Could not link against boost_coroutine
Hello, I'm having an issue with trying to compile graph-tool 2.20 on RedHat 6.6 using python 2.7.8. I downloaded, compiled and installed boost 1.61 into /usr/local/boost161 The configure routine seems to be finding the Boost::Coroutine library just fine. The problem is when it tests the library it finds and it fails. I run the command like so: # ./configure --with-boost=/usr/local/boost161 =========================== Using python version: 2.7.8 =========================== checking for boostlib >= 1.54.0... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... yes checking whether the Boost::IOStreams library is available... yes checking for exit in -lboost_iostreams... yes checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes checking whether the Boost::Coroutine library is available... yes checking for exit in -lboost_coroutine... no checking for exit in -lboost_coroutine... (cached) no configure: error: Could not link against boost_coroutine ! This to me seems like it is a problem with boost installation, and not graph-tool. But I can find no references to this being an issue, so I'm wondering if this is something that is known. If it's known, I'm hoping there's a fix for it. Is there any thought as to why this fails? -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 07.02.2017 16:44, dperry324 wrote:
Hello, I'm having an issue with trying to compile graph-tool 2.20 on RedHat 6.6 using python 2.7.8.
I downloaded, compiled and installed boost 1.61 into /usr/local/boost161
The configure routine seems to be finding the Boost::Coroutine library just fine. The problem is when it tests the library it finds and it fails.
I run the command like so:
# ./configure --with-boost=/usr/local/boost161
=========================== Using python version: 2.7.8 =========================== checking for boostlib >= 1.54.0... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... yes checking whether the Boost::IOStreams library is available... yes checking for exit in -lboost_iostreams... yes checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex... yes checking whether the Boost::Coroutine library is available... yes checking for exit in -lboost_coroutine... no checking for exit in -lboost_coroutine... (cached) no configure: error: Could not link against boost_coroutine !
This to me seems like it is a problem with boost installation, and not graph-tool. But I can find no references to this being an issue, so I'm wondering if this is something that is known. If it's known, I'm hoping there's a fix for it.
Is there any thought as to why this fails?
To understand what is happening, you need to provide us with the contents of the config.log file. Best, Tiago -- Tiago de Paula Peixoto <tiago@skewed.de>
The file is 2917 lines long. What is the best method for sending it. I can copy/paste the entire log if needed, but I don't see a method for attaching a file. -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 07.02.2017 16:59, dperry324 wrote:
The file is 2917 lines long. What is the best method for sending it. I can copy/paste the entire log if needed, but I don't see a method for attaching a file.
If you are using the web interface, you can click on "more" and then select "upload a file". Otherwise you post per email, and attache a file. -- Tiago de Paula Peixoto <tiago@skewed.de>
When I use the More function there is no option for attaching a file. I replied via email to your post, but I got an error. Would it be ok to paste the whole file? Or should I send only relevant parts? -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 07.02.2017 17:18, dperry324 wrote:
When I use the More function there is no option for attaching a file.
It is definitively there, on top of the edit box when you are replying or editing a new post.
I replied via email to your post, but I got an error. Would it be ok to paste the whole file? Or should I send only relevant parts?
The email should be sent to graph-tool@skewed.de -- Tiago de Paula Peixoto <tiago@skewed.de>
config.log <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/file/n4027003/config.log> Ok, I found the correct More button. -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 07.02.2017 17:33, dperry324 wrote:
config.log <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/file/n4027003/config.log>
Ok, I found the correct More button.
The relevant section is: onfigure:20248: checking for exit in -lboost_coroutine configure:20283: g++ -std=gnu++14 -o conftest -fvisibility=default -fvisibility-inlines-hidden -O3 -Wno-deprecated -Wno-unknown-pragmas -ftemplate-depth-250 -DNDEBUG -Wall -Wextra -ftemplate-backtrace-limit=0 -Wno-unknown-pragmas -I/opt/rh/python27/root/usr/include/python2.7 -I/usr/local/boost161/include -L/usr/local/boost161/lib conftest.cpp -lboost_coroutine -lbz2 -lm >&5 /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_context.so.1.61.0, needed by /usr/local/boost161/lib/libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_thread.so.1.61.0, needed by /usr/local/boost161/lib/libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_chrono.so.1.61.0, needed by /usr/local/boost161/lib/libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_system.so.1.61.0, needed by /usr/local/boost161/lib/libboost_coroutine.so, not found (try using -rpath or -rpath-link) /usr/local/boost161/lib/libboost_coroutine.so: undefined reference to `boost::thread_detail::commit_once_region(boost::once_flag&)' /usr/local/boost161/lib/libboost_coroutine.so: undefined reference to `jump_fcontext' /usr/local/boost161/lib/libboost_coroutine.so: undefined reference to `boost::thread_detail::enter_once_region(boost::once_flag&)' /usr/local/boost161/lib/libboost_coroutine.so: undefined reference to `make_fcontext' collect2: error: ld returned 1 exit status This probably means that the location of the libraries is not in the linker's path. You need something like ./configure LDFLAGS=-L/usr/local/boost161/lib/ Best, Tiago -- Tiago de Paula Peixoto <tiago@skewed.de>
config1.log <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/file/n4027005/config1.log> I tried your suggestion, and it still failed at the same spot. Here is the resulting config.log. I used this command line: # ./configure --with-boost=/usr/local/boost161 LDFLAGS=-L/usr/local/boost161/lib/ -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
On 07.02.2017 17:53, dperry324 wrote:
config1.log <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/file/n4027005/config1.log>
I tried your suggestion, and it still failed at the same spot. Here is the resulting config.log.
I used this command line: # ./configure --with-boost=/usr/local/boost161 LDFLAGS=-L/usr/local/boost161/lib/
We are not going to do wack-a-mole like this. You have to look at the error yourself and try to understand what it means. Note these are not graph-tool bugs, but rather are probably inconsistencies with your installation. If you look at your newest config.log we see configure:20283: g++ -std=gnu++14 -o conftest -fvisibility=default -fvisibility-inlines-hidden -O3 -Wno-deprecated -Wno-unknown-pragmas -ftemplate-depth-250 -DNDEBUG -Wall -Wextra -ftemplate-backtrace-limit=0 -Wno-unknown-pragmas -I/opt/rh/python27/root/usr/include/python2.7 -I/usr/local/boost161/include -L/usr/local/boost161/lib/ -L/usr/local/boost161/lib conftest.cpp -lboost_coroutine -lbz2 -lm >&5 /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_context.so.1.61.0, needed by /usr/local/boost161/lib//libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_thread.so.1.61.0, needed by /usr/local/boost161/lib//libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_chrono.so.1.61.0, needed by /usr/local/boost161/lib//libboost_coroutine.so, not found (try using -rpath or -rpath-link) /opt/rh/devtoolset-4/root/usr/libexec/gcc/x86_64-redhat-linux/5.3.1/ld: warning: libboost_system.so.1.61.0, needed by /usr/local/boost161/lib//libboost_coroutine.so, not found (try using -rpath or -rpath-link) /usr/local/boost161/lib//libboost_coroutine.so: undefined reference to `boost::thread_detail::commit_once_region(boost::once_flag&)' /usr/local/boost161/lib//libboost_coroutine.so: undefined reference to `jump_fcontext' /usr/local/boost161/lib//libboost_coroutine.so: undefined reference to `boost::thread_detail::enter_once_region(boost::once_flag&)' /usr/local/boost161/lib//libboost_coroutine.so: undefined reference to `make_fcontext' collect2: error: ld returned 1 exit status It is still not finding boost-context, boost-thread, etc. Are these libraries really in /usr/local/boost161/lib/? -- Tiago de Paula Peixoto <tiago@skewed.de>
I tweeked the command line, and it worked by using -rpath-link. # ./configure --with-boost=/usr/local/boost161 LDFLAGS=-Wl,-rpath-link,/usr/local/boost161/lib -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/... Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.
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Tiago de Paula Peixoto