bugGNU Octave - Bugs: bug #55273, mkfifo returns "Function not...


bug #55273: mkfifo returns "Function not implemented" error

Submitter:  Carlo de Falco <cdf>
Submitted:  Sun 23 Dec 2018 04:02:11 PM UTC
Category:  Configuration and Build System Severity:  4 - Important
Priority:  5 - Normal Item Group:  Regression
Status:  Fixed Assigned to:  None
Originator Name:  Open/Closed:  * Closed
Release:  * 5.0.0 Operating System:  * Mac OS
Fixed Release:  None Planned Release:  None
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Sun 30 Dec 2018 11:52:52 AM UTC, comment #23: 

Marking as fixed and closing report.

Rik <rik5>
Group administrator
Sun 30 Dec 2018 01:56:22 AM UTC, comment #22: 


Thanks for the gnulib update and the merge to default. Gnuplot now works for me on macOS.

Ben Abbott <bpabbott>
Group Member
Sat 29 Dec 2018 07:05:34 AM UTC, comment #21: 

I'm in Singapore this week. I get a time-out when pulling the gnulib repo.

pulling subrepo gnulib from http://hg.octave.org/gnulib
abort: HTTP Error 504: Gateway Time-out

Ben Abbott <bpabbott>
Group Member
Fri 28 Dec 2018 10:07:17 PM UTC, comment #20: 

I have updated the gnulib subrepo to fix this bug on the stable branch. Please comment if you can update and verify that this is fixed now.


Mike Miller <mtmiller>
Group Member
Fri 28 Dec 2018 07:27:50 PM UTC, comment #19: 

Yeah, I reported the bug upstream to Gnulib and they put in a fix: http://lists.gnu.org/archive/html/bug-gnulib/2018-12/msg00147.html

Andrew Janke <apjanke>
Fri 28 Dec 2018 06:30:39 PM UTC, comment #18: 

I built using a local copy of gnulib's master branch and HAVE_MKFIFO is now again defined in config.h.

I think we should do a gnulib update on the stable branch to fix this bug, but I'm having troubles with the gnulib mirror, so it may take a little doing.

If you want to test locally on macOS, you can use git to clone the gnulib repository anywhere on your system, and run Octave's bootstrap with the --gnulib-srcdir option. On my system, this looks like

$ cd ~/src
$ git clone https://git.savannah.gnu.org/git/gnulib.git
$ cd ~/src/octave/stable
$ ./bootstrap --gnulib-srcdir=../../gnulib

Mike Miller <mtmiller>
Group Member
Fri 28 Dec 2018 04:57:54 PM UTC, comment #17: 

The quickest fix for this will be to add 'mkfifo' to the list of functions tested by AC_CHECK_FUNCS here: https://hg.savannah.gnu.org/hgweb/octave/file/44670b45ff3b/configure.ac#l1187

Maybe with a comment to point out that this will be fixed by a gnulib update at some point.

In the meantime I see that Andrew has reported this to gnulib and this may be fixed there quickly, in which case Octave can update its gnulib pointer. https://lists.gnu.org/archive/html/bug-gnulib/2018-12/msg00147.html

Mike Miller <mtmiller>
Group Member
Fri 28 Dec 2018 07:14:19 AM UTC, comment #16: 


macOS spell check ("contour" -> "configure").


I did have file #45382 applied. While I got a seg-fault, Octave did not hang. However, at your suggesting, I decided a clean build was in order. With a clean build I now have a functioning gnuplot and no seg-fault!

2) Apply file #45382 from bug #50025.

Ben Abbott <bpabbott>
Group Member
Fri 28 Dec 2018 12:49:22 AM UTC, comment #15: 


I'd assumed that CPPFLAGS=-DHAVE_MKFIFO told contour that I already have mkfifo, and that the one from gnulib isn't needed.

Thanks for clearing that up.

Ben Abbott <bpabbott>
Group Member
Thu 27 Dec 2018 09:06:42 PM UTC, comment #14: 

@Ben: maybe your segfault is #50025 rearing its head? I'm also getting segfaults during the doco-building stage:

fatal: caught signal Segmentation fault: 11 -- stopping myself...
fatal: caught signal Segmentation fault: 11 -- stopping myself...
fatal: caught signal Segmentation fault: 11 -- stopping myself...
/bin/sh: line 1: 55441 Segmentation fault: 11  /bin/sh run-octave --norc --silent --no-history --path /Users/janke/local/repos/octave-BUILD/build/../../octave/doc/interpreter/ --eval "geometryimages ('doc/interpreter/', 'delaunay', 'txt');"
make[2]: *** [doc/interpreter/delaunay.txt] Error 139
make[2]: *** Waiting for unfinished jobs....
fatal: caught signal Segmentation fault: 11 -- stopping myself...
fatal: caught signal Segmentation fault: 11 -- stopping myself...
/bin/sh: line 1: 55438 Segmentation fault: 11  /bin/sh run-octave --norc --silent --no-history --path /Users/janke/local/repos/octave-BUILD/build/../../octave/doc/interpreter/ --eval "geometryimages ('doc/interpreter/', 'convhull', 'txt');"
make[2]: *** [doc/interpreter/convhull.txt] Error 139

But when I apply patch https://savannah.gnu.org/support/download.php?file_id=45382 from #50025, they go away.

Andrew Janke <apjanke>
Thu 27 Dec 2018 07:36:04 PM UTC, comment #13: 


Adding CPPFLAGS=-DHAVE_MKFIFO fixes it for me too.

And I can confirm that on macOS, for me, the gnulib trailing-slash-bug fix is being used. I put debugging statements into the libgnu mkfifo.c:

mkfifo (char const *name _GL_UNUSED, mode_t mode _GL_UNUSED)
  printf("gnulib mkfifo() called\n");
rpl_mkfifo (char const *name, mode_t mode)
  printf("gnulib rpl_mkfifo() called\n");

and the rpl_mkfifo() is showing up in the `make` output:

  GEN      doc/interpreter/splinefit4.eps
gnulib rpl_mkfifo() called
gnulib rpl_mkfifo() called

I was also able to get it to build by sticking an AC_DEFINE in configure.ac before the gl_INIT call:

dnl Fix for mkfifo macro bug
AC_DEFINE([HAVE_MKFIFO], [1], [Whether this system has mkfifo.])


But I don't know how that will behave on systems that don't have mkfifo.

Andrew Janke <apjanke>
Thu 27 Dec 2018 06:42:17 PM UTC, comment #12: 

You are using mkfifo from gnulib. If you want to avoid using it (which has never been the case in any of your previous builds either), you would have to do some deeper autoconf surgery to disable the check that sets REPLACE_MKFIFO.

Mike Miller <mtmiller>
Group Member
Thu 27 Dec 2018 10:13:22 AM UTC, comment #11: 

Opps, just noticed a new seg-fault when exiting.

>> quit
fatal: caught signal Segmentation fault: 11 -- stopping myself...
Segmentation fault: 11

Is there a way to do the reverse and force the use of mkfifo from gnulib?

Ben Abbott <bpabbott>
Group Member
Thu 27 Dec 2018 09:42:10 AM UTC, comment #10: 


Yes. Adding CPPFLAGS=-DHAVE_MKFIFO fixes the problem.


Ben Abbott <bpabbott>
Group Member
Thu 27 Dec 2018 07:02:13 AM UTC, comment #9: 

Thank you for the details and confirmation that on macOS, Octave should be using the gnulib mkfifo shim function.

I have just compared my config.h from 4.4.1 against config.h from 5.0.1, and HAVE_MKFIFO is no longer declared in config.h. I think this is most likely the piece that is missing. Since my system has a fully functional mkfifo, REPLACE_MKFIFO is false, and libgnu/mkfifo.c is not compiled at all.

I think this bug is due to this change: https://git.savannah.gnu.org/cgit/gnulib.git/commit/?id=b24b6bbf9cf4cdc0d5d011b20dd74916507a6153

With AC_CHECK_FUNC no longer called, HAVE_MKFIFO is no longer declared as a preprocessor macro to be listed in config.h. This breaks the gnulib mkfifo.c source file. I think this is probably worth reporting to the gnulib project for a fix. In the meantime, Octave can work around this by adding to configure.ac:


Can someone check whether CPPFLAGS=-DHAVE_MKFIFO fixes this bug?

Mike Miller <mtmiller>
Group Member
Thu 27 Dec 2018 04:33:21 AM UTC, comment #8: 

I think the REPLACE_MKFIFO might be a red herring: it looks to me like the way it works is that when activated, instead of defining a `mkfifo` function, it defines `rpl_mkfifo` function in mkfifo.c, which works in conjunction with a `mkfifo` macro in gnulib's `sys_stat.h` header, so that you end up calling that instead of the system mkfifo.

The error we're seeing here looks more symptomatic of HAVE_MKFIFO being set to 0, and thus a mkfifo function defined in gnulib's mkfifo.c, and that's shadowing the system mkfifo.

Now, I don't see a HAVE_MKFIFO defined in the config.h present after doing a configure. (I see it in config.status, but not config.h. And it's not in the lower part of config.status that looks like it generates config.h) Maybe that's the issue? I don't see how the HAVE_MKFIFO C macro would make its way down to libgnu's mkfifo.c otherwise.

config.in.h also does not have HAVE_MKFIFO there for substitution. So maybe the problem boils down to the autoheader step of configure not emitting some of those names?

Though weirdly, the built mkfifo.o in libgnu does not had a mkfifo symbol; it has a rpl_mkfifo.

$ nm libgnu/.libs/mkfifo.o
                 U ___error
0000000000000000 T _rpl_mkfifo

So I don't know where the error-raising mkfifo implementation is coming from then. Confusing: after a build, none of the resulting .o files contains a mkfifo function:

$ for f in $(find . -name '*.o'); do nm $f | grep mkfifo && echo "file: $f"; done
0000000000002710 T __Z7FmkfifoRK17octave_value_listi
                 U __ZN6octave3sys6mkfifoERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEEtRS7_
file: ./libinterp/corefcn/.libs/libcorefcn_la-syscalls.o
                 U __Z7FmkfifoRK17octave_value_listi
file: ./libinterp/.libs/liboctinterp_la-builtins.o
0000000000000000 T _rpl_mkfifo
file: ./libgnu/.libs/mkfifo.o
0000000000000010 T _octave_mkfifo_wrapper
                 U _rpl_mkfifo
file: ./liboctave/wrappers/.libs/libwrappers_la-stat-wrappers.o
0000000000001a20 T __ZN6octave3sys6mkfifoERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEEt
0000000000001ac0 T __ZN6octave3sys6mkfifoERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEEtRS7_
                 U _octave_mkfifo_wrapper
file: ./liboctave/system/.libs/libsystem_la-file-ops.o

Andrew Janke <apjanke>
Thu 27 Dec 2018 02:43:54 AM UTC, comment #7: 

Maybe just naive, but I tried copying mkfifo.c from 4.2.1 to the default branch, and ran configure/make.

The "Function not implemented" is still present when using the gnuplot toolkit.

Ben Abbott <bpabbott>
Group Member
Thu 27 Dec 2018 02:27:19 AM UTC, comment #6: 


With 4.2.1, in config.status

$ fgrep -in HAVE_MKFIFO= config.*
$ fgrep -in REPLACE_MKFIFO= config.*
$ ls libgnu/mkfifo.c

With the current default branch

$ fgrep -in HAVE_MKFIFO= config.*
$ fgrep -in REPLACE_MKFIFO= config.*
$ ls libgnu/mkfifo.c

Ben Abbott <bpabbott>
Group Member
Wed 26 Dec 2018 11:15:28 PM UTC, comment #5: 

On my system (macOS 10.13.6, dependencies installed via Homebrew, building from a recent-ish checkout of the octave Hg repo), it looks like REPLACE_MKFIFO is getting set.

In libgnu/Makefile, after doing the configure, there is this at line 2005:


As to how the values get passed, I think the gnulib configure process is setting it rather than it being passed in from Octave's configure process. (Or maybe the check is still being done, but Octave's configuration results then override it?) In my `configure` output, I see this:

checking for mkfifo... yes
checking whether mkfifo rejects trailing slashes... no
configure:57847: checking for mkfifo
configure:57872: gcc -o conftest -g -O2 -D_THREAD_SAFE -pthread   -I/usr/local/opt/readline/include -I/usr/local/opt/gettext/include -I/usr/local/opt/qt/include -I/usr/local/opt/sundials27/include -I/usr/local/opt/qscintilla2/include  -L/usr/local/opt/readline/lib -L/usr/local/opt/gettext/lib -L/usr/local/opt/libffi/lib -F/usr/local/opt/qt/lib -L/usr/local/opt/sundials27/lib -L/usr/local/opt/qscintilla2/lib conftest.c  -lm  >&5
ld: warning: directory not found for option '-L/usr/local/opt/sundials27/lib'
configure:57872: $? = 0
configure:57881: result: yes
configure:57887: checking whether mkfifo rejects trailing slashes
configure:57935: gcc -o conftest -g -O2 -D_THREAD_SAFE -pthread   -I/usr/local/opt/readline/include -I/usr/local/opt/gettext/include -I/usr/local/opt/qt/include -I/usr/local/opt/sundials27/include -I/usr/local/opt/qscintilla2/include  -L/usr/local/opt/readline/lib -L/usr/local/opt/gettext/lib -L/usr/local/opt/libffi/lib -F/usr/local/opt/qt/lib -L/usr/local/opt/sundials27/lib -L/usr/local/opt/qscintilla2/lib conftest.c  -lm  >&5
ld: warning: directory not found for option '-L/usr/local/opt/sundials27/lib'
configure:57935: $? = 0
configure:57935: ./conftest
configure:57935: $? = 2
configure: program exited with status 2
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "GNU Octave"
| #define PACKAGE_TARNAME "octave"
| #define PACKAGE_VERSION "6.0.0"
| #define PACKAGE_STRING "GNU Octave 6.0.0"
|   return 0;
| }
configure:57946: result: no

It does that mkfifo check twice, so I assume the second one is the one in gnulib. (Maybe that's what the "configure:NNNN:" prefix means, too?)

Maybe REPLACE_MKFIFO is getting set because configure detects the "mkfifo trailing slash bug" on my system. In octave's configure, I see this:

    case "$gl_cv_func_mkfifo_works" in
      *yes) ;;

$as_echo "#define MKFIFO_TRAILING_SLASH_BUG 1" >>confdefs.h


which I think is from `m4/mkfifo.m4` here:

        AC_DEFINE([MKFIFO_TRAILING_SLASH_BUG], [1], [Define to 1 if mkfifo
          does not reject trailing slash])

I think that means that MKFIFO_TRAILING_SLASH_BUG enables REPLACE_MKFIFO.

And in my configure output, it looks like it got set:

config.h:#define MKFIFO_TRAILING_SLASH_BUG 1
config.log:| #define MKFIFO_TRAILING_SLASH_BUG 1
config.log:| #define MKFIFO_TRAILING_SLASH_BUG 1
config.log:#define MKFIFO_TRAILING_SLASH_BUG 1
config.status:D["MKFIFO_TRAILING_SLASH_BUG"]=" 1"

I wonder how it's getting set?  Since that configure result for "rejects trailing slashes" was "no", maybe that is the buggy state? I can't read auctoconf stuff to work out exactly what the logic in mkfifo.m4 is.

Andrew Janke <apjanke>
Wed 26 Dec 2018 10:49:40 PM UTC, comment #4: 

To be clear, I am still hoping for some more information from someone affected by this bug.

The values of both HAVE_MKFIFO and REPLACE_MKFIFO from config.log. Both for a previous version of Octave that worked (4.4.1? even earlier?) and the current stable branch 5.0.1 that doesn't work.

It would also be helpful to confirm whether mkfifo.lo exists in the libgnu build directory, both in a previous version of Octave where mkfifo worked and in the current broken release.

Mike Miller <mtmiller>
Group Member
Tue 25 Dec 2018 01:19:39 AM UTC, comment #3: 

A quick check of the changelog entries didn't help. The gnuplot backend worked for me in 2016 and 2017.

$ hg log | grep -B4 fifo

changeset:   20200:d9f35ceff9e1
user:        Rik <rik@octave.org>
date:        Sun May 17 10:04:08 2015 -0700
summary:     Change mkfifo to use an octal argument for MODE (bug #45054).
branch:      stable
parent:      20194:b0f7ee81d974
user:        Rik <rik@octave.org>
date:        Sun May 17 09:45:54 2015 -0700
summary:     doc: Document that mkfifo's mode argument is in decimal (bug #45054).

changeset:   10172:96ed9db3345c
user:        John W. Eaton <jwe@octave.org>
date:        Thu Jan 21 04:02:29 2010 -0500
summary:     provide wrappers for mkdir and mkfifo

changeset:   10063:4058ff089fa3
user:        John W. Eaton <jwe@octave.org>
date:        Tue Jan 05 03:56:17 2010 -0500
summary:     bootstrap.conf: include mkfifo in the module list

changeset:   10038:62eb444704ba
user:        John W. Eaton <jwe@octave.org>
date:        Mon Dec 28 10:42:05 2009 -0500
summary:     file-ops.cc: avoid problems if sys/stat.h #defines mkdir or mkfifo

changeset:   10028:52a248732bb6
user:        John W. Eaton <jwe@octave.org>
date:        Fri Dec 25 23:58:08 2009 -0500
summary:     use mkfifo module from gnulib

Ben Abbott <bpabbott>
Group Member
Mon 24 Dec 2018 01:15:39 AM UTC, comment #2: 

Until mid-late 2017, I favored running gnuplot via the current state of the default branch. I expect someone with bisect experience could automate tracking down the reversion. Unfortunately, there were a few months when macOS was broken. Hence, bisecting may be more hassle than help.

Since this is libbnu, is there a way to switch which libbnu is being used? Maybe try bisecting libgnu releases?

Ben Abbott <bpabbott>
Group Member
Sun 23 Dec 2018 09:02:21 PM UTC, comment #1: 

I would also check the value of REPLACE_MKFIFO, this determines whether libgnu/mkfifo.c is compiled in or not. If it is true, then you should check whether HAVE_MKFIFO is being passed in to that module correctly. I'm not sure I understand how some of the HAVE_foo macros get passed in to gnulib's source files, since they are not all in Octave's config.h.

If REPLACE_MKFIFO is true on your system, but the module is somehow being compiled without HAVE_MKFIFO, then that would explain where the ENOSYS error is coming from (libgnu/mkfifo.c line 32).

Mike Miller <mtmiller>
Group Member
Sun 23 Dec 2018 04:02:11 PM UTC, original submission:  

running mkfifo on macos returns an error

[err, msg] = mkfifo ("/tmp/pippo.fifo", 600);
err = -1
msg = Function not implemented

this is strange as mkfifo appears to be detected as present by configure, as shown by the following lines in config.log


a consequence of this is that the gnuplot graphics backend is not working

error: __gnuplot_get_var__: Can not make FIFO (Function not implemented)
error: __gnuplot_get_var__: Can not make FIFO (Function not implemented)
error: __gnuplot_get_var__: Can not make FIFO (Function not implemented)
make[2]: *** [doc/interpreter/triplot.eps] Error 1
make[2]: *** Waiting for unfinished jobs....
make[2]: *** [doc/interpreter/convhull.eps] Error 1
make[2]: *** [doc/interpreter/griddata.eps] Error 1
error: __gnuplot_get_var__: Can not make FIFO (Function not implemented)
make[2]: *** [doc/interpreter/voronoi.eps] Error 1
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2

Carlo de Falco <cdf>
Group Member


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    Follow 7 latest changes.

    Date Changed by Updated Field Previous Value => Replaced by
    2018-12-30 rik5 StatusReady For Test Fixed
        Open/ClosedOpen Closed
    2018-12-28 mtmiller StatusIn Progress Ready For Test
    2018-12-28 mtmiller Severity3 - Normal 4 - Important
        StatusNeed Info In Progress
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