Bug 710338

Summary:	sci-biology/ncbi-tools-2.2.26-r2 : sed: -e expression #9, char 82: unknown option to s
Product:	Gentoo Linux	Reporter:	Toralf Förster <toralf>
Component:	Current packages	Assignee:	Gentoo Science Biology related packages <sci-biology>
Status:	RESOLVED FIXED
Severity:	normal	CC:	treecleaner
Priority:	Normal	Keywords:	PMASKED
Version:	unspecified
Hardware:	All
OS:	Linux
Whiteboard:
Package list:		Runtime testing required:	---
Bug Depends on:
Bug Blocks:	685160
Attachments:	emerge-info.txt emerge-history.txt environment etc.portage.tbz2 logs.tbz2 sci-biology:ncbi-tools-2.2.26-r2:20200220-182627.log

Description Toralf Förster gentoo-dev

2020-02-20 18:37:21 UTC

 * Applying ncbi-tools-2.2.26-_DEFAULT_SOURCE.patch ...
 [ ok ]
sed: -e expression #9, char 82: unknown option to `s'
 * ERROR: sci-biology/ncbi-tools-2.2.26-r2::gentoo failed (prepare phase):
 *   (no error message)
 * 

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_gnome-20200218-201111

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

gcc-config -l:
 [1] x86_64-pc-linux-gnu-9.2.0 *

clang:
clang version 9.0.1 
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/9/bin
llvm:
9.0.1
Available Python interpreters, in order of preference:
  [1]   python3.8
  [2]   python3.6
  [3]   python3.7 (fallback)
  [4]   python2.7 (fallback)
Available Ruby profiles:
  [1]   ruby24 (with Rubygems)
  [2]   ruby25 (with Rubygems) *
Available Rust versions:
  [1]   rust-1.41.0 *
java-config:
The following VMs are available for generation-2:
*)	IcedTea JDK 3.14.0 [icedtea-bin-8]
Available Java Virtual Machines:
  [1]   icedtea-bin-8  system-vm
ghc:
The Glorious Glasgow Haskell Compilation System, version 8.0.2

repository:
==> /var/db/repos/gentoo/metadata/timestamp.chk <==
Thu, 20 Feb 2020 17:11:39 +0000

emerge -qpvO sci-biology/ncbi-tools
[ebuild  N    ] sci-biology/ncbi-tools-2.2.26-r2  USE="X -doc -static-libs"

Comment 1 Toralf Förster gentoo-dev

2020-02-20 18:37:24 UTC

Created attachment 614728 [details]
emerge-info.txt

Comment 2 Toralf Förster gentoo-dev

2020-02-20 18:37:26 UTC

Created attachment 614730 [details]
emerge-history.txt

Comment 3 Toralf Förster gentoo-dev

2020-02-20 18:37:29 UTC

Created attachment 614732 [details]
environment

Comment 4 Toralf Förster gentoo-dev

2020-02-20 18:37:32 UTC

Created attachment 614734 [details]
etc.portage.tbz2

Comment 5 Toralf Förster gentoo-dev

2020-02-20 18:37:35 UTC

Created attachment 614736 [details]
logs.tbz2

Comment 6 Toralf Förster gentoo-dev

2020-02-20 18:37:38 UTC

Created attachment 614738 [details]
sci-biology:ncbi-tools-2.2.26-r2:20200220-182627.log

Comment 7 Larry the Git Cow gentoo-dev

2021-08-30 17:39:10 UTC

The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=59b2be273d92b67c4c7f581657151a5e7cbb63ae

commit 59b2be273d92b67c4c7f581657151a5e7cbb63ae
Author:     Jakov Smolić <jsmolic@gentoo.org>
AuthorDate: 2021-08-30 17:17:23 +0000
Commit:     Jakov Smolić <jsmolic@gentoo.org>
CommitDate: 2021-08-30 17:38:50 +0000

    sci-biology/ncbi-tools: Remove last-rited package
    
    Closes: https://bugs.gentoo.org/649930
    Closes: https://bugs.gentoo.org/782790
    Closes: https://bugs.gentoo.org/741188
    Closes: https://bugs.gentoo.org/715636
    Closes: https://bugs.gentoo.org/710338
    Closes: https://bugs.gentoo.org/701340
    Closes: https://bugs.gentoo.org/586982
    Closes: https://bugs.gentoo.org/295584
    Signed-off-by: Jakov Smolić <jsmolic@gentoo.org>

 profiles/package.mask                              |   6 -
 sci-biology/ncbi-tools/Manifest                    |   1 -
 sci-biology/ncbi-tools/files/21ncbi-r1             |   6 -
 .../files/ncbi-tools-2.2.26-_DEFAULT_SOURCE.patch  |  81 ----------
 .../files/ncbi-tools-2.2.26-bfr-overflow.patch     | 103 -------------
 .../files/ncbi-tools-2.2.26-format-security.patch  | 124 ---------------
 .../ncbi-tools/files/ncbi-tools-extra_vib.patch    |  37 -----
 sci-biology/ncbi-tools/files/ncbi-tools-lop.patch  |  15 --
 sci-biology/ncbi-tools/files/ncbirc                |   2 -
 sci-biology/ncbi-tools/metadata.xml                |   8 -
 sci-biology/ncbi-tools/ncbi-tools-2.2.26-r3.ebuild | 169 ---------------------
 11 files changed, 552 deletions(-)