 2>&1 && echo DOCKER_AVAILABLE || echo NO_DOCKER); ls /var/run/docker.sock 2>/dev/null || true"}
Result
NO_DOCKER
Thinking
Since there's no Docker daemon in this environment, I can't run the integration tests tagged with `docker`. However, at the very least I can verify that they compile:
`go vet -tags docker ./internal/agentrun/...` or `go test -tags docker -run xxx -count=1 ./internal/agentrun/` — compilation happens either way. Let's try compiling with the tag.
No Docker daemon here, but I can at least verify the integration test compiles with the `docker` build tag:
Tool 🔧 bash {"command": "cd /project && go vet -tags docker ./internal/agentrun/... && echo VET_DOCKER_OK && gofmt -l . | grep -v '^\\.git' ; echo FMT_CHECK_DONE", "timeout": 120}
Arguments
{"command": "cd /project && go vet -tags docker ./internal/agentrun/... && echo VET_DOCKER_OK && gofmt -l . | grep -v '^\\.git' ; echo FMT_CHECK_DONE", "timeout": 120}
Result
VET_DOCKER_OK internal/agentrun/docker.go FMT_CHECK_DONE
Thinking
`gofmt` is pointing out `internal/agentrun/docker.go`. Let's see what the formatting issue is — probably the alignment of the struct fields in `ExecOptions` (I aligned `Env:`, `AttachStdout:`, `AttachStderr:` in a different way). I'll try running `gofmt -d` to check.
Tool 🔧 bash {"command": "cd /project && gofmt -d internal/agentrun/docker.go"}
Arguments
{"command": "cd /project && gofmt -d internal/agentrun/docker.go"}
Result
ERROR CALLING TOOL: command failed: command exited with status 1
Thinking
Interesting — the `gofmt -d` command failed with exit status 1, and the output was discarded. Wait, that's weird — "ERROR CALLING TOOL: command failed: command exited with status 1". This is the bash tool's error format... no wait, this is my own bash tool inside this environment (the zoo environment I'm running in). Hmm, the output shows "ERROR CALLING TOOL: command failed: command exited with status 1" — that's the error message from my own bash tool. So `gofmt -d` exited with 1? That's odd. gofmt -d should exit 0 even when there's a diff... no, actually that's not right! `gofmt -d` returns exit status 1 when a file needs formatting (when there's a diff). Wait, no — `gofmt -l` lists files and returns 0. `gofmt -d` outputs the diff and... let me check: gofmt's exit code is 1 if there's a formatting difference (when using -l or -d? hmm).
Actually, according to gofmt's documentation: "The exit status is 0 if all files are already formatted, 1 if any file needs formatting" — I think this applies to -l/-d/-w. And the diff output was... discarded? The error says "command failed: command exited with status 1" — interestingly, this is the new error format from my own environment's bash tool (which is interesting — is this environment itself running on top of zoo with the new code? No wait, this environment is the one I'm in, and its bash tool is... hmm, actually, the format "ERROR CALLING TOOL: command failed: command exited with status 1" matches the new execErr format I just wrote! "command exited with status 1: <output>" — but here the output is empty (gofmt -d's diff was output to stdout, but... hmm).
Wait, actually — if gofmt -d output a diff to stdout and exited 1, then with the new behavior the error should include the diff. The error shown has no output after "command exited with status 1". Hmm, so the output was empty? Or... wait, maybe this environment's bash tool is the old code (the one that discards output on failure). The old format was "command failed: %w" → "command failed: command exited with status 1". And the loop prepends "ERROR CALLING TOOL: ". So yes, this is the old behavior — my environment is running on the pre-fix zoo. I see, that makes sense.
So gofmt -d exited 1 (file needs formatting) and the diff was discarded by the old bash tool. Let me capture the diff to a file and read it.
The diff output was discarded (my own environment's bash tool still runs the old code). Let me capture it to a file:
Tool 🔧 bash {"command": "cd /project && gofmt -d internal/agentrun/docker.go > /tmp/fmt.diff 2>&1; cat /tmp/fmt.diff"}
Arguments
{"command": "cd /project && gofmt -d internal/agentrun/docker.go > /tmp/fmt.diff 2>&1; cat /tmp/fmt.diff"}
Result
diff internal/agentrun/docker.go.orig internal/agentrun/docker.go
--- internal/agentrun/docker.go.orig
+++ internal/agentrun/docker.go
@@ -78,9 +78,9 @@
// credential from the terminal. With no TTY attached such a
// prompt would fail anyway, but failing fast with a clear error
// is preferable to any chance of a hang.
- Env: []string{"GIT_TERMINAL_PROMPT=0"},
- AttachStdout: true,
- AttachStderr: true,
+ Env: []string{"GIT_TERMINAL_PROMPT=0"},
+ AttachStdout: true,
+ AttachStderr: true,
})
if err != nil {
return "", "", 0, fmt.Errorf("exec create: %w", err)
Thinking
Just an alignment issue. Let's apply gofmt -w.
Tool 🔧 bash {"command": "cd /project && gofmt -w internal/agentrun/docker.go && gofmt -l . | grep -v '^\\.git'; echo FMT_CLEAN && go build ./... && go test ./internal/tools/ ./internal/agentrun/ 2>&1 | tail -5", "timeout": 120}
Arguments
{"command": "cd /project && gofmt -w internal/agentrun/docker.go && gofmt -l . | grep -v '^\\.git'; echo FMT_CLEAN && go build ./... && go test ./internal/tools/ ./internal/agentrun/ 2>&1 | tail -5", "timeout": 120}
Result
FMT_CLEAN ok github.com/abrander/zoo/internal/tools (cached) ok github.com/abrander/zoo/internal/agentrun (cached)
Thinking
Everything's formatted, builds, and tests pass too. Now let me re-read the final state of the main files and double-check that everything is consistent.
Also, let me think about edge cases I might have overlooked:
1. **`read_file.go`** — the command writes errors to stderr and exits 1. Now `execErr` appends stderr → "read \"x\": command exited with status 1: read_file: no such file: /project/x".
2. **`grep_search.go`** — the pipeline `grep ... | head -n N` — the exit code is head's (0). So the err path is rare. No problem.
3. **`list_files.go`** — `ls -la` on a nonexistent directory: stderr "ls: cannot access...", exit 2 → error with message. Good.
4. **`edit-file.go`** — uses shellReadFile/shellWriteFile, which have been updated. Let me re-check the edit-file.go code to make sure there's no direct use of Exec.
5. **`write_file.go`** — uses shellWriteFile. No problem.
6. Are there other places that call `dockerRuntime.exec` directly? Let me grep for `rt.exec` / `.exec(` in agentrun.
Also, I should double-check the `seed_test.go` and `sandboxgit_test.go` files — they might reference exec.
Let me verify no other call sites were missed and re-check the final state of the changed files:
Tool 🔧 grep_search {"glob": "*.go", "query": "\\.exec\\(ctx|Exec\\(context\\.Background", "context_after": 2}
Arguments
{"glob": "*.go", "query": "\\.exec\\(ctx|Exec\\(context\\.Background", "context_after": 2}
Result
/project/internal/tools/grep_search.go:67: output, stderr, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/grep_search.go-68- if err != nil {
/project/internal/tools/grep_search.go-69- // grep exits non-zero (with empty output) when there are no
--
/project/internal/tools/remove_file.go:27: stdout, stderr, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p))
/project/internal/tools/remove_file.go-28- if err != nil {
/project/internal/tools/remove_file.go-29- return "", fmt.Errorf("remove %q: %w", params.Path, execErr(err, stdout, stderr))
--
/project/internal/tools/move_file.go:32: stdout, stderr, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/move_file.go-33- if err != nil {
/project/internal/tools/move_file.go-34- return "", fmt.Errorf("move %q to %q: %w", params.FromPath, params.ToPath, execErr(err, stdout, stderr))
--
/project/internal/tools/read_file.go:65: output, stderr, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/read_file.go-66- if err != nil {
/project/internal/tools/read_file.go-67- return "", fmt.Errorf("read %q: %w", params.Path, execErr(err, output, stderr))
--
/project/internal/tools/list_files.go:36: output, stderr, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/list_files.go-37- if err != nil {
/project/internal/tools/list_files.go-38- return "", fmt.Errorf("list %q: %w", params.Path, execErr(err, output, stderr))
--
/project/internal/tools/shell.go:68: output, stderr, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
/project/internal/tools/shell.go-69- if err != nil {
/project/internal/tools/shell.go-70- return nil, execErr(err, output, stderr)
--
/project/internal/tools/shell.go:89: stdout, stderr, err := ctx.Exec(context.Background(), cmd)
/project/internal/tools/shell.go-90- if err != nil {
/project/internal/tools/shell.go-91- return fmt.Errorf("write %q: %w", path, execErr(err, stdout, stderr))
--
/project/internal/agentrun/context.go:23: stdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)
/project/internal/agentrun/context.go-24-
/project/internal/agentrun/context.go-25- if err != nil {
--
/project/internal/agentrun/sandboxgit.go:42: stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
/project/internal/agentrun/sandboxgit.go-43-
/project/internal/agentrun/sandboxgit.go-44- out := stdout
--
/project/internal/agentrun/docker_integration_test.go:32: stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")
/project/internal/agentrun/docker_integration_test.go-33- if err != nil {
/project/internal/agentrun/docker_integration_test.go-34- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:46: _, _, exitCode, err = rt.exec(ctx, containerID, "exit 3")
/project/internal/agentrun/docker_integration_test.go-47- if err != nil {
/project/internal/agentrun/docker_integration_test.go-48- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:74: stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo out; echo err 1>&2")
/project/internal/agentrun/docker_integration_test.go-75- if err != nil {
/project/internal/agentrun/docker_integration_test.go-76- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:88: stdout, _, exitCode, err = rt.exec(ctx, containerID, "[ -t 1 ] && echo tty || echo no-tty")
/project/internal/agentrun/docker_integration_test.go-89- if err != nil {
/project/internal/agentrun/docker_integration_test.go-90- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:99: stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "echo boom 1>&2; exit 3")
/project/internal/agentrun/docker_integration_test.go-100- if err != nil {
/project/internal/agentrun/docker_integration_test.go-101- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:147: stdout, stderr, _, err := rt.exec(ctx, containerID, "git status")
/project/internal/agentrun/docker_integration_test.go-148- if err != nil {
/project/internal/agentrun/docker_integration_test.go-149- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:155: stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "git config --system --add safe.directory '*'")
/project/internal/agentrun/docker_integration_test.go-156- if err != nil || exitCode != 0 {
/project/internal/agentrun/docker_integration_test.go-157- t.Fatalf("configure safe.directory: err=%v exit=%d: %s%s", err, exitCode, stdout, stderr)
--
/project/internal/agentrun/docker_integration_test.go:160: stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "git status")
/project/internal/agentrun/docker_integration_test.go-161- if err != nil {
/project/internal/agentrun/docker_integration_test.go-162- t.Fatalf("exec: %v", err)
--
/project/internal/agentrun/docker_integration_test.go:267: if _, _, exitCode, err := rt.exec(ctx, containerID, "echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'"); err != nil || exitCode != 0 {
/project/internal/agentrun/docker_integration_test.go-268- t.Fatalf("commit in sandbox: err=%v exit=%d", err, exitCode)
/project/internal/agentrun/docker_integration_test.go-269- }
--
/project/internal/agentrun/docker_integration_test.go:280: out, _, _, err = rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")
/project/internal/agentrun/docker_integration_test.go-281- if err != nil {
/project/internal/agentrun/docker_integration_test.go-282- t.Fatalf("grep: %v", err)
Tool 🔧 bash {"command": "cd /project && git diff --stat"}
Arguments
{"command": "cd /project && git diff --stat"}
Result
internal/agentrun/context.go | 13 ++-- internal/agentrun/docker.go | 85 ++++++++++++-------------- internal/agentrun/docker_integration_test.go | 91 +++++++++++++++++++++++----- internal/agentrun/sandboxgit.go | 18 +++++- internal/tools/bash.go | 9 ++- internal/tools/context.go | 6 +- internal/tools/grep_search.go | 6 +- internal/tools/list_files.go | 4 +- internal/tools/move_file.go | 5 +- internal/tools/read_file.go | 4 +- internal/tools/remove_file.go | 5 +- internal/tools/shell.go | 34 +++++++++-- internal/tools/tools_test.go | 70 +++++++++++++++++++-- 13 files changed, 257 insertions(+), 93 deletions(-)
Thinking
All call sites have been updated. Let me do a final review of the complete diff to make sure everything is consistent and correct:
All call sites are consistent. Let me do a final review of the full diff:
Tool 🔧 bash {"command": "cd /project && git diff"}
Arguments
{"command": "cd /project && git diff"}
Result
diff --git a/internal/agentrun/context.go b/internal/agentrun/context.go
index 28cfcd6..ef36659 100644
--- a/internal/agentrun/context.go
+++ b/internal/agentrun/context.go
@@ -16,18 +16,21 @@ type runContext struct {
forgejo tools.ForgejoActions
}
-func (c *runContext) Exec(ctx context.Context, command string) (string, error) {
- output, exitCode, err := c.docker.exec(ctx, c.containerID, command)
+// Exec runs command inside the container via `sh -c` and returns its
+// stdout and stderr as separate strings. A non-zero exit code is an
+// error; the output is still returned so callers can surface it.
+func (c *runContext) Exec(ctx context.Context, command string) (string, string, error) {
+ stdout, stderr, exitCode, err := c.docker.exec(ctx, c.containerID, command)
if err != nil {
- return output, err
+ return stdout, stderr, err
}
if exitCode != 0 {
- return output, fmt.Errorf("command exited with status %d", exitCode)
+ return stdout, stderr, fmt.Errorf("command exited with status %d", exitCode)
}
- return output, nil
+ return stdout, stderr, nil
}
func (c *runContext) Forgejo() tools.ForgejoActions {
diff --git a/internal/agentrun/docker.go b/internal/agentrun/docker.go
index c36ecb9..26304ef 100644
--- a/internal/agentrun/docker.go
+++ b/internal/agentrun/docker.go
@@ -1,13 +1,14 @@
package agentrun
import (
+ "bytes"
"context"
"fmt"
- "io"
"time"
"github.com/docker/docker/api/types/container"
"github.com/docker/docker/client"
+ "github.com/docker/docker/pkg/stdcopy"
)
// containerCPUs and containerMemory bound each agent container's
@@ -62,75 +63,69 @@ func (d *dockerRuntime) createContainer(ctx context.Context, image string, binds
}
// exec runs command via `sh -c` inside containerID and returns its
-// combined stdout+stderr (a TTY is attached so the two streams merge
-// without needing to demultiplex Docker's stdcopy framing) plus its exit
-// code.
-func (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, int, error) {
+// stdout and stderr as separate strings, plus its exit code.
+//
+// No TTY is attached: a TTY would make every command believe it is
+// interactive (launching pagers, prompting for credentials, ...) and
+// the line discipline would rewrite stdout's line endings to CRLF.
+// Without a TTY, Docker frames the attached stream with its stdcopy
+// format, so the two streams are demultiplexed back apart with
+// stdcopy.StdCopy.
+func (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, string, int, error) {
created, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{
Cmd: []string{"sh", "-c", command},
- // A TTY is attached (see doc comment above), which makes git's
- // isatty-based color.ui=auto default to enabling ANSI color codes
- // that pollute the captured job log. NO_COLOR covers tools that
- // honor that convention; the GIT_CONFIG_* override forces git's
- // own color.ui to "never" regardless of tty detection, since git
- // does not honor NO_COLOR itself.
- //
- // The same isatty check makes git launch a pager for diff/log/show,
- // and the pager (waiting on a stdin nothing ever attaches or
- // closes) then blocks forever with no way to time it out — see
- // exec's read loop below. GIT_PAGER/PAGER=cat disable that.
- // GIT_TERMINAL_PROMPT=0 closes the same class of hang for
- // credential prompts on a private remote.
- Env: []string{
- "NO_COLOR=1",
- "GIT_CONFIG_COUNT=1",
- "GIT_CONFIG_KEY_0=color.ui",
- "GIT_CONFIG_VALUE_0=never",
- "GIT_PAGER=cat",
- "PAGER=cat",
- "GIT_TERMINAL_PROMPT=0",
- },
- Tty: true,
+ // GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a
+ // credential from the terminal. With no TTY attached such a
+ // prompt would fail anyway, but failing fast with a clear error
+ // is preferable to any chance of a hang.
+ Env: []string{"GIT_TERMINAL_PROMPT=0"},
AttachStdout: true,
AttachStderr: true,
})
if err != nil {
- return "", 0, fmt.Errorf("exec create: %w", err)
+ return "", "", 0, fmt.Errorf("exec create: %w", err)
}
- attached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{Tty: true})
+ attached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{})
if err != nil {
- return "", 0, fmt.Errorf("exec attach: %w", err)
+ return "", "", 0, fmt.Errorf("exec attach: %w", err)
}
defer attached.Close()
// Once hijacked, this stream is a raw connection that ctx cancellation
- // no longer reaches — a wedged child process (pager, credential
- // prompt, anything else reading a stdin nobody attaches) would
- // otherwise block this read forever, past the run's deadline, with no
- // way to recover the job. Race the read against ctx and force-remove
- // the container to sever the connection if it fires.
+ // no longer reaches — a wedged child process (anything reading a stdin
+ // nobody attaches) would otherwise block this read forever, past the
+ // run's deadline, with no way to recover the job. Race the read against
+ // ctx and force-remove the container to sever the connection if it
+ // fires.
type readResult struct {
- output []byte
+ stdout []byte
+ stderr []byte
err error
}
readDone := make(chan readResult, 1)
go func() {
- output, err := io.ReadAll(attached.Reader)
- readDone <- readResult{output, err}
+ var stdout, stderr bytes.Buffer
+
+ // Without a TTY the attached stream is Docker's stdcopy-framed
+ // multiplex of the process's stdout and stderr; StdCopy splits
+ // it back into the two separate streams.
+ _, err := stdcopy.StdCopy(&stdout, &stderr, attached.Reader)
+
+ readDone <- readResult{stdout.Bytes(), stderr.Bytes(), err}
}()
- var output []byte
+ var stdout, stderr []byte
select {
case res := <-readDone:
if res.err != nil {
- return "", 0, fmt.Errorf("exec read output: %w", res.err)
+ return "", "", 0, fmt.Errorf("exec read output: %w", res.err)
}
- output = res.output
+ stdout, stderr = res.stdout, res.stderr
case <-ctx.Done():
killCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)
@@ -139,15 +134,15 @@ func (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (
_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})
<-readDone
- return "", 0, ctx.Err()
+ return "", "", 0, ctx.Err()
}
inspect, err := d.cli.ContainerExecInspect(ctx, created.ID)
if err != nil {
- return string(output), 0, fmt.Errorf("exec inspect: %w", err)
+ return string(stdout), string(stderr), 0, fmt.Errorf("exec inspect: %w", err)
}
- return string(output), inspect.ExitCode, nil
+ return string(stdout), string(stderr), inspect.ExitCode, nil
}
// remove force-stops and removes containerID, ignoring "already gone"
diff --git a/internal/agentrun/docker_integration_test.go b/internal/agentrun/docker_integration_test.go
index 99102a8..a10470a 100644
--- a/internal/agentrun/docker_integration_test.go
+++ b/internal/agentrun/docker_integration_test.go
@@ -29,18 +29,21 @@ func TestDockerRuntimeExecRoundTrip(t *testing.T) {
}
defer rt.remove(context.Background(), containerID)
- output, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")
+ stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo hello-from-zoo")
if err != nil {
t.Fatalf("exec: %v", err)
}
if exitCode != 0 {
t.Fatalf("expected exit code 0, got %d", exitCode)
}
- if !strings.Contains(output, "hello-from-zoo") {
- t.Fatalf("unexpected output: %q", output)
+ if stdout != "hello-from-zoo\n" {
+ t.Fatalf("unexpected stdout: %q", stdout)
+ }
+ if stderr != "" {
+ t.Fatalf("unexpected stderr: %q", stderr)
}
- _, exitCode, err = rt.exec(ctx, containerID, "exit 3")
+ _, _, exitCode, err = rt.exec(ctx, containerID, "exit 3")
if err != nil {
t.Fatalf("exec: %v", err)
}
@@ -49,6 +52,65 @@ func TestDockerRuntimeExecRoundTrip(t *testing.T) {
}
}
+// TestDockerRuntimeExecStreams verifies the no-TTY exec contract:
+// stdout and stderr come back as separate, unframed strings (no CRLF
+// rewriting by a line discipline, no interleaving), the command sees no
+// TTY on its stdout, and a non-zero exit still returns its stderr.
+func TestDockerRuntimeExecStreams(t *testing.T) {
+ rt, err := newDockerRuntime()
+ if err != nil {
+ t.Fatalf("docker client: %v", err)
+ }
+
+ ctx, cancel := context.WithTimeout(context.Background(), 60*time.Second)
+ defer cancel()
+
+ containerID, err := rt.createContainer(ctx, "debian:unstable", nil, "zoo-test-streams")
+ if err != nil {
+ t.Fatalf("create container: %v", err)
+ }
+ defer rt.remove(context.Background(), containerID)
+
+ stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "echo out; echo err 1>&2")
+ if err != nil {
+ t.Fatalf("exec: %v", err)
+ }
+ if exitCode != 0 {
+ t.Fatalf("expected exit code 0, got %d", exitCode)
+ }
+ if stdout != "out\n" {
+ t.Fatalf("stdout = %q, want %q", stdout, "out\n")
+ }
+ if stderr != "err\n" {
+ t.Fatalf("stderr = %q, want %q", stderr, "err\n")
+ }
+
+ stdout, _, exitCode, err = rt.exec(ctx, containerID, "[ -t 1 ] && echo tty || echo no-tty")
+ if err != nil {
+ t.Fatalf("exec: %v", err)
+ }
+ if exitCode != 0 {
+ t.Fatalf("expected exit code 0, got %d", exitCode)
+ }
+ if stdout != "no-tty\n" {
+ t.Fatalf("expected no TTY on stdout, got %q", stdout)
+ }
+
+ stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "echo boom 1>&2; exit 3")
+ if err != nil {
+ t.Fatalf("exec: %v", err)
+ }
+ if exitCode != 3 {
+ t.Fatalf("expected exit code 3, got %d", exitCode)
+ }
+ if stdout != "" {
+ t.Fatalf("unexpected stdout: %q", stdout)
+ }
+ if stderr != "boom\n" {
+ t.Fatalf("stderr = %q, want %q", stderr, "boom\n")
+ }
+}
+
// TestDockerRuntimeGitSafeDirectory reproduces the "detected dubious
// ownership" error git raises against a bind-mounted repo owned by a
// different UID than the container runs as, and confirms the `git
@@ -81,25 +143,26 @@ func TestDockerRuntimeGitSafeDirectory(t *testing.T) {
}
defer rt.remove(context.Background(), containerID)
- output, _, err := rt.exec(ctx, containerID, "git status")
+ // git writes the "dubious ownership" fatal to stderr.
+ stdout, stderr, _, err := rt.exec(ctx, containerID, "git status")
if err != nil {
t.Fatalf("exec: %v", err)
}
- if !strings.Contains(output, "dubious ownership") {
- t.Fatalf("expected the bind mount to reproduce dubious ownership before the fix, got: %s", output)
+ if !strings.Contains(stderr, "dubious ownership") {
+ t.Fatalf("expected the bind mount to reproduce dubious ownership before the fix, got stdout=%q stderr=%q", stdout, stderr)
}
- output, exitCode, err := rt.exec(ctx, containerID, "git config --system --add safe.directory '*'")
+ stdout, stderr, exitCode, err := rt.exec(ctx, containerID, "git config --system --add safe.directory '*'")
if err != nil || exitCode != 0 {
- t.Fatalf("configure safe.directory: err=%v exit=%d: %s", err, exitCode, output)
+ t.Fatalf("configure safe.directory: err=%v exit=%d: %s%s", err, exitCode, stdout, stderr)
}
- output, exitCode, err = rt.exec(ctx, containerID, "git status")
+ stdout, stderr, exitCode, err = rt.exec(ctx, containerID, "git status")
if err != nil {
t.Fatalf("exec: %v", err)
}
- if exitCode != 0 || strings.Contains(output, "dubious ownership") {
- t.Fatalf("expected git status to succeed after the fix, got exit=%d: %s", exitCode, output)
+ if exitCode != 0 || strings.Contains(stdout, "dubious ownership") || strings.Contains(stderr, "dubious ownership") {
+ t.Fatalf("expected git status to succeed after the fix, got exit=%d: %s%s", exitCode, stdout, stderr)
}
}
@@ -201,7 +264,7 @@ func TestDockerRuntimeSandboxGit(t *testing.T) {
}
// Commits must pick up the identity from the system gitconfig.
- if _, exitCode, err := rt.exec(ctx, containerID, "echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'"); err != nil || exitCode != 0 {
+ if _, _, exitCode, err := rt.exec(ctx, containerID, "echo more >> file.txt && git add file.txt && git commit -qm 'from sandbox'"); err != nil || exitCode != 0 {
t.Fatalf("commit in sandbox: err=%v exit=%d", err, exitCode)
}
@@ -214,7 +277,7 @@ func TestDockerRuntimeSandboxGit(t *testing.T) {
}
// The token must not leak into the bind-mounted working tree.
- out, _, err = rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")
+ out, _, _, err = rt.exec(ctx, containerID, "grep -r super-secret-token /project || true")
if err != nil {
t.Fatalf("grep: %v", err)
}
diff --git a/internal/agentrun/sandboxgit.go b/internal/agentrun/sandboxgit.go
index 9632fc8..b20267d 100644
--- a/internal/agentrun/sandboxgit.go
+++ b/internal/agentrun/sandboxgit.go
@@ -35,10 +35,22 @@ func shellGitCmd(args ...string) string {
}
// runSandboxGit runs `git <args...>` inside containerID (in its
-// working directory, /project) and returns its combined output. A
-// non-zero exit code is an error carrying the output.
+// working directory, /project) and returns its output (git writes
+// progress to stderr, so the two streams are merged). A non-zero exit
+// code is an error carrying the output.
func runSandboxGit(ctx context.Context, rt *dockerRuntime, containerID string, args ...string) (string, error) {
- out, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
+ stdout, stderr, exitCode, err := rt.exec(ctx, containerID, shellGitCmd(args...))
+
+ out := stdout
+
+ if stderr != "" {
+ if out != "" && !strings.HasSuffix(out, "\n") {
+ out += "\n"
+ }
+
+ out += stderr
+ }
+
if err != nil {
return out, err
}
diff --git a/internal/tools/bash.go b/internal/tools/bash.go
index e8e082f..910fcca 100644
--- a/internal/tools/bash.go
+++ b/internal/tools/bash.go
@@ -45,14 +45,17 @@ func bash(ctx Context, params bashParams) (string, error) {
}
defer cancel()
- output, err := ctx.Exec(execCtx, params.Command)
+ stdout, stderr, err := ctx.Exec(execCtx, params.Command)
if err != nil {
if execCtx.Err() == context.DeadlineExceeded {
return "", fmt.Errorf("command timed out after %d seconds", params.Timeout)
}
- return "", fmt.Errorf("command failed: %w", err)
+ // A non-zero exit is not a tool failure in itself, but the
+ // output (usually the error message on stderr) must still reach
+ // the agent, so it's carried in the error.
+ return "", execErr(err, stdout, stderr)
}
- return output, nil
+ return combineOutput(stdout, stderr), nil
}
diff --git a/internal/tools/context.go b/internal/tools/context.go
index 85a0828..9445d29 100644
--- a/internal/tools/context.go
+++ b/internal/tools/context.go
@@ -10,8 +10,10 @@ import "context"
// global Context, since multiple agents run concurrently in zoo.
type Context interface {
// Exec runs command inside the run's container via `sh -c` and
- // returns combined stdout+stderr.
- Exec(ctx context.Context, command string) (string, error)
+ // returns its stdout and stderr as separate strings. A non-zero
+ // exit code is an error; the output is still returned so callers
+ // can surface it.
+ Exec(ctx context.Context, command string) (stdout, stderr string, err error)
// Forgejo returns the actions bound to the issue/PR that triggered
// this run, so tools don't need to be told which repo/issue to act
diff --git a/internal/tools/grep_search.go b/internal/tools/grep_search.go
index b546e2b..2149eef 100644
--- a/internal/tools/grep_search.go
+++ b/internal/tools/grep_search.go
@@ -64,15 +64,15 @@ func grepSearch(ctx Context, params grepSearchParams) (string, error) {
cmd := strings.Join(args, " ") + fmt.Sprintf(" | head -n %d", maxResults)
- output, err := ctx.Exec(context.Background(), cmd)
+ output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
// grep exits non-zero (with empty output) when there are no
// matches; that's a normal result, not a tool failure.
- if strings.TrimSpace(output) == "" {
+ if strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) == "" {
return "No matches found.", nil
}
- return "", fmt.Errorf("grep_search: %w", err)
+ return "", fmt.Errorf("grep_search: %w", execErr(err, output, stderr))
}
if strings.TrimSpace(output) == "" {
diff --git a/internal/tools/list_files.go b/internal/tools/list_files.go
index 0d6f317..d06341d 100644
--- a/internal/tools/list_files.go
+++ b/internal/tools/list_files.go
@@ -33,9 +33,9 @@ func listFiles(ctx Context, params listFilesParams) (string, error) {
cmd = fmt.Sprintf(`ls -la %s | tail -n +2`, shellQuote(p))
}
- output, err := ctx.Exec(context.Background(), cmd)
+ output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
- return "", fmt.Errorf("list %q: %w", params.Path, err)
+ return "", fmt.Errorf("list %q: %w", params.Path, execErr(err, output, stderr))
}
return output, nil
diff --git a/internal/tools/move_file.go b/internal/tools/move_file.go
index e5e4e16..116dfd9 100644
--- a/internal/tools/move_file.go
+++ b/internal/tools/move_file.go
@@ -29,8 +29,9 @@ func moveFile(ctx Context, params moveFileParams) (string, error) {
cmd := fmt.Sprintf(`mkdir -p "$(dirname %s)" && mv %s %s`, shellQuote(to), shellQuote(from), shellQuote(to))
- if _, err := ctx.Exec(context.Background(), cmd); err != nil {
- return "", fmt.Errorf("move %q to %q: %w", params.FromPath, params.ToPath, err)
+ stdout, stderr, err := ctx.Exec(context.Background(), cmd)
+ if err != nil {
+ return "", fmt.Errorf("move %q to %q: %w", params.FromPath, params.ToPath, execErr(err, stdout, stderr))
}
return fmt.Sprintf("Moved %q to %q", params.FromPath, params.ToPath), nil
diff --git a/internal/tools/read_file.go b/internal/tools/read_file.go
index acfe9bf..3c42536 100644
--- a/internal/tools/read_file.go
+++ b/internal/tools/read_file.go
@@ -62,9 +62,9 @@ func readFile(ctx Context, params readFileParams) (string, error) {
`f=%s; [ -f "$f" ] || { echo "read_file: no such file: $f" >&2; exit 1; }; wc -l < "$f"; sed -n '%d,%dp' "$f"`,
shellQuote(p), from, to)
- output, err := ctx.Exec(context.Background(), cmd)
+ output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
- return "", fmt.Errorf("read %q: %w", params.Path, err)
+ return "", fmt.Errorf("read %q: %w", params.Path, execErr(err, output, stderr))
}
nl := strings.IndexByte(output, '\n')
diff --git a/internal/tools/remove_file.go b/internal/tools/remove_file.go
index 9082763..5674cd3 100644
--- a/internal/tools/remove_file.go
+++ b/internal/tools/remove_file.go
@@ -24,8 +24,9 @@ func init() {
func removeFile(ctx Context, params removeFileParams) (string, error) {
p := resolvePath(params.Path)
- if _, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p)); err != nil {
- return "", fmt.Errorf("remove %q: %w", params.Path, err)
+ stdout, stderr, err := ctx.Exec(context.Background(), "rm -f "+shellQuote(p))
+ if err != nil {
+ return "", fmt.Errorf("remove %q: %w", params.Path, execErr(err, stdout, stderr))
}
return "File removed successfully", nil
diff --git a/internal/tools/shell.go b/internal/tools/shell.go
index 94ea98d..c682400 100644
--- a/internal/tools/shell.go
+++ b/internal/tools/shell.go
@@ -33,15 +33,41 @@ func resolvePath(path string) string {
return path
}
+// combineOutput merges a command's stdout and stderr into the single
+// string a tool result presents: stdout first, then stderr if the
+// command wrote to both.
+func combineOutput(stdout, stderr string) string {
+ switch {
+ case stdout == "":
+ return stderr
+ case stderr == "":
+ return stdout
+ case strings.HasSuffix(stdout, "\n"):
+ return stdout + stderr
+ default:
+ return stdout + "\n" + stderr
+ }
+}
+
+// execErr wraps an Exec failure with whatever the command printed, so
+// a non-zero exit code doesn't swallow the error message.
+func execErr(err error, stdout, stderr string) error {
+ if out := strings.TrimSpace(combineOutput(stdout, stderr)); out != "" {
+ return fmt.Errorf("%w: %s", err, out)
+ }
+
+ return err
+}
+
func shellReadFile(ctx Context, path string) ([]byte, error) {
p := resolvePath(path)
// We use base64 encoding to avoid issues with binary data and
// special characters in the file content. The output of the command
// will be base64-encoded, which we then decode in Go.
- output, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
+ output, stderr, err := ctx.Exec(context.Background(), "base64 "+shellQuote(p))
if err != nil {
- return nil, err
+ return nil, execErr(err, output, stderr)
}
decoded, err := base64.StdEncoding.DecodeString(output)
@@ -60,9 +86,9 @@ func shellWriteFile(ctx Context, path string, content []byte) error {
`mkdir -p "$(dirname %s)" && echo %s | base64 -d > %s`,
shellQuote(p), shellQuote(encoded), shellQuote(p))
- _, err := ctx.Exec(context.Background(), cmd)
+ stdout, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
- return fmt.Errorf("write %q: %w", path, err)
+ return fmt.Errorf("write %q: %w", path, execErr(err, stdout, stderr))
}
return nil
diff --git a/internal/tools/tools_test.go b/internal/tools/tools_test.go
index 4fdc4a9..bc92117 100644
--- a/internal/tools/tools_test.go
+++ b/internal/tools/tools_test.go
@@ -34,14 +34,15 @@ func (f *fakeForgejoActions) SubmitReview(state, body string) error {
type fakeContext struct {
lastCmd string
- output string
+ stdout string
+ stderr string
err error
fg *fakeForgejoActions
}
-func (f *fakeContext) Exec(ctx context.Context, command string) (string, error) {
+func (f *fakeContext) Exec(ctx context.Context, command string) (string, string, error) {
f.lastCmd = command
- return f.output, f.err
+ return f.stdout, f.stderr, f.err
}
func (f *fakeContext) Forgejo() ForgejoActions {
@@ -61,7 +62,7 @@ func TestShellQuote(t *testing.T) {
}
func TestReadFileParsesMetaAndContent(t *testing.T) {
- fc := &fakeContext{output: "3\nline one\nline two\nline three\n"}
+ fc := &fakeContext{stdout: "3\nline one\nline two\nline three\n"}
out, err := readFile(fc, readFileParams{Path: "src/main.go"})
if err != nil {
@@ -139,7 +140,7 @@ func TestSubmitReviewRequiresBodyUnlessApproved(t *testing.T) {
}
func TestGrepSearchUsesExtendedRegex(t *testing.T) {
- fc := &fakeContext{output: "/project/foo.go:1:foo|bar\n"}
+ fc := &fakeContext{stdout: "/project/foo.go:1:foo|bar\n"}
out, err := grepSearch(fc, grepSearchParams{Pattern: `foo|bar`})
if err != nil {
@@ -154,7 +155,7 @@ func TestGrepSearchUsesExtendedRegex(t *testing.T) {
}
func TestGrepSearchNoMatches(t *testing.T) {
- fc := &fakeContext{output: "", err: fmt.Errorf("exit status 1")}
+ fc := &fakeContext{err: fmt.Errorf("exit status 1")}
out, err := grepSearch(fc, grepSearchParams{Pattern: "nomatch"})
if err != nil {
@@ -165,6 +166,63 @@ func TestGrepSearchNoMatches(t *testing.T) {
}
}
+func TestBashReturnsCombinedOutput(t *testing.T) {
+ fc := &fakeContext{stdout: "out\n", stderr: "err\n"}
+
+ out, err := bash(fc, bashParams{Command: "cmd"})
+ if err != nil {
+ t.Fatal(err)
+ }
+ if out != "out\nerr\n" {
+ t.Fatalf("unexpected output: %q", out)
+ }
+}
+
+func TestBashCarriesOutputInError(t *testing.T) {
+ fc := &fakeContext{
+ stderr: "ls: cannot access '/nope': No such file or directory\n",
+ err: fmt.Errorf("command exited with status 2"),
+ }
+
+ _, err := bash(fc, bashParams{Command: "ls /nope"})
+ if err == nil {
+ t.Fatal("expected an error for a non-zero exit")
+ }
+ if !strings.Contains(err.Error(), "exited with status 2") || !strings.Contains(err.Error(), "cannot access") {
+ t.Fatalf("expected the exit code and the command's stderr in the error, got: %v", err)
+ }
+}
+
+func TestBashSilentFailure(t *testing.T) {
+ fc := &fakeContext{err: fmt.Errorf("command exited with status 1")}
+
+ _, err := bash(fc, bashParams{Command: "false"})
+ if err == nil {
+ t.Fatal("expected an error for a non-zero exit")
+ }
+ if !strings.Contains(err.Error(), "exited with status 1") {
+ t.Fatalf("unexpected error: %v", err)
+ }
+}
+
+func TestCombineOutput(t *testing.T) {
+ cases := []struct {
+ stdout, stderr, want string
+ }{
+ {"a\n", "", "a\n"},
+ {"", "b\n", "b\n"},
+ {"", "", ""},
+ {"a\n", "b\n", "a\nb\n"},
+ {"a", "b\n", "a\nb\n"},
+ }
+
+ for _, c := range cases {
+ if got := combineOutput(c.stdout, c.stderr); got != c.want {
+ t.Errorf("combineOutput(%q, %q) = %q, want %q", c.stdout, c.stderr, got, c.want)
+ }
+ }
+}
+
func TestRegistryRoundTrip(t *testing.T) {
if len(All()) == 0 {
t.Fatal("expected registered tools")
Thinking
The diff looks complete and consistent. A few final things to verify:
1. **`edit-file.go`** — uses shellReadFile/shellWriteFile, no direct Exec calls. No problem.
2. **`seed_test.go`** — let me quickly check whether it references exec… it was in the agentrun package. Let me check if it compiles — it did (go vet -tags docker passed, and go build ./... also passed).
3. The `strings` import in sandboxgit.go — it's already imported (used in shellQuote). No problem.
4. The `strings` import in shell.go — already imported. No problem.
One more thing to double-check: in `TestDockerRuntimeGitSafeDirectory`, the first `git status` — I declared `stdout, stderr, _, err := ...`, and then redeclared `stdout, stderr, exitCode, err := rt.exec(...)` for the git config line. Wait, that's a redeclaration within the same function scope — `stdout, stderr, exitCode, err := ...` — since `exitCode` is new, `:=` is legal (at least one new variable on the left-hand side). And stdout/stderr/err get reused. It compiles (vet passed), so no problem.
Also, in the first test function, `stdout, stderr, exitCode, err := rt.exec(...)` is followed by `_, _, exitCode, err = rt.exec(...)` — assignment, no problem.
Now, one more thing I want to reconsider: the `read_file` tool's command writes "read_file: no such file: $f" to stderr and exits with 1. With my change, the error becomes:
`read "src/x": command exited with status 1: read_file: no such file: /project/src/x`
Good.
For `list_files` against a non-existent directory: `ls -la /project/nope | tail -n +2` — the pipeline's exit code is tail's = 0! So err == nil, and output (stdout) is empty → returns "" with no error. Hmm, that was the existing behavior (the pipeline masks the exit code). Not my concern in this issue.
Wait, actually there's a subtle issue with `list_files`: `ls -la %s | tail -n +2` — ls's stderr ("cannot access") now goes to the stderr stream, and the exit code is tail's (0). So the tool returns "" — same as before (previously the combined output would have contained the error message, but… no wait, previously with TTY the combined output would have contained "ls: cannot access..." and it would have been returned as output on success). Hmm, so previously `list_files` against a non-existent directory would return the error text as the result, but now it returns an empty string. A slight regression in information content for that edge case.
Should I fix it? The pipeline masks the exit code. I could add `set -o pipefail`, but… dash (sh) doesn't support pipefail in older versions. Debian's dash doesn't have pipefail. Hmm.
Alternative: restructure the command to avoid the pipeline: `ls -la %s | tail -n +2` → the reason for using tail is to strip the "total N" line. Alternative: `ls -A` style… actually, why tail? `ls -la` outputs "total 12" as the first line. They strip it with tail -n +2.
Options:
1. Leave it (edge case: listing a non-existent directory returns an empty string — the agent can infer it).
2. Change the command to avoid the pipeline: e.g., `ls -la %s 2>&1 | tail -n +2`? No, that merges the streams again.
3. Use `ls -lA` (no total line? no, -lA still outputs total). `ls -A` (no -l) has no total line: `ls -A %s` — but they use -la for details (permissions, size, date).
Hmm, actually, is this in scope? The issue is about PTY/stream handling. The `ls | tail` masking is an existing quirk unrelated to the PTY. But my change does alter the behavior of that edge case (the error text no longer appears in the result). To be safe and preserve the information, I could capture stderr in the empty-output case:
Actually, the simplest and most robust approach: keep the pipeline, but if the output is empty and stderr is non-empty, surface the error:
```go
output, stderr, err := ctx.Exec(context.Background(), cmd)
if err != nil {
return "", fmt.Errorf("list %q: %w", params.Path, execErr(err, output, stderr))
}
if strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) != "" {
return "", fmt.Errorf("list %q: %s", params.Path, strings.TrimSpace(stderr))
}
return output, nil
```
Hmm, this adds complexity for an edge case. But it preserves the old behavior (the agent sees why the listing failed) and is strictly better than returning "". I think it's worth doing — the whole point of this issue is that the agent shouldn't lose information. Let me add it. I'll need to import "strings" in list_files.go.
Actually wait — let me reconsider. With the old TTY behavior, `ls -la /nope | tail -n +2` would return "ls: cannot access '/nope': No such file or directory\n" as the tool's *result* (success, not error). The agent would see that text. With my current change, it returns "". So yes, there is a behavioral regression for that edge case. Let me add the check.
Similarly for grep_search: `grep ... | head -n N` — the pipeline masks grep's exit code, so err is basically always nil (head's exit code). If grep fails (invalid regex), stderr has "grep: warning: ..." or "grep: invalid regex", and stdout is empty → the code returns "No matches found." — that's wrong (it's an error, not no matches). Previously with TTY, the combined output would contain grep's error text, and `strings.TrimSpace(output) != ""` → returned as the result (as success). Hmm, so previously invalid regexes would return the grep error text as the result; now it returns "No matches found." — a regression in diagnostic quality.
Let me handle it: in grep_search, on the success path (err == nil), if stdout is empty and stderr is non-empty → return the stderr text as an error:
```go
if strings.TrimSpace(output) == "" {
if msg := strings.TrimSpace(stderr); msg != "" {
return "", fmt.Errorf("grep_search: %s", msg)
}
return "No matches found.", nil
}
```
This preserves the diagnostic info for the invalid-regex case.
Hmm, am I over-engineering? These are edge cases, but they're exactly the kind of "silent information loss" that the issue is complaining about. The fix is small and localized. Let me do both.
Actually, for grep, let me think about what happens with an invalid regex: `grep -Rn -I -E -i -e '(bad' /project | head -n 100`. grep writes "grep: Unmatched ( or \( at position 0" (or similar) to stderr and exits with 2. head exits with 0. So err == nil, stdout == "", stderr == "grep: ...". New behavior: error "grep_search: grep: Unmatched ( or \( at position 0".
For list_files with a non-existent directory: `ls -la /nope | tail -n +2` → ls exits with 2 writing to stderr, tail exits with 0. err == nil, stdout == "", stderr == "ls: cannot access...". New behavior: error `list "nope": ls: cannot access '/project/nope': No such file or directory`.
Both are strict improvements over the current state of my diff. Let me implement them.
Also, let me double-check that `read_file.go` handles the case where the file exists but sed fails — rare, skip.
And `shellReadFile` (used by edit-file): `base64 /nope` → base64 exits with 1, stderr "base64: /nope: No such file or directory" → now the error carries the message. edit-file.go wraps it as… let me check edit-file.go's error wrapping.
The diff looks good. However, I found two edge-case regressions that my changes introduce: `grep_search` and `list_files` use pipelines (`| head`, `| tail`), which mask the exit codes of the failing commands. Previously, the PTY's merged stream would carry the error text into the result, but now that stderr is separated, those diagnostics end up getting lost. I'll check `edit-file.go` and fix these two:
Tool 🔧 read_file {"path": "internal/tools/edit-file.go", "start_line": 1, "end_line": 75}
Arguments
{"path": "internal/tools/edit-file.go", "start_line": 1, "end_line": 75}
Result
{"path":"internal/tools/edit-file.go","content":"package tools\r\n\r\nimport (\r\n\t\"bytes\"\r\n\t\"fmt\"\r\n\t\"path\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\ntype editFileParams struct {\r\n\tPath string `json:\"path\"`\r\n\tFind string `json:\"find\"`\r\n\tReplace string `json:\"replace\"`\r\n\tReplaceAll bool `json:\"replace_all\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"edit_file\",\r\n\t\t\"Edit a file by replacing text. The tool will read the file, replace the specified text, and write the changes back to the file.\")\r\n\r\n\ttool.AddStringProperty(\"path\", \"The path to the file to edit\", true)\r\n\ttool.AddStringProperty(\"find\", \"The text to find in the file\", true)\r\n\ttool.AddStringProperty(\"replace\", \"The text to replace the found text with\", true)\r\n\ttool.AddBooleanProperty(\"replace_all\", \"Whether to replace all occurrences of the found text (true) or just the first occurrence (false)\", false)\r\n\r\n\tRegister(tool, editFile)\r\n}\r\n\r\nfunc editFile(ctx Context, params editFileParams) (string, error) {\r\n\tp := path.Clean(params.Path)\r\n\r\n\tcontent, err := shellReadFile(ctx, p)\r\n\tif err != nil {\r\n\t\treturn \"\", err\r\n\t}\r\n\r\n\tfind := []byte(params.Find)\r\n\treplace := []byte(params.Replace)\r\n\r\n\tcount := bytes.Count(content, find)\r\n\r\n\tif count == 0 {\r\n\t\treturn \"\", fmt.Errorf(\"%q not found in %q\", find, p)\r\n\t}\r\n\r\n\tif !params.ReplaceAll \u0026\u0026 count \u003e 1 {\r\n\t\treturn \"\", fmt.Errorf(\"%d occurrences of %q found in %q, but replace_all is false\", count, find, p)\r\n\t}\r\n\r\n\tcontent = bytes.ReplaceAll(content, find, replace)\r\n\r\n\terr = shellWriteFile(ctx, p, content)\r\n\tif err != nil {\r\n\t\treturn \"\", fmt.Errorf(\"write %q: %w\", p, err)\r\n\t}\r\n\r\n\treturn fmt.Sprintf(\"%d occurrences replaced\", count), nil\r\n}\r","start_line":1,"end_line":60,"total_lines":60,"truncated":false}
Thinking
`edit-file.go` just wraps the error from shellReadFile — since shellReadFile now includes the message, it's fine.
Next, fix the two pipeline edge cases:
1. `grep_search.go` — on the success path, if stdout is empty and stderr is non-empty → return an error containing stderr.
2. `list_files.go` — same thing.
`edit-file.go` is fine since `shellReadFile` now carries the message. Now fix the two pipeline edge cases:
Tool 🔧 edit_file {"path": "internal/tools/grep_search.go", "find": "\tif strings.TrimSpace(output) == \"\" {\n\t\treturn \"No matches found.\", nil\n\t}\n\n\treturn output, nil\n}", "replace": "\tif strings.TrimSpace(output) == \"\" {\n\t\t// The pipeline's exit status is head's, so a grep failure (e.g.\n\t\t// a bad regex) doesn't surface as an error; its diagnostic is on\n\t\t// stderr instead of in the match list.\n\t\tif msg := strings.TrimSpace(stderr); msg != \"\" {\n\t\t\treturn \"\", fmt.Errorf(\"grep_search: %s\", msg)\n\t\t}\n\n\t\treturn \"No matches found.\", nil\n\t}\n\n\treturn output, nil\n}"}
Arguments
{"path": "internal/tools/grep_search.go", "find": "\tif strings.TrimSpace(output) == \"\" {\n\t\treturn \"No matches found.\", nil\n\t}\n\n\treturn output, nil\n}", "replace": "\tif strings.TrimSpace(output) == \"\" {\n\t\t// The pipeline's exit status is head's, so a grep failure (e.g.\n\t\t// a bad regex) doesn't surface as an error; its diagnostic is on\n\t\t// stderr instead of in the match list.\n\t\tif msg := strings.TrimSpace(stderr); msg != \"\" {\n\t\t\treturn \"\", fmt.Errorf(\"grep_search: %s\", msg)\n\t\t}\n\n\t\treturn \"No matches found.\", nil\n\t}\n\n\treturn output, nil\n}"}
Result
1 occurrences replaced
Tool 🔧 edit_file {"path": "internal/tools/list_files.go", "find": "import (\n\t\"context\"\n\t\"fmt\"\n\n\t\"github.com/abrander/zoo/internal/llm\"\n)", "replace": "import (\n\t\"context\"\n\t\"fmt\"\n\t\"strings\"\n\n\t\"github.com/abrander/zoo/internal/llm\"\n)"}
Arguments
{"path": "internal/tools/list_files.go", "find": "import (\n\t\"context\"\n\t\"fmt\"\n\n\t\"github.com/abrander/zoo/internal/llm\"\n)", "replace": "import (\n\t\"context\"\n\t\"fmt\"\n\t\"strings\"\n\n\t\"github.com/abrander/zoo/internal/llm\"\n)"}
Result
1 occurrences replaced
Thinking
Wait, in grep_search.go, the error path already checks `strings.TrimSpace(output) == "" && strings.TrimSpace(stderr) == ""` for "No matches found." — that's for when err != nil. And the success path (err == nil) is the pipeline case. But hmm, there's some overlap: when err != nil (which, due to the pipeline, only happens if head itself fails), if stdout is empty and stderr is non-empty → `grep_search: %w: <output+stderr>`. OK.
Next is the empty case for list_files:
Tool 🔧 edit_file {"path": "internal/tools/list_files.go", "find": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}\n\n\treturn output, nil\n}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}\n\n\t// The pipeline's exit status is tail's, so ls failing (e.g. on a\n\t// missing directory) doesn't surface as an error; its diagnostic is\n\t// on stderr instead of in the listing.\n\tif strings.TrimSpace(output) == \"\" && strings.TrimSpace(stderr) != \"\" {\n\t\treturn \"\", fmt.Errorf(\"list %q: %s\", params.Path, strings.TrimSpace(stderr))\n\t}\n\n\treturn output, nil\n}"}
Arguments
{"path": "internal/tools/list_files.go", "find": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}\n\n\treturn output, nil\n}", "replace": "\toutput, stderr, err := ctx.Exec(context.Background(), cmd)\n\tif err != nil {\n\t\treturn \"\", fmt.Errorf(\"list %q: %w\", params.Path, execErr(err, output, stderr))\n\t}\n\n\t// The pipeline's exit status is tail's, so ls failing (e.g. on a\n\t// missing directory) doesn't surface as an error; its diagnostic is\n\t// on stderr instead of in the listing.\n\tif strings.TrimSpace(output) == \"\" && strings.TrimSpace(stderr) != \"\" {\n\t\treturn \"\", fmt.Errorf(\"list %q: %s\", params.Path, strings.TrimSpace(stderr))\n\t}\n\n\treturn output, nil\n}"}
Result
1 occurrences replaced
Thinking
Wait, there's one problem with the list_files check: what happens when listing a directory that actually exists but is empty? `ls -la emptydir | tail -n +2` → ls outputs "total 0\ndrwxr-xr-x 2 ... .\ndrwxr-xr-x 3 ... .." → tail -n +2 strips "total 0" → output = "drwxr-xr-x 2 ... .\ndrwxr-xr-x 3 ... .." — non-empty. So an empty directory returns the "." and ".." entries. OK, so the only case where output becomes empty is when ls fails (or the directory is... no, ls always outputs at least . and ..). Actually, wait — what if the path is a file rather than a directory? `ls -la /project/somefile` → outputs the file's line, non-empty. OK.
So `output == "" && stderr != ""` → ls failed. Good.
Now, let me rebuild and run the tests.
Rebuild and run the full test suite:
Tool 🔧 bash {"command": "cd /project && go build ./... && go vet ./... && go vet -tags docker ./internal/agentrun/... && gofmt -l . | grep -v '^\\.git'; go test ./... 2>&1 | tail -12", "timeout": 300}
Arguments
{"command": "cd /project && go build ./... && go vet ./... && go vet -tags docker ./internal/agentrun/... && gofmt -l . | grep -v '^\\.git'; go test ./... 2>&1 | tail -12", "timeout": 300}
Result
? github.com/abrander/zoo/cmd/zoo [no test files] ok github.com/abrander/zoo/internal/agentrun 0.004s ok github.com/abrander/zoo/internal/config (cached) ok github.com/abrander/zoo/internal/forgejo (cached) ok github.com/abrander/zoo/internal/livelog (cached) ok github.com/abrander/zoo/internal/llm (cached) ok github.com/abrander/zoo/internal/scheduler (cached) ok github.com/abrander/zoo/internal/store (cached) ok github.com/abrander/zoo/internal/tools 0.003s ok github.com/abrander/zoo/internal/web (cached)
Thinking
Everything's passing. Next, let me check the README to see if there's any documentation mentioning the bash tool's behavior that needs updating.
All green. Let me check whether the README or docs mention the old combined-output behavior:
Tool 🔧 grep_search {"context_after": 2, "context_before": 2, "query": "stdout|stderr|PTY|TTY|combined", "glob": "*.md"}
Arguments
{"context_after": 2, "context_before": 2, "query": "stdout|stderr|PTY|TTY|combined", "glob": "*.md"}
Result
No matches found.
Thinking
No documentation updates needed. Also, the bash tool's description inside `bash.go` says "Execute a shell command in the project container. Use this to run shell commands and scripts." — no mention of stream handling. No problem.
One more thing to double-check: the system prompt (`internal/agentrun/system.md`) — does it say anything about the bash tool's output? Let me do a quick check.
Tool 🔧 grep_search {"context_after": 2, "context_before": 2, "query": "bash|output|stream", "glob": "*.md"}
Arguments
{"context_after": 2, "context_before": 2, "query": "bash|output|stream", "glob": "*.md"}
Result
/project/README.md-33-Copy the example config and customize it: /project/README.md-34- /project/README.md:35:```bash /project/README.md-36-cp zoo.hcl.example zoo.hcl /project/README.md-37-``` -- /project/README.md-41-### Running /project/README.md-42- /project/README.md:43:```bash /project/README.md-44-go build -o zoo ./cmd/zoo /project/README.md-45-./zoo -- /project/README.md-158-│ ├── config/ # HCL config loader & validator /project/README.md-159-│ ├── forgejo/ # Webhook receiver & event poller /project/README.md:160:│ ├── livelog/ # Real-time log streaming hub /project/README.md:161:│ ├── llm/ # LLM client & streaming /project/README.md-162-│ ├── scheduler/ # Event-to-agent dispatcher /project/README.md-163-│ ├── store/ # SQLite state management -- /project/README.md-173-### Running Tests /project/README.md-174- /project/README.md:175:```bash /project/README.md-176-go test ./... /project/README.md-177-``` -- /project/internal/agentrun/system.md-18-**Tools** /project/internal/agentrun/system.md-19- /project/internal/agentrun/system.md:20:- `bash`, `read_file`, `write_file`, `list_files`, `grep_search`, /project/internal/agentrun/system.md-21- `move_file`, `remove_file` operate on the project container. /project/internal/agentrun/system.md-22-- `comment`, `open_pull_request`, `request_review`, `submit_review`, -- /project/internal/agentrun/system.md-35-**Git** /project/internal/agentrun/system.md-36- /project/internal/agentrun/system.md:37:You may use normal git commands in `bash` to manage your working tree. /project/internal/agentrun/system.md-38-Remote (pull, fetch, push, etc.) git operations are authenticated for /project/internal/agentrun/system.md-39-you and simply work.
Thinking
No documentation updates needed.
Alright, let me do a final review of the complete final state of the key files to make sure everything is consistent, then commit and push.
Let me re-read the final versions of docker.go's exec and bash.go to double-check.
No docs to update. Final review of the two core files:
Tool 🔧 read_file {"end_line": 150, "path": "internal/agentrun/docker.go", "start_line": 60}
Arguments
{"end_line": 150, "path": "internal/agentrun/docker.go", "start_line": 60}
Result
{"path":"internal/agentrun/docker.go","content":"\t}\r\n\r\n\treturn resp.ID, nil\r\n}\r\n\r\n// exec runs command via `sh -c` inside containerID and returns its\r\n// stdout and stderr as separate strings, plus its exit code.\r\n//\r\n// No TTY is attached: a TTY would make every command believe it is\r\n// interactive (launching pagers, prompting for credentials, ...) and\r\n// the line discipline would rewrite stdout's line endings to CRLF.\r\n// Without a TTY, Docker frames the attached stream with its stdcopy\r\n// format, so the two streams are demultiplexed back apart with\r\n// stdcopy.StdCopy.\r\nfunc (d *dockerRuntime) exec(ctx context.Context, containerID, command string) (string, string, int, error) {\r\n\tcreated, err := d.cli.ContainerExecCreate(ctx, containerID, container.ExecOptions{\r\n\t\tCmd: []string{\"sh\", \"-c\", command},\r\n\t\t// GIT_TERMINAL_PROMPT=0 stops git from ever trying to read a\r\n\t\t// credential from the terminal. With no TTY attached such a\r\n\t\t// prompt would fail anyway, but failing fast with a clear error\r\n\t\t// is preferable to any chance of a hang.\r\n\t\tEnv: []string{\"GIT_TERMINAL_PROMPT=0\"},\r\n\t\tAttachStdout: true,\r\n\t\tAttachStderr: true,\r\n\t})\r\n\tif err != nil {\r\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec create: %w\", err)\r\n\t}\r\n\r\n\tattached, err := d.cli.ContainerExecAttach(ctx, created.ID, container.ExecAttachOptions{})\r\n\tif err != nil {\r\n\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec attach: %w\", err)\r\n\t}\r\n\tdefer attached.Close()\r\n\r\n\t// Once hijacked, this stream is a raw connection that ctx cancellation\r\n\t// no longer reaches — a wedged child process (anything reading a stdin\r\n\t// nobody attaches) would otherwise block this read forever, past the\r\n\t// run's deadline, with no way to recover the job. Race the read against\r\n\t// ctx and force-remove the container to sever the connection if it\r\n\t// fires.\r\n\ttype readResult struct {\r\n\t\tstdout []byte\r\n\t\tstderr []byte\r\n\t\terr error\r\n\t}\r\n\r\n\treadDone := make(chan readResult, 1)\r\n\r\n\tgo func() {\r\n\t\tvar stdout, stderr bytes.Buffer\r\n\r\n\t\t// Without a TTY the attached stream is Docker's stdcopy-framed\r\n\t\t// multiplex of the process's stdout and stderr; StdCopy splits\r\n\t\t// it back into the two separate streams.\r\n\t\t_, err := stdcopy.StdCopy(\u0026stdout, \u0026stderr, attached.Reader)\r\n\r\n\t\treadDone \u003c- readResult{stdout.Bytes(), stderr.Bytes(), err}\r\n\t}()\r\n\r\n\tvar stdout, stderr []byte\r\n\r\n\tselect {\r\n\tcase res := \u003c-readDone:\r\n\t\tif res.err != nil {\r\n\t\t\treturn \"\", \"\", 0, fmt.Errorf(\"exec read output: %w\", res.err)\r\n\t\t}\r\n\r\n\t\tstdout, stderr = res.stdout, res.stderr\r\n\r\n\tcase \u003c-ctx.Done():\r\n\t\tkillCtx, cancel := context.WithTimeout(context.Background(), 10*time.Second)\r\n\t\tdefer cancel()\r\n\r\n\t\t_ = d.cli.ContainerRemove(killCtx, containerID, container.RemoveOptions{Force: true})\r\n\t\t\u003c-readDone\r\n\r\n\t\treturn \"\", \"\", 0, ctx.Err()\r\n\t}\r\n\r\n\tinspect, err := d.cli.ContainerExecInspect(ctx, created.ID)\r\n\tif err != nil {\r\n\t\treturn string(stdout), string(stderr), 0, fmt.Errorf(\"exec inspect: %w\", err)\r\n\t}\r\n\r\n\treturn string(stdout), string(stderr), inspect.ExitCode, nil\r\n}\r\n\r\n// remove force-stops and removes containerID, ignoring \"already gone\"\r\n// errors so cleanup is safe to call unconditionally.\r\nfunc (d *dockerRuntime) remove(ctx context.Context, containerID string) error {\r","start_line":60,"end_line":150,"total_lines":163,"truncated":true}
Tool 🔧 read_file {"path": "internal/tools/bash.go", "start_line": 1, "end_line": 65}
Arguments
{"path": "internal/tools/bash.go", "start_line": 1, "end_line": 65}
Result
{"path":"internal/tools/bash.go","content":"package tools\r\n\r\nimport (\r\n\t\"context\"\r\n\t\"fmt\"\r\n\t\"time\"\r\n\r\n\t\"github.com/abrander/zoo/internal/llm\"\r\n)\r\n\r\nconst maxTimeout = 300\r\n\r\ntype bashParams struct {\r\n\tCommand string `json:\"command\"`\r\n\tTimeout int `json:\"timeout,omitempty\"`\r\n}\r\n\r\nfunc init() {\r\n\ttool := llm.NewTool(\r\n\t\t\"bash\",\r\n\t\t\"Execute a shell command in the project container. Use this to run shell commands and scripts.\")\r\n\r\n\ttool.AddStringProperty(\"command\", \"The shell command to execute\", true)\r\n\ttool.AddIntegerProperty(\"timeout\", \"Optional timeout in seconds. Must not exceed 300 seconds.\", false)\r\n\r\n\tRegister(tool, bash)\r\n}\r\n\r\nfunc bash(ctx Context, params bashParams) (string, error) {\r\n\tif params.Timeout \u003c 0 {\r\n\t\treturn \"\", fmt.Errorf(\"timeout must not be negative\")\r\n\t}\r\n\r\n\tif params.Timeout \u003e maxTimeout {\r\n\t\treturn \"\", fmt.Errorf(\"timeout exceeds maximum of %d seconds\", maxTimeout)\r\n\t}\r\n\r\n\tvar execCtx context.Context\r\n\tvar cancel context.CancelFunc\r\n\r\n\tif params.Timeout \u003e 0 {\r\n\t\texecCtx, cancel = context.WithTimeout(context.Background(), time.Duration(params.Timeout)*time.Second)\r\n\t} else {\r\n\t\texecCtx, cancel = context.WithCancel(context.Background())\r\n\t}\r\n\tdefer cancel()\r\n\r\n\tstdout, stderr, err := ctx.Exec(execCtx, params.Command)\r\n\tif err != nil {\r\n\t\tif execCtx.Err() == context.DeadlineExceeded {\r\n\t\t\treturn \"\", fmt.Errorf(\"command timed out after %d seconds\", params.Timeout)\r\n\t\t}\r\n\r\n\t\t// A non-zero exit is not a tool failure in itself, but the\r\n\t\t// output (usually the error message on stderr) must still reach\r\n\t\t// the agent, so it's carried in the error.\r\n\t\treturn \"\", execErr(err, stdout, stderr)\r\n\t}\r\n\r\n\treturn combineOutput(stdout, stderr), nil\r\n}\r","start_line":1,"end_line":61,"total_lines":61,"truncated":false}
Thinking
Everything looks fine. Next, I'll commit and push the branch, then open a PR and leave a comment on the issue.
Let's commit with a clear message.
Everything looks good. Let me commit and push:
Tool 🔧 bash {"command": "cd /project && git add -A && git commit -m \"tools: drop the PTY from docker exec, keep stdout/stderr separate\n\nAttaching a TTY to every exec made commands believe they were\ninteractive (pagers, credential prompts, ...) and the line discipline\nrewrote stdout's line endings to CRLF. Remove the TTY and demultiplex\nDocker's stdcopy framing instead, so exec returns stdout and stderr as\nseparate strings.\n\nThe stream separation also exposes how the tool layer swallowed\ncommand output on a non-zero exit: the bash tool (and the file tools)\nnow carry the command's output in the error, so an error message on\nstderr is no longer discarded.\n\n- agentrun: exec() returns (stdout, stderr, exitCode, err); drop the\n TTY and the TTY-only env workarounds (NO_COLOR, git color.ui,\n pagers), keep GIT_TERMINAL_PROMPT=0 as a hang safety net\n- tools: Context.Exec returns (stdout, stderr, err); bash presents\n both streams and includes them in the failure; read/list/grep and\n the file helpers parse stdout and surface stderr in errors\n- tests: unit coverage for the new bash/combine behavior, and a docker\n integration test for the no-TTY stream contract\" && git log --oneline -2"}
Arguments
{"command": "cd /project && git add -A && git commit -m \"tools: drop the PTY from docker exec, keep stdout/stderr separate\n\nAttaching a TTY to every exec made commands believe they were\ninteractive (pagers, credential prompts, ...) and the line discipline\nrewrote stdout's line endings to CRLF. Remove the TTY and demultiplex\nDocker's stdcopy framing instead, so exec returns stdout and stderr as\nseparate strings.\n\nThe stream separation also exposes how the tool layer swallowed\ncommand output on a non-zero exit: the bash tool (and the file tools)\nnow carry the command's output in the error, so an error message on\nstderr is no longer discarded.\n\n- agentrun: exec() returns (stdout, stderr, exitCode, err); drop the\n TTY and the TTY-only env workarounds (NO_COLOR, git color.ui,\n pagers), keep GIT_TERMINAL_PROMPT=0 as a hang safety net\n- tools: Context.Exec returns (stdout, stderr, err); bash presents\n both streams and includes them in the failure; read/list/grep and\n the file helpers parse stdout and surface stderr in errors\n- tests: unit coverage for the new bash/combine behavior, and a docker\n integration test for the no-TTY stream contract\" && git log --oneline -2"}
Result
[issue-52-greg 4ff7ec5] tools: drop the PTY from docker exec, keep stdout/stderr separate 13 files changed, 272 insertions(+), 93 deletions(-) 4ff7ec5 (HEAD -> issue-52-greg) tools: drop the PTY from docker exec, keep stdout/stderr separate 10c3dce (origin/main, main) Better Docker/git inter.
Thinking
Let's run the full test suite one more time to confirm everything is green, and then push.
Tool 🔧 bash {"command": "cd /project && go build ./... && go vet ./... && go vet -tags docker ./... 2>&1 | grep -v '^$'; go test ./... 2>&1 | tail -12 && git push -u origin issue-52-greg 2>&1 | tail -3", "timeout": 300}
Arguments
{"command": "cd /project && go build ./... && go vet ./... && go vet -tags docker ./... 2>&1 | grep -v '^$'; go test ./... 2>&1 | tail -12 && git push -u origin issue-52-greg 2>&1 | tail -3", "timeout": 300}
Result
? github.com/abrander/zoo/cmd/zoo [no test files] ok github.com/abrander/zoo/internal/agentrun (cached) ok github.com/abrander/zoo/internal/config (cached) ok github.com/abrander/zoo/internal/forgejo (cached) ok github.com/abrander/zoo/internal/livelog (cached) ok github.com/abrander/zoo/internal/llm (cached) ok github.com/abrander/zoo/internal/scheduler (cached) ok github.com/abrander/zoo/internal/store (cached) ok github.com/abrander/zoo/internal/tools (cached) ok github.com/abrander/zoo/internal/web (cached) To https://code.stdio.dk/abrander/zoo.git * [new branch] issue-52-greg -> issue-52-greg branch 'issue-52-greg' set up to track 'origin/issue-52-greg'.
Thinking
Everything's been pushed. Next, I'll open a PR and leave a comment on the issue.
Pushed. Now open the PR and report back on the issue:
Tool 🔧 open_pull_request {"head": "issue-52-greg", "base": "main", "title": "tools: drop the PTY from docker exec, keep stdout/stderr separate", "body": "Fixes #52.\n\nI agree the PTY was more hassle than it gave — all three reported problems came from it, and removing it also exposed a fourth: the tool layer was discarding **all** command output (not just stderr) on a non-zero exit.\n\n## Changes\n\n**`internal/agentrun/docker.go`** — `exec()` no longer attaches a TTY:\n- Commands no longer see a TTY, so nothing will believe it's interactive (no pager launches, no credential prompts waiting on input that never comes — such commands now fail fast with a visible error instead of hanging until the timeout kills the whole container).\n- No more CRLF rewriting of stdout by the line discipline.\n- Without a TTY, Docker frames the attached stream with its stdcopy format, so the streams are demultiplexed with `pkg/stdcopy.StdCopy` into separate `stdout`/`stderr` buffers. `exec()` now returns `(stdout, stderr string, exitCode int, err error)`.\n- The TTY-only env workarounds (`NO_COLOR`, git `color.ui=never`, `GIT_PAGER`/`PAGER=cat`) are gone — git's isatty checks no longer fire. `GIT_TERMINAL_PROMPT=0` is kept as a hang safety net.\n\n**`internal/tools`** — `Context.Exec` now returns `(stdout, stderr string, err error)`:\n- `bash` presents both streams (stdout first, then stderr) and, on a non-zero exit, carries the output in the error — e.g. `command exited with status 2: ls: cannot access '/nope': No such file or directory` instead of a bare `command failed`.\n- `read_file`, `list_files`, `grep_search`, `write_file`, `edit_file`, `move_file`, `remove_file` parse stdout and surface stderr in their errors (e.g. `read_file`'s \"no such file\" message, which it writes to stderr, is no longer lost).\n- `grep_search`/`list_files` use pipelines whose exit status is the last command's, so a failing `grep`/`ls` doesn't surface as an error — their stderr diagnostics are now surfaced explicitly instead of being silently dropped.\n\n**`internal/agentrun/sandboxgit.go`** — `runSandboxGit` merges the two streams (git writes progress to stderr) and keeps its \"error carries the output\" contract.\n\n## Tests\n\n- New unit tests: bash output combining, output carried in the failure error, silent failure, `combineOutput` cases.\n- New docker integration test `TestDockerRuntimeExecStreams` (build tag `docker`): verifies separate unframed streams (no CRLF), no TTY on the command's stdout, and stderr returned on a non-zero exit. The existing `git status` \"dubious ownership\" test now asserts on stderr, where git actually writes that fatal.\n- `go build`, `go vet` (incl. `-tags docker`), `gofmt`, and `go test ./...` all pass. The docker-tagged integration tests need a daemon, which this environment doesn't have — they compile cleanly but weren't executed here."}
Arguments
{"head": "issue-52-greg", "base": "main", "title": "tools: drop the PTY from docker exec, keep stdout/stderr separate", "body": "Fixes #52.\n\nI agree the PTY was more hassle than it gave — all three reported problems came from it, and removing it also exposed a fourth: the tool layer was discarding **all** command output (not just stderr) on a non-zero exit.\n\n## Changes\n\n**`internal/agentrun/docker.go`** — `exec()` no longer attaches a TTY:\n- Commands no longer see a TTY, so nothing will believe it's interactive (no pager launches, no credential prompts waiting on input that never comes — such commands now fail fast with a visible error instead of hanging until the timeout kills the whole container).\n- No more CRLF rewriting of stdout by the line discipline.\n- Without a TTY, Docker frames the attached stream with its stdcopy format, so the streams are demultiplexed with `pkg/stdcopy.StdCopy` into separate `stdout`/`stderr` buffers. `exec()` now returns `(stdout, stderr string, exitCode int, err error)`.\n- The TTY-only env workarounds (`NO_COLOR`, git `color.ui=never`, `GIT_PAGER`/`PAGER=cat`) are gone — git's isatty checks no longer fire. `GIT_TERMINAL_PROMPT=0` is kept as a hang safety net.\n\n**`internal/tools`** — `Context.Exec` now returns `(stdout, stderr string, err error)`:\n- `bash` presents both streams (stdout first, then stderr) and, on a non-zero exit, carries the output in the error — e.g. `command exited with status 2: ls: cannot access '/nope': No such file or directory` instead of a bare `command failed`.\n- `read_file`, `list_files`, `grep_search`, `write_file`, `edit_file`, `move_file`, `remove_file` parse stdout and surface stderr in their errors (e.g. `read_file`'s \"no such file\" message, which it writes to stderr, is no longer lost).\n- `grep_search`/`list_files` use pipelines whose exit status is the last command's, so a failing `grep`/`ls` doesn't surface as an error — their stderr diagnostics are now surfaced explicitly instead of being silently dropped.\n\n**`internal/agentrun/sandboxgit.go`** — `runSandboxGit` merges the two streams (git writes progress to stderr) and keeps its \"error carries the output\" contract.\n\n## Tests\n\n- New unit tests: bash output combining, output carried in the failure error, silent failure, `combineOutput` cases.\n- New docker integration test `TestDockerRuntimeExecStreams` (build tag `docker`): verifies separate unframed streams (no CRLF), no TTY on the command's stdout, and stderr returned on a non-zero exit. The existing `git status` \"dubious ownership\" test now asserts on stderr, where git actually writes that fatal.\n- `go build`, `go vet` (incl. `-tags docker`), `gofmt`, and `go test ./...` all pass. The docker-tagged integration tests need a daemon, which this environment doesn't have — they compile cleanly but weren't executed here."}
Result
Pull request opened
Thinking
The PR has been opened. Next, I'll leave a comment on the issue summarizing what was done.
Tool 🔧 comment {"body": "Agreed — the PTY was more hassle than it gave, and I've removed it. All three problems you listed came from it, and digging in exposed a fourth: on a non-zero exit the tool layer was actually discarding **all** output (stdout *and* stderr), not just stderr.\n\nWhat the fix does (PR is up for review):\n\n1. **No TTY anymore** (`internal/agentrun/docker.go`). Commands no longer see a terminal, so nothing will believe it's interactive — a pager or credential prompt can't hang waiting for input that never comes; such commands now fail fast with a visible error instead of running until the timeout force-kills the whole container.\n2. **No CRLF rewriting** — that was the PTY line discipline. Without a TTY, Docker frames the stream with its stdcopy format, so `exec` demultiplexes it with `pkg/stdcopy.StdCopy` and returns `stdout` and `stderr` as separate strings.\n3. **Nothing discarded on failure** — `Context.Exec` now returns `(stdout, stderr, err)`, and the `bash` tool carries the output in the error on a non-zero exit: `command exited with status 2: ls: cannot access '/nope': No such file or directory`. The file tools (`read_file`, `list_files`, `grep_search`, `write_file`, `edit_file`, `move_file`, `remove_file`) got the same treatment, so e.g. `read_file`'s \"no such file\" message (which it writes to stderr) reaches the agent.\n4. Cleanup: the TTY-only env workarounds (`NO_COLOR`, git `color.ui=never`, `GIT_PAGER`/`PAGER=cat`) are gone since git's isatty checks no longer fire; `GIT_TERMINAL_PROMPT=0` stays as a hang safety net.\n\nTests: new unit tests for the bash output/error behavior, and a new docker integration test (`-tags docker`) asserting separate unframed streams, no TTY on the command's stdout, and stderr returned on non-zero exit. `go build`, `go vet`, `gofmt` and `go test ./...` all pass; the docker-tagged tests compile but need a daemon, which this environment doesn't have."}
Arguments
{"body": "Agreed — the PTY was more hassle than it gave, and I've removed it. All three problems you listed came from it, and digging in exposed a fourth: on a non-zero exit the tool layer was actually discarding **all** output (stdout *and* stderr), not just stderr.\n\nWhat the fix does (PR is up for review):\n\n1. **No TTY anymore** (`internal/agentrun/docker.go`). Commands no longer see a terminal, so nothing will believe it's interactive — a pager or credential prompt can't hang waiting for input that never comes; such commands now fail fast with a visible error instead of running until the timeout force-kills the whole container.\n2. **No CRLF rewriting** — that was the PTY line discipline. Without a TTY, Docker frames the stream with its stdcopy format, so `exec` demultiplexes it with `pkg/stdcopy.StdCopy` and returns `stdout` and `stderr` as separate strings.\n3. **Nothing discarded on failure** — `Context.Exec` now returns `(stdout, stderr, err)`, and the `bash` tool carries the output in the error on a non-zero exit: `command exited with status 2: ls: cannot access '/nope': No such file or directory`. The file tools (`read_file`, `list_files`, `grep_search`, `write_file`, `edit_file`, `move_file`, `remove_file`) got the same treatment, so e.g. `read_file`'s \"no such file\" message (which it writes to stderr) reaches the agent.\n4. Cleanup: the TTY-only env workarounds (`NO_COLOR`, git `color.ui=never`, `GIT_PAGER`/`PAGER=cat`) are gone since git's isatty checks no longer fire; `GIT_TERMINAL_PROMPT=0` stays as a hang safety net.\n\nTests: new unit tests for the bash output/error behavior, and a new docker integration test (`-tags docker`) asserting separate unframed streams, no TTY on the command's stdout, and stderr returned on non-zero exit. `go build`, `go vet`, `gofmt` and `go test ./...` all pass; the docker-tagged tests compile but need a daemon, which this environment doesn't have."}
Result
Comment posted
Thinking
Everything is done:
1. ✅ Removed the PTY from docker exec
2. ✅ Demultiplexed stdout/stderr using stdcopy
3. ✅ Fixed the issue where output was being discarded on non-zero exit codes
4. ✅ Updated all callers (tools, sandboxgit, runContext)
5. ✅ Updated and added tests
6. ✅ Build, vet, gofmt, tests all passing
7. ✅ Committed and pushed the branch
8. ✅ Opened a PR
9. ✅ Left a comment on the issue
Done. Let me summarize for the user.
Done. Here's a summary of what I did for issue #52:
## Problem
`dockerRuntime.exec` attached a TTY to every `docker exec`, which caused all three reported issues:
1. Commands saw a TTY → believed they were interactive (pagers/credential prompts could hang until the timeout killed the whole container)
2. On a non-zero exit, the tool layer discarded **all** output (the `bash` tool returned a bare `command failed` error)
3. The PTY line discipline rewrote stdout's line endings to CRLF
## Fix (branch `issue-52-greg`, PR opened against `main`)
**`internal/agentrun/docker.go`** — removed `Tty: true` from exec create/attach. Without a TTY, Docker frames the stream with its stdcopy format, so the read loop now demultiplexes with `pkg/stdcopy.StdCopy` into separate buffers. `exec()` returns `(stdout, stderr string, exitCode int, err error)`. Dropped the TTY-only env workarounds (`NO_COLOR`, git `color.ui=never`, `GIT_PAGER`/`PAGER=cat`); kept `GIT_TERMINAL_PROMPT=0` as a hang safety net.
**`internal/tools`** — `Context.Exec` now returns `(stdout, stderr, err)`:
- `bash` presents both streams and carries the output in the error on non-zero exit (`command exited with status 2: ls: cannot access ...`)
- `read_file`, `list_files`, `grep_search`, `write_file`, `edit_file`, `move_file`, `remove_file` parse stdout and surface stderr in their errors (e.g. `read_file`'s "no such file" message is no longer lost)
- `grep_search`/`list_files` pipelines mask the failing command's exit code, so their stderr diagnostics are now surfaced explicitly
**`internal/agentrun/sandboxgit.go`** — `runSandboxGit` merges the streams (git progress goes to stderr) and keeps its error-carries-output contract.
**Tests** — new unit tests for bash output/error behavior and `combineOutput`; new docker integration test `TestDockerRuntimeExecStreams` verifying separate unframed streams (no CRLF), no TTY, and stderr on non-zero exit; the "dubious ownership" test now asserts on stderr where git actually writes it.
`go build`, `go vet` (incl. `-tags docker`), `gofmt`, and `go test ./...` all pass. The docker-tagged integration tests compile but couldn't be executed here (no Docker daemon in this environment) — noted in the PR.