Bug 741182

Summary:	sci-biology/embassy-hmmer-2.3.2.660 fails to link with LLD because of /usr/lib in the link command line
Product:	Gentoo Linux	Reporter:	Agostino Sarubbo <ago>
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:	731004
Attachments:	build.log

Description Agostino Sarubbo gentoo-dev

2020-09-08 13:09:45 UTC

https://blogs.gentoo.org/ago/2020/07/04/gentoo-tinderbox/

Issue: sci-biology/embassy-hmmer-2.3.2.660 fails to link with LLD because of /usr/lib in the link command line.
Discovered on: amd64 (internal ref: tinderbox)

NOTE:
This PR gives an idea about a fix: https://github.com/PhotoFlare/photoflare/pull/248/files.

Comment 1 Agostino Sarubbo gentoo-dev

2020-09-08 13:09:47 UTC

Created attachment 659142 [details]
build.log

build log and emerge --info

Comment 2 Larry the Git Cow gentoo-dev

2021-03-13 12:05:55 UTC

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

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=95578e1e8c015e6d398cb08f66189c2641360494

commit 95578e1e8c015e6d398cb08f66189c2641360494
Author:     David Seifert <soap@gentoo.org>
AuthorDate: 2021-03-13 12:05:31 +0000
Commit:     David Seifert <soap@gentoo.org>
CommitDate: 2021-03-13 12:05:31 +0000

    sci-biology/embassy-hmmer: Fix building against clang/LLD
    
    Closes: https://bugs.gentoo.org/741182
    Package-Manager: Portage-3.0.17, Repoman-3.0.2
    Signed-off-by: David Seifert <soap@gentoo.org>

 .../embassy-hmmer-2.3.2.650_fix-build-system.patch | 31 ++++++++++++----------
 1 file changed, 17 insertions(+), 14 deletions(-)