fix: replace Popen readline loop with subprocess.run for Windows pipe reliability; add close_hw before quit in TCL; revert console=True

src/bitstream_programmer.py

@@ -277,6 +277,8 @@ open_hw_target
 current_hw_device [lindex [get_hw_devices] 0]
 program_hw_device -file "{bit_path}"
 refresh_hw_device
+close_hw
+disconnect_hw_server
 quit
 """
     tcl_path = bit_path.parent / "temp_program.tcl"

src/zynq_checker.py

@@ -125,7 +125,7 @@ def check_zynq_jtag(
     if callback:
         callback("progress", "Scanning JTAG chain...")
 
-    # ── 3. Run Vivado TCL (stream output to callback) ──────────
+    # ── 3. Run Vivado TCL ──────────────────────────────────────
     tcl = _build_jtag_query_tcl()
     python_timeout = config.step_timeouts.get("check_env", 120)
 
@@ -141,31 +141,27 @@ def check_zynq_jtag(
 
     output_lines: list[str] = []
     try:
-        proc = subprocess.Popen(
+        cmd = build_tool_command(vivado_path, *vivado_args)
-            build_tool_command(vivado_path, *vivado_args),
+        # Use run() with communicate() under the hood — reliably
-            stdout=subprocess.PIPE, stderr=subprocess.STDOUT,
+        # drains pipes on Windows even when .bat wrappers are involved
+        result = subprocess.run(
+            cmd,
+            capture_output=True,
             text=True,
+            timeout=python_timeout,
         )
-        # Read line by line so user sees real-time progress
+        output = result.stdout + result.stderr
-        deadline = time.monotonic() + python_timeout
+        for line in output.splitlines():
-        while True:
+            stripped = line.strip()
-            line = proc.stdout.readline() if proc.stdout else ""
+            if stripped:
-            if not line:
+                output_lines.append(stripped)
-                if proc.poll() is not None:
+                if callback:
-                    break
+                    callback("progress", stripped)
-                if time.monotonic() > deadline:
+    except subprocess.TimeoutExpired:
-                    proc.kill()
-                    proc.wait()
         return _fail(
             f"JTAG scan timed out after {python_timeout}s",
             hw_server_url,
         )
-                time.sleep(0.1)
-                continue
-            line = line.rstrip("\n\r")
-            output_lines.append(line)
-            if callback and line.strip():
-                callback("progress", line)
     except OSError as e:
         return _fail(f"Failed to run Vivado: {e}", hw_server_url)
     finally:
@@ -173,7 +169,6 @@ def check_zynq_jtag(
             Path(tcl).unlink(missing_ok=True)
         except Exception:
             pass
-        # Clean up Vivado temp files we redirected
         for f in ("vivado_jtag.jou", "vivado_jtag.log"):
             try:
                 (Path(tmp) / f).unlink(missing_ok=True)
@@ -267,6 +262,8 @@ foreach dev [get_hw_devices] {
   puts "DEVICE:$name IDCODE:$idcode"
 }
 puts "===JTAG_END==="
+close_hw
+disconnect_hw_server
 quit
 """
     import os