Bug 755767 – [science overlay] sci-biology/ncbi-blast+-2.8.1 : configure: error: Do not know how to parse GCC version number 10.2.0

• Status: CONFIRMED
• Product: Gentoo Linux

[Description Toralf Förster 2020-11-20 15:54:37 UTC]

checking whether we are using the GNU C++ compiler... yes
checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes
configure: error: Do not know how to parse GCC version number 10.2.0
 * ERROR: sci-biology/ncbi-blast+-2.8.1::science failed (configure phase):
 *   Maybe try new src/build-system/cmake/cmake-configure instead?
 * 

  -------------------------------------------------------------------

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_no-multilib-libressl_science-20201116-220441

  -------------------------------------------------------------------

gcc-config -l:
 [1] x86_64-pc-linux-gnu-10.2.0 *
/usr/lib/llvm/11
11.0.0
Available Python interpreters, in order of preference:
  [1]   python3.7
  [2]   python3.9 (fallback)
  [3]   python3.8 (fallback)
  [4]   python2.7 (fallback)
The following VMs are available for generation-2:
*)	AdoptOpenJDK 8.272_p10 [openjdk-bin-8]
Available Java Virtual Machines:
  [1]   openjdk-bin-8  system-vm

The Glorious Glasgow Haskell Compilation System, version 8.8.4

  timestamp(s) of HEAD at this tinderbox image:
/var/db/repos/gentoo	Fri Nov 20 05:46:41 AM UTC 2020
/var/db/repos/libressl	Sat Nov  7 03:06:11 PM UTC 2020

emerge -qpvO sci-biology/ncbi-blast+
[ebuild  N    ] sci-biology/ncbi-blast+-2.8.1  USE="berkdb bzip2 icu pcre -X -boost -cppunit -curl -debug -expat -fltk -freetype -gif -glut -gnutls -hdf5 -jpeg -lzo -mesa -muparser -mysql -odbc -opengl -pch -png -python -sablotron -sqlite -static -static-libs -test -threads -tiff -wxwidgets -xalan -xerces -xml -xpm -xslt" PYTHON_SINGLE_TARGET="python2_7"

[Comment 1 Toralf Förster 2020-11-20 15:54:38 UTC]

Created attachment 673594 [details]
emerge-info.txt

[Comment 2 Toralf Förster 2020-11-20 15:54:39 UTC]

Created attachment 673597 [details]
emerge-history.txt

[Comment 3 Toralf Förster 2020-11-20 15:54:41 UTC]

Created attachment 673600 [details]
environment

[Comment 4 Toralf Förster 2020-11-20 15:54:42 UTC]

Created attachment 673603 [details]
etc.portage.tbz2

[Comment 5 Toralf Förster 2020-11-20 15:54:44 UTC]

Created attachment 673606 [details]
logs.tbz2

[Comment 6 Toralf Förster 2020-11-20 15:54:45 UTC]

Created attachment 673609 [details]
sci-biology:ncbi-blast+-2.8.1:20201120-065405.log

[Comment 7 Lucas Mitrak 2021-08-05 14:00:47 UTC]

Version 2.8.1 is very out of date. The current version is 22 [1] and now uses cmake, which might make updating it easier.

[1] https://ncbi.github.io/cxx-toolkit/pages/release_notes