Bug 1360997 - un-necessary shared objects causing DSO issues
Summary: un-necessary shared objects causing DSO issues
Keywords:
Status: CLOSED ERRATA
Alias: None
Product: Fedora
Classification: Fedora
Component: scalapack
Version: rawhide
Hardware: All
OS: All
unspecified
unspecified
Target Milestone: ---
Assignee: Tom "spot" Callaway
QA Contact: Fedora Extras Quality Assurance
URL:
Whiteboard:
Depends On:
Blocks:
TreeView+ depends on / blocked
 
Reported: 2016-07-28 06:29 UTC by Ryan H. Lewis (rhl)
Modified: 2016-08-14 05:19 UTC (History)
4 users (show)

Fixed In Version: scalapack-2.0.2-15.fc24 scalapack-2.0.2-15.fc23 scalapack-2.0.2-15.el7
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2016-08-08 20:27:02 UTC
Type: Bug


Attachments (Terms of Use)

Description Ryan H. Lewis (rhl) 2016-07-28 06:29:54 UTC
Description of problem:

I am having DSO Linking issues, since fedora is packaging some kind of hacked scalapack build:

Determining if the function Csys2blacs_handle exists failed with the following output:
Change Dir: /home/makerpm/rpmbuild/BUILD/Elemental-0.86-rc2/openmpi-x86_64/CMakeFiles/CMakeTmp

Run Build Command:"/usr/bin/gmake" "cmTC_bb4c6/fast"
/usr/bin/gmake -f CMakeFiles/cmTC_bb4c6.dir/build.make CMakeFiles/cmTC_bb4c6.dir/build
gmake[1]: Entering directory '/home/makerpm/rpmbuild/BUILD/Elemental-0.86-rc2/openmpi-x86_64/CMakeFiles/CMakeTmp'
Building C object CMakeFiles/cmTC_bb4c6.dir/CheckFunctionExists.c.o
/usr/lib64/openmpi/bin/mpicc   -I/usr/include/openmpi-x86_64  -DCHECK_FUNCTION_EXISTS=Csys2blacs_handle   -o CMakeFiles/cmTC_bb4c6.dir/CheckFunctionExists.c.o   -c /usr/share/cmake/Modules/CheckFunctionExists.c
Linking C executable cmTC_bb4c6
/usr/bin/cmake -E cmake_link_script CMakeFiles/cmTC_bb4c6.dir/link.txt --verbose=1
/usr/lib64/openmpi/bin/mpicc   -DCHECK_FUNCTION_EXISTS=Csys2blacs_handle   -Wl,-rpath  -Wl,/usr/lib64/openmpi/lib  -Wl,--enable-new-dtags  CMakeFiles/cmTC_bb4c6.dir/CheckFunctionExists.c.o  -o cmTC_bb4c6 -rdynamic /usr/lib64/openmpi/lib/libscalapack.so /usr/lib64/openmpi/lib/libmpi.so 
/usr/bin/ld: CMakeFiles/cmTC_bb4c6.dir/CheckFunctionExists.c.o: undefined reference to symbol 'Csys2blacs_handle'
/usr/lib64/openmpi/lib/libmpiblacs.so.2: error adding symbols: DSO missing from command line
collect2: error: ld returned 1 exit status
CMakeFiles/cmTC_bb4c6.dir/build.make:99: recipe for target 'cmTC_bb4c6' failed
gmake[1]: *** [cmTC_bb4c6] Error 1
gmake[1]: Leaving directory '/home/makerpm/rpmbuild/BUILD/Elemental-0.86-rc2/openmpi-x86_64/CMakeFiles/CMakeTmp'
Makefile:126: recipe for target 'cmTC_bb4c6/fast' failed
gmake: *** [cmTC_bb4c6/fast] Error 2


According to the scalapack documentation at version 2.0:

New in version 2.0:

- The BLACS is now part of ScaLAPACK, and is compiled into the ScaLAPACK
  library.  It is no longer necessary to link against BLACS libraries.

Yet this clearly contradicts what I am seeing:

/usr/lib64/openmpi/lib/libmpiblacs.so.2: error adding symbols: DSO missing from command line

Version-Release number of selected component (if applicable):
All after 2.0

Comment 1 Fedora Update System 2016-07-28 15:50:57 UTC
scalapack-2.0.2-15.fc23 has been submitted as an update to Fedora 23. https://bodhi.fedoraproject.org/updates/FEDORA-2016-560cf441fc

Comment 2 Fedora Update System 2016-07-28 15:51:07 UTC
scalapack-2.0.2-15.fc24 has been submitted as an update to Fedora 24. https://bodhi.fedoraproject.org/updates/FEDORA-2016-8ebe2adca1

Comment 3 Fedora Update System 2016-07-28 15:51:15 UTC
scalapack-2.0.2-15.el7 has been submitted as an update to Fedora EPEL 7. https://bodhi.fedoraproject.org/updates/FEDORA-EPEL-2016-2adb2347e1

Comment 4 Fedora Update System 2016-07-29 03:55:24 UTC
scalapack-2.0.2-15.fc23 has been pushed to the Fedora 23 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-2016-560cf441fc

Comment 5 Fedora Update System 2016-07-29 03:55:34 UTC
scalapack-2.0.2-15.fc24 has been pushed to the Fedora 24 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-2016-8ebe2adca1

Comment 6 Fedora Update System 2016-07-29 07:19:11 UTC
scalapack-2.0.2-15.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-2016-2adb2347e1

Comment 7 Ryan H. Lewis (rhl) 2016-07-30 02:59:18 UTC
The exact issue that I had before was resolved, however, I am still unable to link against scalapack for the same reason as: 

https://bugzilla.redhat.com/show_bug.cgi?id=1114031

The error I now see is: 

/usr/lib64/openmpi/bin/mpicc   -DCHECK_FUNCTION_EXISTS=dsytrd_   -Wl,-rpath  -Wl,/usr/lib64/openmpi/lib  -Wl,--enable-new-dtags  CMakeFiles/cmTC_91d7e.dir/CheckFunctionExists.c.o  -o cmTC_91d7e -rdynamic /usr/lib64/openmpi/lib/libscalapack.so /usr/lib64/openmpi/lib/libmpi.so 
/usr/bin/ld: CMakeFiles/cmTC_91d7e.dir/CheckFunctionExists.c.o: undefined reference to symbol 'dsytrd_'
/usr/lib64/liblapack.so.3: error adding symbols: DSO missing from command line

Comment 8 Fedora Update System 2016-08-08 20:26:57 UTC
scalapack-2.0.2-15.fc24 has been pushed to the Fedora 24 stable repository. If problems still persist, please make note of it in this bug report.

Comment 9 Fedora Update System 2016-08-08 23:54:16 UTC
scalapack-2.0.2-15.fc23 has been pushed to the Fedora 23 stable repository. If problems still persist, please make note of it in this bug report.

Comment 10 Fedora Update System 2016-08-14 05:19:43 UTC
scalapack-2.0.2-15.el7 has been pushed to the Fedora EPEL 7 stable repository. If problems still persist, please make note of it in this bug report.


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