Bug 664124

Summary:	sci-chemistry/openbabel-perl-2.4.1 : CMake Error at cmake/.../MacroEnsureVersion.cmake:76 (MATH):
Product:	Gentoo Linux	Reporter:	Toralf Förster <toralf>
Component:	Current packages	Assignee:	Gentoo Chemistry-Related Packages <sci-chemistry>
Status:	RESOLVED FIXED
Severity:	normal	CC:	atoth, kentnl
Priority:	Normal	Keywords:	PullRequest
Version:	unspecified
Hardware:	All
OS:	Linux
See Also:	https://bugs.gentoo.org/show_bug.cgi?id=716208 https://github.com/gentoo/gentoo/pull/16182
Whiteboard:
Package list:		Runtime testing required:	---
Bug Depends on:
Bug Blocks:	685044
Attachments:	emerge-info.txt CMakeError.log CMakeOutput.log emerge-history.txt environment etc.portage.tbz2 logs.tbz2 sci-chemistry:openbabel-perl-2.4.1:20180820-051710.log temp.tbz2 opebabel-perl-2.3.2-gcc-8_and_9.patch openbabel-perl-2.3.2-gcc-10.patch

Description Toralf Förster gentoo-dev

2018-08-20 17:26:07 UTC

-- Check size of clock_t
-- Check size of clock_t - done
CMake Error at cmake/modules/MacroEnsureVersion.cmake:76 (MATH):
  MATH cannot parse the expression: "x86_648*10000 + x86_642*100 + x86_640":
  syntax error, unexpected exp_NUMBER, expecting $end (8)
Call Stack (most recent call first):

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.0_libressl_20180811-095538

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

gcc-config -l:
 [1] x86_64-pc-linux-gnu-7.3.0
 [2] x86_64-pc-linux-gnu-7.3.1
 [3] 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]   pypy3 (fallback)
  [5]   pypy (fallback)
Available Ruby profiles:
  [1]   ruby23 (with Rubygems) *
java-config:
The following VMs are available for generation-2:


emerge -qpv sci-chemistry/openbabel-perl
[ebuild  N    ] sci-chemistry/openbabel-perl-2.4.1

Comment 1 Toralf Förster gentoo-dev

2018-08-20 17:26:09 UTC

Created attachment 544130 [details]
emerge-info.txt

Comment 2 Toralf Förster gentoo-dev

2018-08-20 17:26:12 UTC

Created attachment 544132 [details]
CMakeError.log

Comment 3 Toralf Förster gentoo-dev

2018-08-20 17:26:15 UTC

Created attachment 544134 [details]
CMakeOutput.log

Comment 4 Toralf Förster gentoo-dev

2018-08-20 17:26:17 UTC

Created attachment 544136 [details]
emerge-history.txt

Comment 5 Toralf Förster gentoo-dev

2018-08-20 17:26:20 UTC

Created attachment 544138 [details]
environment

Comment 6 Toralf Förster gentoo-dev

2018-08-20 17:26:23 UTC

Created attachment 544140 [details]
etc.portage.tbz2

Comment 7 Toralf Förster gentoo-dev

2018-08-20 17:26:26 UTC

Created attachment 544142 [details]
logs.tbz2

Comment 8 Toralf Förster gentoo-dev

2018-08-20 17:26:28 UTC

Created attachment 544144 [details]
sci-chemistry:openbabel-perl-2.4.1:20180820-051710.log

Comment 9 Toralf Förster gentoo-dev

2018-08-20 17:26:31 UTC

Created attachment 544146 [details]
temp.tbz2

Comment 10 Attila Tóth 2019-01-17 00:56:41 UTC

Created attachment 561684 [details, diff]
opebabel-perl-2.3.2-gcc-8_and_9.patch

Continue the patch paved by the previous gcc-6_and_7 patch.

Comment 11 Sergei Trofimovich (RETIRED) gentoo-dev

2019-10-31 19:54:07 UTC

It's a bit sad to see the same patches being tweaked every few gcc releases.
Moreover, we do it (inconsistently) for 3 instances of the same package:
   sci-chemistry/openbabel
   sci-chemistry/openbabel-perl
   sci-chemistry/openbabel-python

I suggest fixing it "once and for all" by backporting https://github.com/openbabel/openbabel/commit/00120f89cf62b121c30d0b2a891b159e19b53624 or by bumping to a new version.

Comment 12 Attila Tóth 2020-06-03 16:54:32 UTC

Created attachment 643288 [details, diff]
openbabel-perl-2.3.2-gcc-10.patch

This time after upgrade to gcc-10. Never ending story.
Same applies for openbabel and openbabel-python.

Comment 13 Andreas Sturmlechner gentoo-dev

2020-06-04 20:47:18 UTC

(In reply to Sergei Trofimovich from comment #11)
> I suggest fixing it "once and for all" by backporting
> https://github.com/openbabel/openbabel/commit/
> 00120f89cf62b121c30d0b2a891b159e19b53624 or by bumping to a new version.

Just do it rather than suggest it.

Comment 14 Toralf Förster gentoo-dev

2021-04-06 20:31:42 UTC

*** Bug 716208 has been marked as a duplicate of this bug. ***

Comment 15 Larry the Git Cow gentoo-dev

2021-12-15 10:09:06 UTC

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

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1fce6e91e642ac7fe5c3b9f675c54244be423a53

commit 1fce6e91e642ac7fe5c3b9f675c54244be423a53
Author:     Peter Levine <plevine457@gmail.com>
AuthorDate: 2021-03-22 05:00:23 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan@gentoo.org>
CommitDate: 2021-12-15 10:09:01 +0000

    sci-chemistry/openbabel: Bump openbabel-3.1.1_p20210225
    
    Closes: https://bugs.gentoo.org/664124
    Closes: https://bugs.gentoo.org/716208
    Closes: https://bugs.gentoo.org/722860
    Closes: https://bugs.gentoo.org/723434
    Closes: https://bugs.gentoo.org/766003
    Closes: https://bugs.gentoo.org/770493
    
    Package-Manager: Portage-3.0.17, Repoman-3.0.2
    Signed-off-by: Peter Levine <plevine457@gmail.com>
    Closes: https://github.com/gentoo/gentoo/pull/16182
    Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>

 sci-chemistry/openbabel/Manifest                   |   1 +
 .../openbabel/openbabel-3.1.1_p20210225.ebuild     | 272 +++++++++++++++++++++
 2 files changed, 273 insertions(+)