build error with vg tools

Question

[rimo]

I am trying to use vg tools on my AWS Ubuntu server and it won't compile.

I followed the instructions listed here but when I get to the point where I need to build with . ./source_me.sh && make it gives me this error:

CMake Error at test/CMakeLists.txt:54 (ADD_CUSTOM_TARGET):
  ADD_CUSTOM_TARGET cannot create target "COMMAND" because another target
  with the same name already exists.  The existing target is a custom target
  created in source directory "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".
  See documentation for policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.


CMake Error at test/CMakeLists.txt:49 (ADD_EXECUTABLE):
  ADD_EXECUTABLE cannot create target "EXCLUDE_FROM_ALL" because another
  target with the same name already exists.  The existing target is an
  executable created in source directory
  "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".  See documentation for
  policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:54 (ADD_CUSTOM_TARGET):
  ADD_CUSTOM_TARGET cannot create target "COMMAND" because another target
  with the same name already exists.  The existing target is a custom target
  created in source directory "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".
  See documentation for policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.


CMake Error at test/CMakeLists.txt:49 (ADD_EXECUTABLE):
  ADD_EXECUTABLE cannot create target "EXCLUDE_FROM_ALL" because another
  target with the same name already exists.  The existing target is an
  executable created in source directory
  "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".  See documentation for
  policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:54 (ADD_CUSTOM_TARGET):
  ADD_CUSTOM_TARGET cannot create target "COMMAND" because another target
  with the same name already exists.  The existing target is a custom target
  created in source directory "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".
  See documentation for policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.


CMake Error at test/CMakeLists.txt:49 (ADD_EXECUTABLE):
  ADD_EXECUTABLE cannot create target "EXCLUDE_FROM_ALL" because another
  target with the same name already exists.  The existing target is an
  executable created in source directory
  "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".  See documentation for
  policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:54 (ADD_CUSTOM_TARGET):
  ADD_CUSTOM_TARGET cannot create target "COMMAND" because another target
  with the same name already exists.  The existing target is a custom target
  created in source directory "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/test".
  See documentation for policy CMP0002 for more details.


-- Configuring incomplete, errors occurred!
See also "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/build/CMakeFiles/CMakeOutput.log".
See also "/home/ubuntu/vg-v1.49.0/deps/sdsl-lite/build/CMakeFiles/CMakeError.log".
ERROR: CMake build failed.
make: *** [Makefile:548: lib/libsdsl.a] Error 1

This is a cut off of the entire message but it basically repeats itself multiple times; if someone needs to see the entire error please let me know. I don't understand what it means - if someone can explain it and a potential solution that would be great!

[Jouni Sirén]

Which CMake / compiler / Ubuntu / kernel versions are you using? Is this a fresh Ubuntu instance or something you have already been using for a while?

Usually a fresh Ubuntu virtual machine is the easiest environment for compiling vg. The more things you install, the more likely it becomes that you get conflicts with something needed by vg.

[rimo]

I've been using this Ubuntu instance for a couple of months now.

The version of Ubuntu is 22.04.1 LTS (GNU/Linux 5.19.0-1028-aws x86_64) with CMake v3.22.1.

I'll try setting up a fresh Ubuntu instance today and see if that helps!

[z911741]

I encountered a similar error on the OpenEuler system. I don't know how to solve these problems.

CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.

CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.

CMake Error at test/CMakeLists.txt:49 (ADD_EXECUTABLE):
  ADD_EXECUTABLE cannot create target "EXCLUDE_FROM_ALL" because another
  target with the same name already exists.  The existing target is an
  executable created in source directory
  "/home/Software/vg-v1.50.1/deps/sdsl-lite/test".  See documentation for
  policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:54 (ADD_CUSTOM_TARGET):
  ADD_CUSTOM_TARGET cannot create target "COMMAND" because another target
  with the same name already exists.  The existing target is a custom target
  created in source directory
  "/home/Software/vg-v1.50.1/deps/sdsl-lite/test".  See documentation for
  policy CMP0002 for more details.


CMake Error at test/CMakeLists.txt:47 (STRING):
  STRING sub-command REGEX, mode REPLACE needs at least 6 arguments total to
  command.

[z911741]

I think the problem is caused by sdsl-lite, which seems to be an incompatibility issue due to the high version of cmake. I checked the sdsl github library and found that it hasn't been updated in a long time. But does anyone have another way?

[z911741]

I found a solution. Maybe I can give it a try. Download the latest sdsl-lite from this URL (https://github.com/vgteam/sdsl-lite/releases/tag/v2.3.1-vgteam), then unzip and replace the contents in vg/deps/sdsl-lite to solve the problem.

Answer 1

[colindaven]

Why not just make your life easy and download the binary from here ?

wget https://github.com/vgteam/vg/releases/download/v1.50.1/vg 

[z911741]

I want to use it on an aarch64 architecture Linux machine. But at present I always encounter a lot of errors can not use.