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Bug 1511600 - FTBFS: network.cpp:2632:10: fatal error: cvode/cvode_dense.h: No such file or directory
Summary: FTBFS: network.cpp:2632:10: fatal error: cvode/cvode_dense.h: No such file or...
Keywords:
Status: CLOSED ERRATA
Alias: None
Product: Fedora
Classification: Fedora
Component: bionetgen
Version: 28
Hardware: Unspecified
OS: Unspecified
unspecified
unspecified
Target Milestone: ---
Assignee: Zbigniew Jędrzejewski-Szmek
QA Contact: Fedora Extras Quality Assurance
URL: https://apps.fedoraproject.org/kosche...
Whiteboard:
: 1603489 (view as bug list)
Depends On:
Blocks: F29FTBFS
TreeView+ depends on / blocked
 
Reported: 2017-11-09 16:45 UTC by Antonio T. (sagitter)
Modified: 2018-11-18 03:55 UTC (History)
4 users (show)

Fixed In Version: bionetgen-2.4.0-2.fc28 bionetgen-2.4.0-2.fc29
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2018-11-18 02:56:57 UTC
Type: Bug
Embargoed:

Attachments (Terms of Use)
build.log (31.02 KB, text/plain)
2018-05-28 21:56 UTC, Fedora Release Engineering 		no flags Details
root.log (83.47 KB, text/plain)
2018-05-28 21:56 UTC, Fedora Release Engineering 		no flags Details
state.log (627 bytes, text/plain)
2018-05-28 21:56 UTC, Fedora Release Engineering 		no flags Details
View All


Links
System ID Private Priority Status Summary Last Updated
Github RuleWorld bionetgen issues 190 0 None None None 2017-11-27 12:50:44 UTC

Description Antonio T. (sagitter) 2017-11-09 16:45:11 UTC 
Description of problem:
'bionetgen' requires 'cvode/cvode_dense.h' for compiling but this file is no longer provided by 'sundials 3.0.0'.

Version-Release number of selected component (if applicable):
bionetgen-2.3.0-6

How reproducible:
Rebuild 'bionetgen' with 'Sundials 3.0.0' 


Actual results:
+ /usr/bin/make -O -j6 -C src
make: Entering directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.3.0/bng2/Network3/src'
g++ -DHAVE_CONFIG_H -I. -I..  -I/usr/include -I../muparser_v2_2_4/include -I../cvode-2.6.0/include -Iutil/mathutils   -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -mtune=generic -c -o run_network-network.o `test -f 'network.cpp' || echo './'`network.cpp
make: Leaving directory '/builddir/build/BUILD/bionetgen-BioNetGen-2.3.0/bng2/Network3/src'
network.cpp:2632:10: fatal error: cvode/cvode_dense.h: No such file or directory
 #include "cvode/cvode_dense.h"
          ^~~~~~~~~~~~~~~~~~~~~
compilation terminated.
Comment 1 Antonio T. (sagitter) 2017-11-09 16:46:50 UTC 
Upstream bug:
https://github.com/RuleWorld/bionetgen/issues/190
Comment 2 Petr Pisar 2017-11-27 12:50:45 UTC 
This is caused by upgrading sundials-devel from 2.7.0-11.fc27 to 3.0.0-1.fc28.
Comment 3 Fedora End Of Life 2018-02-20 15:26:17 UTC 
This bug appears to have been reported against 'rawhide' during the Fedora 28 development cycle.
Changing version to '28'.
Comment 4 Fedora Release Engineering 2018-05-28 21:56:07 UTC 
Created attachment 1444013 [details]
build.log
Comment 5 Fedora Release Engineering 2018-05-28 21:56:12 UTC 
Created attachment 1444014 [details]
root.log
Comment 6 Fedora Release Engineering 2018-05-28 21:56:16 UTC 
Created attachment 1444015 [details]
state.log
Comment 7 Antonio T. (sagitter) 2018-07-19 16:55:46 UTC 
*** Bug 1603489 has been marked as a duplicate of this bug. ***
Comment 8 Fedora Update System 2018-11-08 21:08:18 UTC 
bionetgen-2.4.0-1.fc29 has been submitted as an update to Fedora 29. https://bodhi.fedoraproject.org/updates/FEDORA-2018-ec270e5844
Comment 9 Fedora Update System 2018-11-08 21:08:35 UTC 
bionetgen-2.4.0-1.el7 has been submitted as an update to Fedora EPEL 7. https://bodhi.fedoraproject.org/updates/FEDORA-EPEL-2018-fc06a0dd97
Comment 10 Fedora Update System 2018-11-08 21:08:50 UTC 
bionetgen-2.4.0-1.fc28 has been submitted as an update to Fedora 28. https://bodhi.fedoraproject.org/updates/FEDORA-2018-8ed51c02d3
Comment 11 Fedora Update System 2018-11-09 07:45:53 UTC 
bionetgen-2.4.0-1.fc29 has been pushed to the Fedora 29 testing repository. If problems still persist, please make note of it in this bug report.
See https://fedoraproject.org/wiki/QA:Updates_Testing for
instructions on how to install test updates.
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2018-ec270e5844
Comment 12 Fedora Update System 2018-11-09 07:50:51 UTC 
bionetgen-2.4.0-1.fc28 has been pushed to the Fedora 28 testing repository. If problems still persist, please make note of it in this bug report.
See https://fedoraproject.org/wiki/QA:Updates_Testing for
instructions on how to install test updates.
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2018-8ed51c02d3
Comment 13 Fedora Update System 2018-11-09 07:59:02 UTC 
bionetgen-2.4.0-1.el7 has been pushed to the Fedora EPEL 7 testing repository. If problems still persist, please make note of it in this bug report.
See https://fedoraproject.org/wiki/QA:Updates_Testing for
instructions on how to install test updates.
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-EPEL-2018-fc06a0dd97
Comment 14 Fedora Update System 2018-11-09 13:30:39 UTC 
bionetgen-2.4.0-2.fc29 has been submitted as an update to Fedora 29. https://bodhi.fedoraproject.org/updates/FEDORA-2018-ec270e5844
Comment 15 Fedora Update System 2018-11-09 13:33:54 UTC 
bionetgen-2.4.0-2.fc28 has been submitted as an update to Fedora 28. https://bodhi.fedoraproject.org/updates/FEDORA-2018-8ed51c02d3
Comment 16 Fedora Update System 2018-11-10 05:00:37 UTC 
bionetgen-2.4.0-2.fc29 has been pushed to the Fedora 29 testing repository. If problems still persist, please make note of it in this bug report.
See https://fedoraproject.org/wiki/QA:Updates_Testing for
instructions on how to install test updates.
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2018-ec270e5844
Comment 17 Fedora Update System 2018-11-10 05:09:22 UTC 
bionetgen-2.4.0-2.fc28 has been pushed to the Fedora 28 testing repository. If problems still persist, please make note of it in this bug report.
See https://fedoraproject.org/wiki/QA:Updates_Testing for
instructions on how to install test updates.
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2018-8ed51c02d3
Comment 18 Fedora Update System 2018-11-18 02:56:57 UTC 
bionetgen-2.4.0-2.fc28 has been pushed to the Fedora 28 stable repository. If problems still persist, please make note of it in this bug report.
Comment 19 Fedora Update System 2018-11-18 03:55:31 UTC 
bionetgen-2.4.0-2.fc29 has been pushed to the Fedora 29 stable repository. If problems still persist, please make note of it in this bug report.
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