deno - replace deprecated Deno.run with Deno.Command

[cscheid]

Closes #8891.

[cscheid]

This is a bit obnoxious. Using Deno.Command crashes command.output() with a failed assertion deep into the Deno runtime:

Stack trace:
    at assert (ext:deno_web/00_infra.js:374:11)
    at readableStreamError (ext:deno_web/06_streams.js:2479:3)
    at readableStreamCollectIntoUint8Array (ext:deno_web/06_streams.js:1039:7)
    at eventLoopTick (ext:core/01_core.js:183:11)
    at async Promise.all (index 1)
    at async ChildProcess.output (ext:runtime/40_process.js:295:49)
    at async execProcess (file:///Users/cscheid/repos/github/quarto-dev/quarto-cli/src/core/process.ts:175:20)
    at async pandocListFormats (file:///Users/cscheid/repos/github/quarto-dev/quarto-cli/src/core/pandoc/pandoc-formats.ts:17:18)

(The CI output doesn't show this stack trace, I obtained it locally)

[cscheid]

We're blocked here until we upgrade Deno, I think.

But we're blocked on upgrading Deno until we confirm that the fix for denoland/deno#22180 has landed and resolves our issues. It seems that Deno v1.40.3 fixed that problem, so we should try again.

[cscheid]

This PR is currently blocked by a Deno v1.41.0 bug with the following repro:

deno_repro.ts

async function processOutput(iterator: AsyncIterable<Uint8Array>): Promise<string> {
  const decoder = new TextDecoder();
  let outputText = "";
  for await (const chunk of iterator) {
    const text = decoder.decode(chunk);
    outputText += text;
  }
  return outputText;
}

async function* iteratorFromStream(stream: ReadableStream<Uint8Array>) {
  const reader = stream.getReader();
  try {
    while (true) {
      const { done, value } = await reader.read();
      if (done) return;
      yield value;
    }
  } finally {
    reader.releaseLock();
  }
}

const command = new Deno.Command("ls", {stdout: "piped", stderr: "piped"});
const process = command.spawn();

const promises: Promise<unknown>[] = [
  processOutput(iteratorFromStream(process.stdout)),
  processOutput(iteratorFromStream(process.stderr)),
];

await Promise.all(promises);

// assertion fails here
const status = await process.output();

$ deno run --allow-all deno_repro.ts
error: Uncaught (in promise) AssertionError: Assertion failed.
const status = await process.output();
               ^
    at assert (ext:deno_web/00_infra.js:374:11)
    at readableStreamError (ext:deno_web/06_streams.js:2529:3)
    at readableStreamCollectIntoUint8Array (ext:deno_web/06_streams.js:1081:7)
    at eventLoopTick (ext:core/01_core.js:153:7)
    at async Promise.all (index 1)
    at async ChildProcess.output (ext:runtime/40_process.js:322:49)
    at async file:///Users/cscheid/Desktop/daily-log/2024/02/28/deno_repro.ts:35:16

[cscheid]

Upstream deno bug report: denoland/deno#22621