664708 – sci-biology/allpathslg-52488-r2 : ./.../KmerShape.h:566:49: error: could not convert kmer_shape_zebra<K>::getStringId() from String {aka FeudalString<char> } to KmerShapeId

Bug 664708 - sci-biology/allpathslg-52488-r2 : ./.../KmerShape.h:566:49: error: could not convert kmer_shape_zebra<K>::getStringId() from String {aka FeudalString<char> } to KmerShapeId

Summary: sci-biology/allpathslg-52488-r2 : ./.../KmerShape.h:566:49: error: could not ...

Status:	RESOLVED WONTFIX

Alias:	None

Product:	Gentoo Linux
Classification:	Unclassified
Component:	Current packages (show other bugs)
Hardware:	All Linux

Importance:	Normal normal
Assignee:	Gentoo Science Biology related packages

URL:
Whiteboard:
Keywords:

Depends on:
Blocks:

Reported:	2018-08-27 19:54 UTC by Toralf Förster
Modified:	2019-07-22 10:05 UTC (History)
CC List:	0 users

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

Attachments
emerge-info.txt (emerge-info.txt,16.45 KB, text/plain) 2018-08-27 19:55 UTC, Toralf Förster	Details
emerge-history.txt (emerge-history.txt,259.22 KB, text/plain) 2018-08-27 19:55 UTC, Toralf Förster	Details
environment (environment,99.43 KB, text/plain) 2018-08-27 19:55 UTC, Toralf Förster	Details
etc.portage.tbz2 (etc.portage.tbz2,15.00 KB, application/x-bzip) 2018-08-27 19:55 UTC, Toralf Förster	Details
logs.tbz2 (logs.tbz2,8.37 KB, application/x-bzip) 2018-08-27 19:55 UTC, Toralf Förster	Details
sci-biology:allpathslg-52488-r2:20180827-192615.log (sci-biology:allpathslg-52488-r2:20180827-192615.log,10.81 KB, text/plain) 2018-08-27 19:55 UTC, Toralf Förster	Details
temp.tbz2 (temp.tbz2,32.00 KB, application/x-bzip) 2018-08-27 19:55 UTC, Toralf Förster	Details
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Description Toralf Förster gentoo-dev

2018-08-27 19:54:59 UTC

                 from paths/RemodelGaps.cc:29:
./kmers/KmerShape.h: In static member function ‘static KmerShapeId kmer_shape_zebra<K>::getId()’:
./kmers/KmerShape.h:566:49: error: could not convert ‘kmer_shape_zebra<K>::getStringId()’ from ‘String’ {aka ‘FeudalString<char>’} to ‘KmerShapeId’
  static KmerShapeId getId() { return getStringId(); }
                                      ~~~~~~~~~~~^~
make[1]: *** [Makefile:8801: RemodelGaps.o] Error 1

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.0-desktop-gnome_libressl_20180820-193302

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

gcc-config -l:
 [1] x86_64-pc-linux-gnu-8.2.0 *

Available Python interpreters, in order of preference:
  [1]   python3.7
  [2]   python3.6
  [3]   python2.7 (fallback)
  [4]   jython2.7 (fallback)
Available Ruby profiles:
  [1]   ruby23 (with Rubygems)
  [2]   ruby25 (with Rubygems) *
java-config:
The following VMs are available for generation-2:
*)	IcedTea JDK 3.8.0 [icedtea-8]
2)	IcedTea JDK 3.8.0 [icedtea-bin-8]
Available Java Virtual Machines:
  [1]   icedtea-8  system-vm
  [2]   icedtea-bin-8 

emerge -qpv sci-biology/allpathslg
[ebuild  N    ] sci-biology/allpathslg-52488-r2

Comment 1 Toralf Förster gentoo-dev

2018-08-27 19:55:03 UTC

Created attachment 545232 [details]
emerge-info.txt

Comment 2 Toralf Förster gentoo-dev

2018-08-27 19:55:06 UTC

Created attachment 545234 [details]
emerge-history.txt

Comment 3 Toralf Förster gentoo-dev

2018-08-27 19:55:09 UTC

Created attachment 545236 [details]
environment

Comment 4 Toralf Förster gentoo-dev

2018-08-27 19:55:12 UTC

Created attachment 545238 [details]
etc.portage.tbz2

Comment 5 Toralf Förster gentoo-dev

2018-08-27 19:55:15 UTC

Created attachment 545240 [details]
logs.tbz2

Comment 6 Toralf Förster gentoo-dev

2018-08-27 19:55:18 UTC

Created attachment 545242 [details]
sci-biology:allpathslg-52488-r2:20180827-192615.log

Comment 7 Toralf Förster gentoo-dev

2018-08-27 19:55:21 UTC

Created attachment 545244 [details]
temp.tbz2

Comment 8 Larry the Git Cow gentoo-dev

2019-06-22 10:05:35 UTC

The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e3006a8567d667a380a3306aaa8510edd7297867

commit e3006a8567d667a380a3306aaa8510edd7297867
Author:     David Seifert <soap@gentoo.org>
AuthorDate: 2019-06-22 10:05:01 +0000
Commit:     David Seifert <soap@gentoo.org>
CommitDate: 2019-06-22 10:05:01 +0000

    package.mask: Last rite sci-biology/allpathslg
    
    Bug: https://bugs.gentoo.org/664708
    Bug: https://bugs.gentoo.org/685924
    Signed-off-by: David Seifert <soap@gentoo.org>

 profiles/package.mask | 7 +++++++
 1 file changed, 7 insertions(+)

Comment 9 Mikle Kolyada (RETIRED) archtester

2019-07-22 10:05:44 UTC

Gone.