gnuradio: Fix 2 upstream issues

pkgs/applications/radio/gnuradio/3.8.nix

@@ -1,5 +1,6 @@
 { lib, stdenv
 , fetchFromGitHub
+, fetchpatch
 , cmake
 # Remove gcc and python references
 , removeReferencesTo
@@ -227,6 +228,15 @@ stdenv.mkDerivation rec {
     dontWrapQtApps
     meta
   ;
+  patches = [
+    # Not accepted upstream, see https://github.com/gnuradio/gnuradio/pull/5227
+    ./modtool-newmod-permissions.3_8.patch
+    (fetchpatch {
+      # https://github.com/gnuradio/gnuradio/pull/5226
+      url = "https://github.com/gnuradio/gnuradio/commit/9d7343526dd793120b6425cd9a6969416ed32503.patch";
+      sha256 = "sha256-usSoRDDuClUfdX4yFbQNu8wDzve6UEhZYTFj1oZbFic=";
+    })
+  ];
   passthru = shared.passthru // {
     # Deps that are potentially overriden and are used inside GR plugins - the same version must
     inherit boost volk;

pkgs/applications/radio/gnuradio/default.nix

@@ -252,6 +252,15 @@ stdenv.mkDerivation rec {
     dontWrapQtApps
     meta
   ;
+  patches = [
+    # Not accepted upstream, see https://github.com/gnuradio/gnuradio/pull/5227
+    ./modtool-newmod-permissions.patch
+    (fetchpatch {
+      # https://github.com/gnuradio/gnuradio/pull/5225
+      url = "https://github.com/gnuradio/gnuradio/commit/4cef46e3ea0faf04e05ca1a5846cd1568fa51bb2.patch";
+      sha256 = "sha256-6AlGbtD1S0c3I9JSoLTMP4YqwDU17i2j+XRkuR+QTuc=";
+    })
+  ];
   passthru = shared.passthru // {
     # Deps that are potentially overriden and are used inside GR plugins - the same version must
     inherit boost volk;

pkgs/applications/radio/gnuradio/modtool-newmod-permissions.3_8.patch

@@ -0,0 +1,26 @@
+commit bf870157e0a9c3d19e968afb276b4e7d96b4df30
+Author: Doron Behar <doron.behar@gmail.com>
+Date:   Thu Oct 21 13:10:42 2021 +0300
+
+    gr-modtool: Don't copy source permissions
+    
+    This is needed for systems such as NixOS, where the build tree isn't
+    writable and the files copied should be.
+    
+    Signed-off-by: Doron Behar <doron.behar@gmail.com>
+
+diff --git a/gr-utils/python/modtool/core/newmod.py b/gr-utils/python/modtool/core/newmod.py
+index 123059907..0c734e7ae 100644
+--- a/gr-utils/python/modtool/core/newmod.py
++++ b/gr-utils/python/modtool/core/newmod.py
+@@ -78,7 +78,9 @@ class ModToolNewModule(ModTool):
+         self._setup_scm(mode='new')
+         logger.info("Creating out-of-tree module in {}...".format(self.dir))
+         try:
+-            shutil.copytree(self.srcdir, self.dir)
++            # https://stackoverflow.com/a/17022146/4935114
++            shutil.copystat = lambda x, y: x
++            shutil.copytree(self.srcdir, self.dir, copy_function=shutil.copyfile)
+             os.chdir(self.dir)
+         except OSError:
+             raise ModToolException('Could not create directory {}.'.format(self.dir))

pkgs/applications/radio/gnuradio/modtool-newmod-permissions.patch

@@ -0,0 +1,15 @@
+diff --git c/gr-utils/modtool/core/newmod.py w/gr-utils/modtool/core/newmod.py
+index babebfcde..9a02f663e 100644
+--- c/gr-utils/modtool/core/newmod.py
++++ w/gr-utils/modtool/core/newmod.py
+@@ -62,7 +62,9 @@ class ModToolNewModule(ModTool):
+         self._setup_scm(mode='new')
+         logger.info(f"Creating out-of-tree module in {self.dir}...")
+         try:
+-            shutil.copytree(self.srcdir, self.dir)
++            # https://stackoverflow.com/a/17022146/4935114
++            shutil.copystat = lambda x, y: x
++            shutil.copytree(self.srcdir, self.dir, copy_function=shutil.copyfile)
+             try:
+               shutil.copyfile(os.path.join(gr.prefix(), 'share', 'gnuradio', 'clang-format.conf'),
+                               os.path.join(self.dir, '.clang-format'))