Exception: NotADirectoryError building Hardknott

["Simon Haines" <simon.haines@scalardata.com>]

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I can't seem to find any information about this error, but I keep getting
variations of this when building hardknott:

Exception: NotADirectoryError: [Errno 20] Not a directory:
'/home/yocto/rpi64/build/tmp/sysroots-components/x86_64/gmp-native/usr/lib/pkgconfig/gmpxx.pc'
->
'/home/yocto/rpi64/build/tmp/work/x86_64-linux/libmpc-native/1.2.1-r0/recipe-sysroot-native/usr/lib/pkgconfig/gmpxx.pc'

I'm building in a container, and I've tried building the tip of the
hardknott branch, the hardknott-3.3.1 tag, and the release tarball (
http://downloads.yoctoproject.org/releases/yocto/yocto-3.3/poky-hardknott-25.0.0.tar.bz2).
All fail with the NotADirectory exception in different recipes. I've
attached logs from building the hardknott-3.3.1 tag and from the release
tarball.

The additional layers I'm using are (cloned from the tip of their
respective hardknott branches):
meta-openembedded
meta-raspberrypi
meta-security

It must be something with my setup because I've searched everywhere for
this issue and I can't find anything. Does this sound familiar to anyone?
Simon.

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DEBUG: Executing python function extend_recipe_sysroot
NOTE: Direct dependencies are ['virtual:native:/home/yocto/poky-hardknott/meta/recipes-extended/xz/xz_5.2.5.bb:do_populate_sysroot']
ERROR: Error executing a python function in exec_python_func() autogenerated:

The stack trace of python calls that resulted in this exception/failure was:
File: 'exec_python_func() autogenerated', lineno: 2, function: <module>
     0001:
 *** 0002:extend_recipe_sysroot(d)
     0003:
File: '/home/yocto/poky-hardknott/meta/classes/staging.bbclass', lineno: 582, function: extend_recipe_sysroot
     0578:                    if "/bin/" in l or "/sbin/" in l:
     0579:                        # defer /*bin/* files until last in case they need libs
     0580:                        binfiles[l] = (targetdir, dest)
     0581:                    else:
 *** 0582:                        staging_copyfile(l, targetdir, dest, postinsts, seendirs)
     0583:
     0584:    # Handle deferred binfiles
     0585:    for l in binfiles:
     0586:        (targetdir, dest) = binfiles[l]
File: '/home/yocto/poky-hardknott/meta/classes/staging.bbclass', lineno: 157, function: staging_copyfile
     0153:        os.symlink(linkto, dest)
     0154:        #bb.warn(c)
     0155:    else:
     0156:        try:
 *** 0157:            os.link(c, dest)
     0158:        except OSError as err:
     0159:            if err.errno == errno.EXDEV:
     0160:                bb.utils.copyfile(c, dest)
     0161:            else:
Exception: NotADirectoryError: [Errno 20] Not a directory: '/home/yocto/rpi64/build/tmp/sysroots-components/x86_64/xz-native/usr/lib/pkgconfig/liblzma.pc' -> '/home/yocto/rpi64/build/tmp/work/x86_64-linux/unifdef-native/2.12-r0/recipe-sysroot-native/usr/lib/pkgconfig/liblzma.pc'

DEBUG: Python function extend_recipe_sysroot finished

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DEBUG: Executing python function do_prepare_recipe_sysroot
DEBUG: Executing python function extend_recipe_sysroot
NOTE: Direct dependencies are ['virtual:native:/home/yocto/poky-hardknott-25.0.0/meta/recipes-devtools/automake/automake_1.16.3.bb:do_populate_sysroot', '/home/yocto/poky-hardknott-25.0.0/meta/recipes-extended/texinfo-dummy-native/texinfo-dummy-native.bb:do_populate_sysroot', '/home/yocto/poky-hardknott-25.0.0/meta/recipes-devtools/libtool/libtool-native_2.4.6.bb:do_populate_sysroot', 'virtual:native:/home/yocto/poky-hardknott-25.0.0/meta/recipes-devtools/autoconf/autoconf_2.71.bb:do_populate_sysroot', 'virtual:native:/home/yocto/poky-hardknott-25.0.0/meta/recipes-support/gmp/gmp_6.2.1.bb:do_populate_sysroot', 'virtual:native:/home/yocto/poky-hardknott-25.0.0/meta/recipes-support/mpfr/mpfr_4.1.0.bb:do_populate_sysroot']
ERROR: Error executing a python function in exec_python_func() autogenerated:

The stack trace of python calls that resulted in this exception/failure was:
File: 'exec_python_func() autogenerated', lineno: 2, function: <module>
     0001:
 *** 0002:extend_recipe_sysroot(d)
     0003:
File: '/home/yocto/poky-hardknott-25.0.0/meta/classes/staging.bbclass', lineno: 582, function: extend_recipe_sysroot
     0578:                    if "/bin/" in l or "/sbin/" in l:
     0579:                        # defer /*bin/* files until last in case they need libs
     0580:                        binfiles[l] = (targetdir, dest)
     0581:                    else:
 *** 0582:                        staging_copyfile(l, targetdir, dest, postinsts, seendirs)
     0583:
     0584:    # Handle deferred binfiles
     0585:    for l in binfiles:
     0586:        (targetdir, dest) = binfiles[l]
File: '/home/yocto/poky-hardknott-25.0.0/meta/classes/staging.bbclass', lineno: 157, function: staging_copyfile
     0153:        os.symlink(linkto, dest)
     0154:        #bb.warn(c)
     0155:    else:
     0156:        try:
 *** 0157:            os.link(c, dest)
     0158:        except OSError as err:
     0159:            if err.errno == errno.EXDEV:
     0160:                bb.utils.copyfile(c, dest)
     0161:            else:
Exception: NotADirectoryError: [Errno 20] Not a directory: '/home/yocto/rpi64/build/tmp/sysroots-components/x86_64/gmp-native/usr/lib/pkgconfig/gmpxx.pc' -> '/home/yocto/rpi64/build/tmp/work/x86_64-linux/libmpc-native/1.2.1-r0/recipe-sysroot-native/usr/lib/pkgconfig/gmpxx.pc'

DEBUG: Python function extend_recipe_sysroot finished
DEBUG: Python function do_prepare_recipe_sysroot finished