Gentoo Websites Logo
Go to: Gentoo Home Documentation Forums Lists Bugs Planet Store Wiki Get Gentoo!
Bug 629666 - sci-biology/samtools-1.5 : bam_aux.c:26:20: fatal error: config.h: No such file or directory
Summary: sci-biology/samtools-1.5 : bam_aux.c:26:20: fatal error: config.h: No such fi...
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal
Assignee: Gentoo Science Biology related packages
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2017-09-02 14:39 UTC by Toralf Förster
Modified: 2017-09-02 16:37 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---

Attachments
emerge-info.txt (emerge-info.txt,14.58 KB, text/plain)
2017-09-02 14:39 UTC, Toralf Förster 		Details
emerge-history.txt (emerge-history.txt,84.17 KB, text/plain)
2017-09-02 14:39 UTC, Toralf Förster 		Details
environment (environment,97.09 KB, text/plain)
2017-09-02 14:40 UTC, Toralf Förster 		Details
etc.portage.tbz2 (etc.portage.tbz2,11.87 KB, application/x-bzip)
2017-09-02 14:40 UTC, Toralf Förster 		Details
logs.tbz2 (logs.tbz2,3.31 KB, application/x-bzip)
2017-09-02 14:40 UTC, Toralf Förster 		Details
sci-biology:samtools-1.5:20170902-133002.log (sci-biology:samtools-1.5:20170902-133002.log,6.51 KB, text/plain)
2017-09-02 14:40 UTC, Toralf Förster 		Details
temp.tbz2 (temp.tbz2,24.17 KB, application/x-bzip)
2017-09-02 14:40 UTC, Toralf Förster 		Details
View All Add an attachment (proposed patch, testcase, etc.)

Note You need to log in before you can comment on or make changes to this bug.
Description Toralf Förster gentoo-dev 2017-09-02 14:39:53 UTC 
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -Wall -I.   -c -o bam_addrprg.o bam_addrprg.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -Wall  -fPIC -c -o bam_aux.o bam_aux.c
bam_aux.c:26:20: fatal error: config.h: No such file or directory
 #include <config.h>
                    ^
compilation terminated.

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 13.0-no-multilib_20170828-210950

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

gcc-config -l:
 [1] x86_64-pc-linux-gnu-6.4.0 *

Available Python interpreters, in order of preference:
  [1]   python3.4
  [2]   python2.7 (fallback)

java-config:
The following VMs are available for generation-2:


emerge -qpv sci-biology/samtools
[ebuild  N    ] sci-biology/samtools-1.5  USE="-examples" PYTHON_TARGETS="python2_7"
Comment 1 Toralf Förster gentoo-dev 2017-09-02 14:39:56 UTC 
Created attachment 491818 [details]
emerge-info.txt
Comment 2 Toralf Förster gentoo-dev 2017-09-02 14:39:59 UTC 
Created attachment 491820 [details]
emerge-history.txt
Comment 3 Toralf Förster gentoo-dev 2017-09-02 14:40:03 UTC 
Created attachment 491822 [details]
environment
Comment 4 Toralf Förster gentoo-dev 2017-09-02 14:40:06 UTC 
Created attachment 491824 [details]
etc.portage.tbz2
Comment 5 Toralf Förster gentoo-dev 2017-09-02 14:40:08 UTC 
Created attachment 491826 [details]
logs.tbz2
Comment 6 Toralf Förster gentoo-dev 2017-09-02 14:40:12 UTC 
Created attachment 491828 [details]
sci-biology:samtools-1.5:20170902-133002.log
Comment 7 Toralf Förster gentoo-dev 2017-09-02 14:40:15 UTC 
Created attachment 491830 [details]
temp.tbz2
Comment 8 David Seifert gentoo-dev 2017-09-02 15:03:09 UTC 
commit 06dc3754671e25127fa53a7d8b6c17ab3d254e40
Author:     David Seifert <soap@gentoo.org>
AuthorDate: Sat Sep 2 17:01:47 2017 +0200
Commit:     David Seifert <soap@gentoo.org>
CommitDate: Sat Sep 2 17:02:09 2017 +0200

    sci-biology/samtools: Add missing -I. to CPPFLAGS
    
    Bug: https://bugs.gentoo.org/show_bug.cgi?id=629666
Comment 9 Toralf Förster gentoo-dev 2017-09-02 16:37:27 UTC 
fixed