Bug 750587

Summary:	sci-biology/vcftools-0.1.14 : * Failed Running autoconf !
Product:	Gentoo Linux	Reporter:	Toralf Förster <toralf>
Component:	Current packages	Assignee:	Gentoo Science Biology related packages <sci-biology>
Status:	RESOLVED FIXED
Severity:	normal
Priority:	Normal
Version:	unspecified
Hardware:	All
OS:	Linux
Whiteboard:
Package list:		Runtime testing required:	---
Bug Depends on:
Bug Blocks:	732648
Attachments:	emerge-info.txt autoconf.out emerge-history.txt environment etc.portage.tbz2 sci-biology:vcftools-0.1.14:20201021-131055.log temp.tbz2

Description Toralf Förster gentoo-dev

2020-10-21 16:53:10 UTC

 * ERROR: sci-biology/vcftools-0.1.14::gentoo failed (prepare phase):
 *   Failed Running autoconf !
 * 

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_gnome_systemd-libressl-20201010-201503

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

gcc-config -l:
 [1] x86_64-pc-linux-gnu-7.3.1
 [2] x86_64-pc-linux-gnu-10.2.0 *
clang version 11.0.0
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/11/bin
/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)
Available Ruby profiles:
  [1]   ruby25 (with Rubygems)
  [2]   ruby26 (with Rubygems)
  [3]   ruby27 (with Rubygems) *
Available Rust versions:
  [1]   rust-bin-1.47.0 *
The following VMs are available for generation-2:
1)	IcedTea JDK 3.16.0 [icedtea-bin-8]
2)	JamVM JDK 2.0.0 [jamvm]
3)	OpenJDK 8.265_p01 [openjdk-8]
*)	AdoptOpenJDK 8.265_p01 [openjdk-bin-8]
Available Java Virtual Machines:
  [1]   icedtea-bin-8 
  [2]   jamvm 
  [3]   openjdk-8 
  [4]   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	Wed Oct 21 01:05:25 PM UTC 2020
/var/db/repos/libressl	Sun Oct 18 04:35:14 PM UTC 2020

emerge -qpvO sci-biology/vcftools
[ebuild  N    ] sci-biology/vcftools-0.1.14  USE="-lapack"

Comment 1 Toralf Förster gentoo-dev

2020-10-21 16:53:12 UTC

Created attachment 667796 [details]
emerge-info.txt

Comment 2 Toralf Förster gentoo-dev

2020-10-21 16:53:13 UTC

Created attachment 667799 [details]
autoconf.out

Comment 3 Toralf Förster gentoo-dev

2020-10-21 16:53:15 UTC

Created attachment 667802 [details]
emerge-history.txt

Comment 4 Toralf Förster gentoo-dev

2020-10-21 16:53:16 UTC

Created attachment 667805 [details]
environment

Comment 5 Toralf Förster gentoo-dev

2020-10-21 16:53:18 UTC

Created attachment 667808 [details]
etc.portage.tbz2

Comment 6 Toralf Förster gentoo-dev

2020-10-21 16:53:19 UTC

Created attachment 667811 [details]
sci-biology:vcftools-0.1.14:20201021-131055.log

Comment 7 Toralf Förster gentoo-dev

2020-10-21 16:53:20 UTC

Created attachment 667814 [details]
temp.tbz2

Comment 8 Lars Wendler (Polynomial-C) (RETIRED) gentoo-dev

2021-01-10 13:14:00 UTC

This has most likely been fixed by some changes in the final autoconf-2.70 release.