Bug 880981 – sci-biology/velvet-1.2.10 - Fatal error: cant create obj/concatenatedPreGraph.o: No such file or directory

• Status: CONFIRMED
• Product: Gentoo Linux

[Description Toralf Förster 2022-11-11 13:39:22 UTC]

>>> Compiling source in /var/tmp/portage/sci-biology/velvet-1.2.10/work/velvet_1.2.10 ...
make -j4 CC=x86_64-pc-linux-gnu-gcc 'CFLAGS=-pipe -march=native -fno-diagnostics-color -O2 -fPIC -fopenmp' 'OPT=-pipe -march=native -fno-diagnostics-color -O2 -fPIC -fopenmp' OPENMP=1 -j1 
x86_64-pc-linux-gnu-gcc -pipe -march=native -fno-diagnostics-color -O2 -fPIC -fopenmp -fopenmp -pipe -march=native -fno-diagnostics-color -O2 -fPIC -fopenmp -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/concatenatedPreGraph.c -o obj/concatenatedPreGraph.o 
Assembler messages:
Fatal error: can't create obj/concatenatedPreGraph.o: No such file or directory
src/concatenatedPreGraph.c:262:1: fatal error: error writing to -: Broken pipe
  262 | }

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_gnome-j4-20221110-170004

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

GNUMAKEFLAGS="$GNUMAKEFLAGS --jobserver-style=pipe"
GNUMAKEFLAGS="$GNUMAKEFLAGS --shuffle"
gcc-config -l:
 [1] x86_64-pc-linux-gnu-12 *
clang/llvm (if any):
clang version 15.0.4
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/15/bin
Configuration file: /etc/clang/clang.cfg
/usr/lib/llvm/15
15.0.4
Python 3.10.8
Available Ruby profiles:
  (none found)
Available Rust versions:
  [1]   rust-bin-1.65.0 *
The following VMs are available for generation-2:
1)	OpenJDK 17.0.5_p5 [openjdk-17]
2)	OpenJDK 8.345_p01 [openjdk-8]
*)	Eclipse Temurin JDK 17.0.4.1_p1 [openjdk-bin-17]
4)	Eclipse Temurin JDK 8.345_p01 [openjdk-bin-8]
Available Java Virtual Machines:
  [1]   openjdk-8 
  [2]   openjdk-17 
  [3]   openjdk-bin-8 
  [4]   openjdk-bin-17  system-vm

php cli (if any):

  HEAD of ::gentoo
commit 1f2e8c8f1ba430d55fe0ee16fba422d99766c50d
Author: Repository mirror & CI <[e-mail]>
Date:   Fri Nov 11 12:46:53 2022 +0000

    2022-11-11 12:46:52 UTC

emerge -qpvO sci-biology/velvet
[ebuild  N    ] sci-biology/velvet-1.2.10  USE="openmp -doc"

[Comment 1 Toralf Förster 2022-11-11 13:39:23 UTC]

Created attachment 831387 [details]
emerge-info.txt

[Comment 2 Toralf Förster 2022-11-11 13:39:25 UTC]

Created attachment 831389 [details]
emerge-history.txt

[Comment 3 Toralf Förster 2022-11-11 13:39:26 UTC]

Created attachment 831391 [details]
environment

[Comment 4 Toralf Förster 2022-11-11 13:39:27 UTC]

Created attachment 831393 [details]
etc.clang.tar.bz2

[Comment 5 Toralf Förster 2022-11-11 13:39:28 UTC]

Created attachment 831395 [details]
etc.portage.tar.bz2

[Comment 6 Toralf Förster 2022-11-11 13:39:29 UTC]

Created attachment 831397 [details]
sci-biology:velvet-1.2.10:20221111-125923.log

[Comment 7 Toralf Förster 2022-11-11 13:39:30 UTC]

Created attachment 831399 [details]
temp.tar.bz2

[Comment 8 Toralf Förster 2023-08-19 10:34:52 UTC]

*** Bug 890344 has been marked as a duplicate of this bug. ***