System.cmd with temporary $HOME returns 126 Permission Error on macOS Sequoia

Questions / Help
, ,
1

I’m running into a 126 permission error when executing a Java command through System.cmd/3, but only if I give a custom $HOME environment variable. This problem only started recently, I think after I upgraded to macOS Sequoia, but it might also have happened before already.

Context

I have a tabula.jar executable in my priv/jars folder which I use to extract tables from PDFs. I execute it with this command:

pdf_path = "some.pdf"
tabula_path = Path.join([:code.priv_dir(:my_app), "jars", "tabula.jar"])
tmp_dir = Path.join(System.tmp_dir!(), "tabula")

result = System.cmd(
    "java", 
    ["-jar", tabula_path, "--format", "CSV", pdf_path],
    env: [{"HOME", tmp_dir}]
  )

case result do
  {output, 0} ->
    {:ok, output}

  error -> 
    Logger.error("Failed to run Tabula: #{inspect(error)}")
    {:error, "Failed to execute Tabula"}
end

The Problem

Until a few weeks ago, System.cmd/3 would return {"some-CSV-content", 0}, but now it returns {"", 126}. According to the Bash manual, an 126 exit status means:

If a command is found but is not executable, the return status is 126.

I overwrite the $HOME environment variable in the System.cmd/3 call to have Tabula store its intermediary files in a tmp folder so that I don’t have to clean it up manually. It has been that way for a year without problems, but since recently that creates the 126 permission error above because the command executes properly if I remove the env option altogether.

I double and triple checked the permissions on everything and they all have 755 permissions:

# Tmp folder in 
# /var/folders/j9/515ltdpd4txcrxbc08zz4xs40000gn/T/
drwxrwxrwx@   2 peterullrich  staff      64 Feb 28 14:39 tabula

# Priv folder and Jar
drwxr-xr-x@  11 peterullrich  staff       352 Feb 28 10:46 priv
drwxr-xr-x@  3 peterullrich   staff        96 Oct 29 10:18 jars
-rwxrwxrwx@  1 peterullrich   staff  13334394 Oct 29 10:19 tabula.jar
2

You probably hit Gatekeeper. This is why I stop upgrading my Mac past Catalina. I might need to give up on Mac for good and go back to Linux in a couple of years, when Catalina support ends. All good things come to an end.

1 Like
3

I too started disliking the Apple ecosystem. It’s just a mountain of small bad things accumulating with time; a death by a thousand paper cuts, if you will.

When I’m back employed and with a stable-ish income I’ll invest in a beefy Linux workstation and the best display that decent money can buy.

Macs have outlived their usefulness to me. Too restricted, and ergonomics get worse and worse with time.

4

Apologies for a half-informed suggestion, I’m simply throwing an idea into the mix: have you tried using ex_cmd?

5

Gatekeeper wouldn’t silently fail though. One gets a alert popup if a binary is called, which needs to be explicitly allowed first. I hit this case reguarly when I need to update chromedriver for wallaby.

Did you check System.find_executable? Run ls -la on the folder through System.cmd as well and it reports the binary as executable?

6

Thank you for the suggestions. I double checked the folder permissions as suggested but they looked fine. However, I found out it must be related to the java executable. I’ve recently updated asdf to the latest version which had a lot of breaking changes and I had some problems with configuring my $PATH correctly. It’s likely related to that.

# This code:
    System.cmd("java", ["--version"]) |> IO.inspect()
    System.cmd("java", ["--version"], env: [{"HOME", tmp_path}]) |> IO.inspect()

# Returns this:
{"openjdk 21.0.2 2024-01-16 LTS\nOpenJDK Runtime Environment Temurin-21.0.2+13 (build 21.0.2+13-LTS)\nOpenJDK 64-Bit Server VM Temurin-21.0.2+13 (build 21.0.2+13-LTS, mixed mode)\n",
 0}
{"", 126} <- See how the second call returned the permission error

Edit: Yeah, it seems to be an asdf issue (issue). I’ve created a bug report here: bug: overwriting $HOME in shim command returns 126 permission error · Issue #1999 · asdf-vm/asdf · GitHub