Installing graph-tool with local BOOST - c++

In order to install graph-tool, I must install dependencies with autoconf.
Some of these dependencies use boost, and I link my local boost install to these dependencies with:
export BOOST_ROOT=/my/path/boost
./configure
And everything proceeds smoothly. Then, when I shift to graph tool, I get a prompt to add BOOST_ROOT for an "unstaged boost". I don't know what that means, so I try:
export BOOST_ROOT=/my/path/boost
./configure
And this fails. I then inspect graph-tool's configure script, and it seems like, during the test for boost, it checks the following path:
if test -n "$BOOST_ROOT" ; then
for libsubdir in $libsubdirs ; do
if ls "$BOOST_ROOT/stage/$libsubdir/libboost_"* >/dev/null 2>&1 ; then break; fi
done
And I review both my boost install and my boost source code checkout, and I see no paths from the boost root directory with "stage" in them.
This seems strange, given that the dependencies were able to include the local boost install using the autoconfigurer. Are there some simple edits I need to make?

Related

vcpkg how to edit package file when compilation fails when installing package?

I'm installing dependencies for some project which downloads dependencies with vcpkg (the project is Hyperledger Iroha, but it does not matter). Unfortunately when compiling dependencies with my compiler (g++ 12.1.0) one of packages (abseil) is not compiling.
The reason why it is not compiling is easy to fix in code - just one line to change.
The line is pointed by cmake:
CMake Error at scripts/cmake/vcpkg_execute_build_process.cmake:146 (message):
Command failed: /usr/bin/cmake --build . --config Debug --target install -- -v -j13
Working Directory: /home/agh/Pulpit/blockchain/internship2022/iroha/vcpkg-build/buildtrees/abseil/x64-linux-dbg
See logs for more information:
/home/agh/Pulpit/blockchain/internship2022/iroha/vcpkg-build/buildtrees/abseil/install-x64-linux-dbg-out.log
and the error is:
/home/agh/Pulpit/blockchain/internship2022/iroha/vcpkg-build/buildtrees/abseil/src/ca9688e9f6-e4cda1d679.clean/absl/debugging/failure_signal_handler.cc:139:32: error: no matching function for call to ‘max(long int, int)’
139 | size_t stack_size = (std::max(SIGSTKSZ, 65536) + page_mask) & ~page_mask;
| ~~~~~~~~^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/12.1.0/algorithm:60,
The reason is easy to fix - I just need to change one line to fix this.
Unfortunately when I'm changing the line of code and then after rerunning:
vcpkg install abseil
my changes are being removed before compilation. I found option which should help:
--editable, but it is happening again.
I would like to ask what is more professional (but still fast) way to change files, which are being build with vcpkg and containing errors?
The one solution which I found is that I can edit package:
-- Using cached /home/agh/Pulpit/blockchain/internship2022/iroha/vcpkg-build/downloads/abseil-abseil-cpp-997aaf3a28308eba1b9156aa35ab7bca9688e9f6.tar.gz
when I edit the package I see error:
File path: [ /home/agh/Pulpit/blockchain/internship2022/iroha/vcpkg-build/downloads/abseil-abseil-cpp-997aaf3a28308eba1b9156aa35ab7bca9688e9f6.tar.gz ]
Expected hash: [ bdd80a2278eef121e8837791fdebca06e87bfff4adc438c123e0ce11efc42a8bd461edcbbe18c0eee05be2cd6100f9acf8eab3db58ac73322b5852e6ffe7c85b ]
Actual hash: [ cf8bb1676d2fcba8bdd4bc30e2060bc5552a348d6e192561aec2763460120b10dcb86e29efe60d972d4b241783563bc8067381c48209daee4ecc429786ef6bba ]
so I can edit file containing the hash: ports/abseil/portfile.cmake
Another solution is to run proper cmake of the abseil project with VERBOSE=1, then copy failing build commands after that edit files and rerun commands.
I know that my solutions are quite dirty so I would like to know if there is cleaner way to solve problem - how to edit source code of a library when it is not compiling when we use vcpkg package manager?
This is how I do it:
Run install with --editable
vcpkg install abseil --editable
Initialize git repo in source dir:
cd buildtrees/abseil/src/_random_string_/
git init .
git add .
git commit -m "init"
Patch the library
Verify the library builds by calling install with --editable again
vcpkg install abseil --editable
Create patch from changes (or commits)
git diff > fix_build.patch
Copy patch into port dir and adjust portfile.cmake
vcpkg_from_github(
REPO google/abseil
...
PATCHES fix_build.patch # <-- this is our patch
)
Copy the port directory into your project's overlay-ports dir. -OR- Update port version, submit it into your custom registry.
(optional, but appreciated) Create PR in upstream and vcpkg main repo.

libosgViewer.so.202: cannot open shared object file: No such file or directory [duplicate]

Program is part of the Xenomai test suite, cross-compiled from Linux PC into Linux+Xenomai ARM toolchain.
# echo $LD_LIBRARY_PATH
/lib
# ls /lib
ld-2.3.3.so libdl-2.3.3.so libpthread-0.10.so
ld-linux.so.2 libdl.so.2 libpthread.so.0
libc-2.3.3.so libgcc_s.so libpthread_rt.so
libc.so.6 libgcc_s.so.1 libstdc++.so.6
libcrypt-2.3.3.so libm-2.3.3.so libstdc++.so.6.0.9
libcrypt.so.1 libm.so.6
# ./clocktest
./clocktest: error while loading shared libraries: libpthread_rt.so.1: cannot open shared object file: No such file or directory
Is the .1 at the end part of the filename? What does that mean anyway?
Your library is a dynamic library.
You need to tell the operating system where it can locate it at runtime.
To do so,
we will need to do those easy steps:
Find where the library is placed if you don't know it.
sudo find / -name the_name_of_the_file.so
Check for the existence of the dynamic library path environment variable(LD_LIBRARY_PATH)
echo $LD_LIBRARY_PATH
If there is nothing to be displayed, add a default path value (or not if you wish to)
LD_LIBRARY_PATH=/usr/local/lib
We add the desired path, export it and try the application.
Note that the path should be the directory where the path.so.something is. So if path.so.something is in /my_library/path.so.something, it should be:
LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/my_library/
export LD_LIBRARY_PATH
./my_app
Reference to source
Here are a few solutions you can try:
ldconfig
As AbiusX pointed out: If you have just now installed the library, you may simply need to run ldconfig.
sudo ldconfig
ldconfig creates the necessary links and cache to the most recent
shared libraries found in the directories specified on the command
line, in the file /etc/ld.so.conf, and in the trusted directories
(/lib and /usr/lib).
Usually your package manager will take care of this when you install a new library, but not always, and it won't hurt to run ldconfig even if that is not your issue.
Dev package or wrong version
If that doesn't work, I would also check out Paul's suggestion and look for a "-dev" version of the library. Many libraries are split into dev and non-dev packages. You can use this command to look for it:
apt-cache search <libraryname>
This can also help if you simply have the wrong version of the library installed. Some libraries are published in different versions simultaneously, for example, Python.
Library location
If you are sure that the right package is installed, and ldconfig didn't find it, it may just be in a nonstandard directory. By default, ldconfig looks in /lib, /usr/lib, and directories listed in /etc/ld.so.conf and $LD_LIBRARY_PATH. If your library is somewhere else, you can either add the directory on its own line in /etc/ld.so.conf, append the library's path to $LD_LIBRARY_PATH, or move the library into /usr/lib. Then run ldconfig.
To find out where the library is, try this:
sudo find / -iname *libraryname*.so*
(Replace libraryname with the name of your library)
If you go the $LD_LIBRARY_PATH route, you'll want to put that into your ~/.bashrc file so it will run every time you log in:
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/path/to/library
Update
While what I write below is true as a general answer about shared libraries, I think the most frequent cause of these sorts of message is because you've installed a package, but not installed the -dev version of that package.
Well, it's not lying - there is no libpthread_rt.so.1 in that listing. You probably need to re-configure and re-build it so that it depends on the library you have, or install whatever provides libpthread_rt.so.1.
Generally, the numbers after the .so are version numbers, and you'll often find that they are symlinks to each other, so if you have version 1.1 of libfoo.so, you'll have a real file libfoo.so.1.0, and symlinks foo.so and foo.so.1 pointing to the libfoo.so.1.0. And if you install version 1.1 without removing the other one, you'll have a libfoo.so.1.1, and libfoo.so.1 and libfoo.so will now point to the new one, but any code that requires that exact version can use the libfoo.so.1.0 file. Code that just relies on the version 1 API, but doesn't care if it's 1.0 or 1.1 will specify libfoo.so.1. As orip pointed out in the comments, this is explained well at here.
In your case, you might get away with symlinking libpthread_rt.so.1 to libpthread_rt.so. No guarantees that it won't break your code and eat your TV dinners, though.
You need to ensure that you specify the library path during
linking when you compile your .c file:
gcc -I/usr/local/include xxx.c -o xxx -L/usr/local/lib -Wl,-R/usr/local/lib
The -Wl,-R part tells the resulting binary to also look for the library
in /usr/local/lib at runtime before trying to use the one in /usr/lib/.
Try adding LD_LIBRARY_PATH, which indicates search paths, to your ~/.bashrc file
LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/path_to_your_library
It works!
The linux.org reference page explains the mechanics, but doesn't explain any of the motivation behind it :-(
For that, see Sun Linker and Libraries Guide
In addition, note that "external versioning" is largely obsolete on Linux, because symbol versioning (a GNU extension) allows you to have multiple incompatible versions of the same function to be present in a single library. This extension allowed glibc to have the same external version: libc.so.6 for the last 10 years.
cd /home/<user_name>/
sudo vi .bash_profile
add these lines at the end
LD_LIBRARY_PATH=/usr/local/lib:<any other paths you want>
export LD_LIBRARY_PATH
Another possible solution depending on your situation.
If you know that libpthread_rt.so.1 is the same as libpthread_rt.so then you can create a symlink by:
ln -s /lib/libpthread_rt.so /lib/libpthread_rt.so.1
Then ls -l /lib should now show the symlink and what it points to.
I had a similar error and it didn't fix with giving LD_LIBRARY_PATH in ~/.bashrc .
What solved my issue is by adding .conf file and loading it.
Go to terminal an be in su.
gedit /etc/ld.so.conf.d/myapp.conf
Add your library path in this file and save.(eg: /usr/local/lib).
You must run the following command to activate path:
ldconfig
Verify Your New Library Path:
ldconfig -v | less
If this shows your library files, then you are good to go.
running:
sudo ldconfig
was enough to fix my issue.
I had this error when running my application with Eclipse CDT on Linux x86.
To fix this:
In Eclipse:
Run as -> Run configurations -> Environment
Set the path
LD_LIBRARY_PATH=/my_lib_directory_path
Wanted to add, if your libraries are in a non standard path, run ldconfig followed by the path.
For instance I had to run:
sudo ldconfig /opt/intel/oneapi/mkl/2021.2.0/lib/intel64
to make R compile against Intel MKL
All I had to do was run:
sudo apt-get install libfontconfig1
I was in the folder located at /usr/lib/x86_64-linux-gnu and it worked perfectly.
Try to install lib32z1:
sudo apt-get install lib32z1
If you are running your application on Microsoft Windows, the path to dynamic libraries (.dll) need to be defined in the PATH environment variable.
If you are running your application on UNIX, the path to your dynamic libraries (.so) need to be defined in the LD_LIBRARY_PATH environment variable.
The error occurs as the system cannot refer to the library file mentioned. Take the following steps:
Running locate libpthread_rt.so.1 will list the path of all the files with that name. Let's suppose a path is /home/user/loc.
Copy the path and run cd home/USERNAME. Replace USERNAME with the name of the current active user with which you want to run the file.
Run vi .bash_profile and at the end of the LD_LIBRARY_PATH parameter, just before ., add the line /lib://home/usr/loc:.. Save the file.
Close terminal and restart the application. It should run.
I got this error and I think its the same reason of yours
error while loading shared libraries: libnw.so: cannot open shared
object file: No such file or directory
Try this. Fix permissions on files:
cd /opt/Popcorn (or wherever it is)
chmod -R 555 * (755 if not ok)
I use Ubuntu 18.04
Installing the corresponding -dev package worked for me,
sudo apt install libgconf2-dev
Before installing the above package, I was getting the below error:
turtl: error while loading shared libraries: libgconf-2.so.4: cannot open shared object file: No such file or directory
I got this error and I think its the same reason of yours
error while loading shared libraries: libnw.so: cannot open shared object
file: No such file or directory
Try this. Fix permissions on files:
sudo su
cd /opt/Popcorn (or wherever it is)
chmod -R 555 * (755 if not ok)
chown -R root:root *
A similar problem can be found here.
I've tried the mentioned solution and it actually works.
The solutions in the previous questions may work. But the following is an easy way to fix it.
It works by reinstalling the package libwbclient
in fedora:
dnf reinstall libwbclient
You can read about libraries here:
https://domiyanyue.medium.com/c-development-tutorial-4-static-and-dynamic-libraries-7b537656163e

Package was not found in the pkg-config search path

I am trying to install this package on ubuntu 18.04. The installation instructions say that the installation command should look like the following:
- autoreconf -i -f
- ./configure --with-libmaus2=${LIBMAUSPREFIX} \
--prefix=${HOME}/biobambam2
- make install
The first line seems to work without any errors. When I try to run the second line like so:
./configure --with-libmaus2=/SOFT/libmaus2-2.0.794-release-20210706224245/ --prefix=/SOFT/biobambam2-2.0.182-release-20210412001032/
I get the following error:
configure: error: Package requirements (libmaus2 >= 2.0.774) were not met:
Package libmaus2 was not found in the pkg-config search path.
Perhaps you should add the directory containing `libmaus2.pc'
to the PKG_CONFIG_PATH environment variable
Package 'libmaus2', required by 'world', not found
Consider adjusting the PKG_CONFIG_PATH environment variable if you
installed software in a non-standard prefix.
Alternatively, you may set the environment variables libmaus2_CFLAGS
and libmaus2_LIBS to avoid the need to call pkg-config.
See the pkg-config man page for more details.
I understand that ./configure does not see the library directory I provided, but I have no idea how to fix it.
you need to install correctly libmaus2 and set correctly PKG_CONFIG_PATH :
configure and compile libmaus2 this way : ./configure --prefix=/SOFT/libmaus2 && make -j8 install
export PKG_CONFIG_PATH=/SOFT/libmaus2/lib/pkgconfig
./configure --prefix=/SOFT/biobambam2 && make -j8 install
In general, install proper developer version of the library would work.
"Configure" searches the required library with something like:
pkg-config --modversion libmaus2
Typically, Ubuntu distributes two versions: one is the normal lib. The other is a developer version with pc file and header files etc for pkg-config, and with added "-dev" to the pkg name. You can check available library as
apt-cache search libmaus
that returns (on my system Ubuntu 22)
libmaus2-2
libmaus2-dev
If install libmaus2-dev, the pc file named libmaus2.pc would get installed to, for example, /usr/lib/x86_64-linux-gnu/pkgconfig/libmaus2.pc
Install libmaus2 would not get that.
If you have to build libmaus yourself and install to a path not in pkg-config search paths, do something like
export PKG_CONFIG_PATH=/special/path/to/pkgconfig:${PKG_CONFIG_PATH}
NOTE: Use the following to check pkg-config search paths:
pkg-config --variable pc_path pkg-config

How to overcome "'aclocal-1.15' is missing on your system" warning?

Im trying to run a c++ program on github. (available at the following link https://github.com/mortehu/text-classifier)
I have a mac, and am trying to run it in the terminal. I think I have downloaded autoconf and automake but am not sure. To run the program I am going to the correct folder in terminal then running
./configure && make
But I get the error:
WARNING: 'aclocal-1.15' is missing on your system.
You should only need it if you modified 'acinclude.m4' or
'configure.ac' or m4 files included by 'configure.ac'.
The 'aclocal' program is part of the GNU Automake package:
http://www.gnu.org/software/automake
It also requires GNU Autoconf, GNU m4 and Perl in order to run:
http://www.gnu.org/software/autoconf
http://www.gnu.org/software/m4/
http://www.perl.org/ make: *** [aclocal.m4] Error 127
I have xcode and g++ and all the things required to run c programs, but as is probably obvious, I have no idea what Im doing.
What is the easiest, simplest way to run the program in the above link? I realise it comes with a readme and example usage but I can not get that to work.
Before running ./configure try running autoreconf -f -i. The autoreconf program automatically runs autoheader, aclocal, automake, autopoint and libtoolize as required.
Edit to add: This is usually caused by checking out code from Git instead of extracting it from a .zip or .tar.gz archive. In order to trigger rebuilds when files change, Git does not preserve files' timestamps, so the configure script might appear to be out of date. As others have mentioned, there are ways to get around this if you don't have a sufficiently recent version of autoreconf.
Another edit: This error can also be caused by copying the source folder extracted from an archive with scp to another machine. The timestamps can be updated, suggesting that a rebuild is necessary. To avoid this, copy the archive and extract it in place.
Often, you don't need any auto* tools and the simplest solution is to simply run touch aclocal.m4 configure in the relevant folder (and also run touch on Makefile.am and Makefile.in if they exist). This will update the timestamp of aclocal.m4 and remind the system that aclocal.m4 is up-to-date and doesn't need to be rebuilt. After this, it's probably best to empty your build directory and rerun configure from scratch after doing this. I run into this problem regularly. For me, the root cause is that I copy a library (e.g. mpfr code for gcc) from another folder and the timestamps change.
Of course, this trick isn't valid if you really do need to regenerate those files, perhaps because you have manually changed them. But hopefully the developers of the package distribute up-to-date files.
And of course, if you do want to install automake and friends, then use the appropriate package-manager for your distribution.
Install aclocal which comes with automake:
brew install automake # for Mac
apt-get install automake # for Ubuntu
Try again:
./configure && make
You can install the version you need easily:
First get source:
$ wget https://ftp.gnu.org/gnu/automake/automake-1.15.tar.gz
Unpack it:
$ tar -xzvf automake-1.15.tar.gz
Build and install:
$ cd automake-1.15
$ ./configure --prefix=/opt/aclocal-1.15
$ make
$ sudo mkdir -p /opt
$ sudo make install
Use it:
$ export PATH=/opt/aclocal-1.15/bin:$PATH
$ aclocal --version
aclocal (GNU automake) 1.15
Now when aclocal is called, you get the right version.
A generic answer that may or not apply to this specific case:
As the error message hint at, aclocal-1.15 should only be required if you modified files that were used to generate aclocal.m4
If you don't modify any of those files (including configure.ac) then you should not need to have aclocal-1.15.
In my case, the problem was not that any of those files was modified but somehow the timestamp on configure.ac was 6 minutes later compared to aclocal.m4.
I haven't figured out why, but a clean clone of my git repo solved the issue for me. Maybe something linked to git and how it created files in the first place.
Rather than rerunning autoconf and friends, I would just try to get a clean clone and try again.
It's also possible that somebody committed a change to configure.ac but didn't regenerate the aclocal.m4, in which case you indeed have to rerun automake and friends.
The whole point of Autotools is to provide an arcane M4-macro-based language which ultimately compiles to a shell script called ./configure. You can ship this compiled shell script with the source code and that script should do everything to detect the environment and prepare the program for building. Autotools should only be required by someone who wants to tweak the tests and refresh that shell script.
It defeats the point of Autotools if GNU This and GNU That has to be installed on the system for it to work. Originally, it was invented to simplify the porting of programs to various Unix systems, which could not be counted on to have anything on them. Even the constructs used by the generated shell code in ./configure had to be very carefully selected to make sure they would work on every broken old shell just about everywhere.
The problem you're running into is due to some broken Makefile steps invented by people who simply don't understand what Autotools is for and the role of the final ./configure script.
As a workaround, you can go into the Makefile and make some changes to get this out of the way. As an example, I'm building the Git head of GNU Awk and running into this same problem. I applied this patch to Makefile.in, however, and I can sucessfully make gawk:
diff --git a/Makefile.in b/Makefile.in
index 5585046..b8b8588 100644
--- a/Makefile.in
+++ b/Makefile.in
## -312,12 +312,12 ## distcleancheck_listfiles = find . -type f -print
# Directory for gawk's data files. Automake supplies datadir.
pkgdatadir = $(datadir)/awk
-ACLOCAL = #ACLOCAL#
+ACLOCAL = true
AMTAR = #AMTAR#
AM_DEFAULT_VERBOSITY = #AM_DEFAULT_VERBOSITY#
-AUTOCONF = #AUTOCONF#
-AUTOHEADER = #AUTOHEADER#
-AUTOMAKE = #AUTOMAKE#
+AUTOCONF = true
+AUTOHEADER = true
+AUTOMAKE = true
AWK = #AWK#
CC = #CC#
CCDEPMODE = #CCDEPMODE#
Basically, I changed things so that the harmless true shell command is substituted for all the Auto-stuff programs.
The actual build steps for Gawk don't need the Auto-stuff! It's only involved in some rules that get invoked if parts of the Auto-stuff have changed and need to be re-processed. However, the Makefile is structured in such a way that it fails if the tools aren't present.
Before the above patch:
$ ./configure
[...]
$ make gawk
CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash /home/kaz/gawk/missing aclocal-1.15 -I m4
/home/kaz/gawk/missing: line 81: aclocal-1.15: command not found
WARNING: 'aclocal-1.15' is missing on your system.
You should only need it if you modified 'acinclude.m4' or
'configure.ac' or m4 files included by 'configure.ac'.
The 'aclocal' program is part of the GNU Automake package:
<http://www.gnu.org/software/automake>
It also requires GNU Autoconf, GNU m4 and Perl in order to run:
<http://www.gnu.org/software/autoconf>
<http://www.gnu.org/software/m4/>
<http://www.perl.org/>
make: *** [aclocal.m4] Error 127
After the patch:
$ ./configure
[...]
$ make gawk
CDPATH="${ZSH_VERSION+.}:" && cd . && true -I m4
CDPATH="${ZSH_VERSION+.}:" && cd . && true
gcc -std=gnu99 -DDEFPATH='".:/usr/local/share/awk"' -DDEFLIBPATH="\"/usr/local/lib/gawk\"" -DSHLIBEXT="\"so"\" -DHAVE_CONFIG_H -DGAWK -DLOCALEDIR='"/usr/local/share/locale"' -I. -g -O2 -DNDEBUG -MT array.o -MD -MP -MF .deps/array.Tpo -c -o array.o array.c
[...]
gcc -std=gnu99 -g -O2 -DNDEBUG -Wl,-export-dynamic -o gawk array.o awkgram.o builtin.o cint_array.o command.o debug.o dfa.o eval.o ext.o field.o floatcomp.o gawkapi.o gawkmisc.o getopt.o getopt1.o int_array.o io.o main.o mpfr.o msg.o node.o profile.o random.o re.o regex.o replace.o str_array.o symbol.o version.o -ldl -lm
$ ./gawk --version
GNU Awk 4.1.60, API: 1.2
Copyright (C) 1989, 1991-2015 Free Software Foundation.
[...]
There we go. As you can see, the CDPATH= command lines there are where the Auto-stuff was being invoked, where you see the true commands. These report successful termination, and so it just falls through that junk to do the darned build, which is perfectly configured.
I did make gawk because there are some subdirectories that get built which fail; the trick has to be repeated for their respective Makefiles.
If you're running into this kind of thing with a pristine, official tarball of the program from its developers, then complain. It should just unpack, ./configure and make without you having to patch anything or install any Automake or Autoconf materials.
Ideally, a pull of their Git head should also behave that way.
I think the touch command is the right answer e.g. do something like
touch --date="`date`" aclocal.m4 Makefile.am configure Makefile.in
before [./configure && make].
Sidebar I: Otherwise, I agree with #kaz: adding dependencies for aclocal.m4 and/or configure and/or Makefile.am and/or Makefile.in makes assumptions about the target system that may be invalid. Specifically, those assumptions are
1) that all target systems have autotools,
2) that all target systems have the same version of autotools (e.g. automake.1.15 in this case).
3) that if either (1) or (2) are not true for any user, that the user is extracting the package from a maintainer-produced TAR or ZIP format that maintains timestamps of the relevant files, in which case all autotool/configure/Makefile.am/Makefile.in dependencies in the configure-generated Makefile will be satisfied before the make command is issued.
The second assumption fails on many Mac systems because automake.1.14 is the "latest" for OSX (at least that is what I see in MacPorts, and apparently the same is true for brew).
The third assumption fails spectacularly in a world with Github. This failure is an example of an "everyone thinks they are normative" mindset; specifically, the maintainers, who are the only class of users that should need to edit Makefile.am, have now put everyone into that class.
Perhaps there is an option in autowhatever that keeps these dependencies from being added to Makefile.in and/or Makefile.
Sidebar II [Why #kaz is right]: of course it is obvious, to me and other cognoscenti, to simply try a sequence of [touch] commands to fool the configure-created Makefile from re-running configure and the autotools. But that is not the point of configure; the point of configure is to ensure as many users on as many different systems as as possible can simply do [./configure && make] and move on; most users are not interested in "shaving the yak" e.g. debugging faulty assumptions of the autotools developers.
Sidebar III: it could be argued that ./configure, now that autotools adds these dependencies, is the wrong build tool to use with Github-distributed packages.
Sidebar IV: perhaps configure-based Github repos should put the necessary touch command into their readme, e.g. https://github.com/drbitboy/Tycho2_SQLite_RTree.
2018, yet another solution ...
https://github.com/apereo/mod_auth_cas/issues/97
in some cases simply running
$ autoreconf -f -i
and nothing else .... solves the problem.
You do that in the directory /pcre2-10.30 .
What a nightmare.
(This usually did not solve the problem in 2017, but now usually does seem to solve the problem - they fixed something. Also, it seems your Dockerfile should now usually start with "FROM ibmcom/swift-ubuntu" ; previously you had to give a certain version/dev-build to make it work.)
The problem is not automake package, is the repository
sudo apt-get install automake
Installs version aclocal-1.4, that's why you can't find 1.5 (In Ubuntu 14,15)
Use this script to install latest
https://github.com/gp187/nginx-builder/blob/master/fix/aclocal.sh
2017 - High Sierra
It is really hard to get autoconf 1.15 working on Mac. We hired an expert to get it working. Everything worked beautifully.
Later I happened to upgrade a Mac to High Sierra.
The Docker pipeline stopped working!
Even though autoconf 1.15 is working fine on the Mac.
How to fix,
Short answer, I simply trashed the local repo, and checked out the repo again.
This suggestion is noted in the mix on this QA page and elsewhere.
It then worked fine!
It likely has something to do with the aclocal.m4 and similar files. (But who knows really). I endlessly massaged those files ... but nothing.
For some unknown reason if you just scratch your repo and get the repo again: everything works!
I tried for hours every combo of touching/deleting etc etc the files in question, but no. Just check out the repo from scratch!

Separate build directory for autotools projects not designed to use one

... Sorry, this has to be a duplicate, but I'm just running across answers for people who are making their own projects and can change the build system setup.
Can I always compile a program in a separate build directory, or must it be supported by the program's build system?
For vim, you compile using: "./configure && make && sudo make install". If I'm in vim.hg.build and run "../vim.hg/configure .....", I get :
../vim.hg/configure: line 6: cd: src: No such file or directory
For git, you compile using: "make configure && ./configure && make && sudo make install". I was hoping being in git.git.build and running "make --directory=../git.git configure" would work, but that leaves the configure file in ../git.git. Well, maybe just configure left behind isn't so bad, so I then tried "../git.git/configure" which successfully created config.status, config.log, and config.mak.autogen in the build directory. But running make gives:
make: *** No targets specified and no makefile found. Stop.
... Yes, the only Makefile is in git.git itself.
I even tried symlinking the entire directory by running:
for fl in `ls -a ../vim.hg`; do
echo "$fl"
ln -s ../vim.hg/$fl $fl
done
... But, vim's configure and make only modify existing files and subdirectories, so even though I can build this way, the build directory is left with nothing more than symlinks -- no actual separation.
Go cmake!
Out-of-tree building is a feature of Autotools that requires both Autoconf and Automake.
Vim and Git both only use Autoconf and not Automake, so they can't take advantage of that feature.
As a more general answer to your question: simple Autotools projects should work with out-of-tree builds automatically. When using certain advanced features, a bit of care must be taken to ensure that out-of-tree builds continue to work. Sometimes projects don't do this.
(Running make distcheck will test out-of-tree building, so it's a good idea to run it at least once before making a release.)