Bosst configure error
Dear Abyss team, I have complied boost and used this cl to configure Abyss:
./configure --exec-prefix=/export/home/aay2c/app/abyss --with-boost=/export/home/aay2c/app/boostok/include --prefix=/export/home/aay2c/app/abyss CPPFLAGS=-I/export/home/aay2c/app/sparsehash/include --with-sqlite=/export/home/aay2c/app/sqlite
But got the error, What It can be??
checking tr1/functional usability... yes
checking tr1/functional presence... yes
checking for tr1/functional... yes
checking boost/functional/hash.hpp usability... no
checking boost/functional/hash.hpp presence... yes
configure: WARNING: boost/functional/hash.hpp: present but cannot be compiled
configure: WARNING: boost/functional/hash.hpp: check for missing prerequisite headers?
configure: WARNING: boost/functional/hash.hpp: see the Autoconf documentation
configure: WARNING: boost/functional/hash.hpp: section "Present But Cannot Be Compiled"
configure: WARNING: boost/functional/hash.hpp: proceeding with the compiler's result
configure: WARNING: ## ----------------------------------- ##
configure: WARNING: ## Report this to abyss-users@bcgsc.ca ##
configure: WARNING: ## ----------------------------------- ##
checking for boost/functional/hash.hpp... no
checking boost/property_map/property_map.hpp usability... yes
checking boost/property_map/property_map.hpp presence... yes
checking for boost/property_map/property_map.hpp... yes
checking google/sparse_hash_map usability... yes
checking google/sparse_hash_map presence... yes
checking for google/sparse_hash_map... yes
checking unordered_map usability... no
checking unordered_map presence... no
checking for unordered_map... no
checking tr1/unordered_map usability... yes
checking tr1/unordered_map presence... yes
checking for tr1/unordered_map... yes
checking unordered_set usability... no
checking unordered_set presence... no
checking for unordered_set... no
checking tr1/unordered_set usability... yes
checking tr1/unordered_set presence... yes
checking for tr1/unordered_set... yes
checking boost/unordered_set.hpp usability... no
checking boost/unordered_set.hpp presence... yes
configure: WARNING: boost/unordered_set.hpp: present but cannot be compiled
configure: WARNING: boost/unordered_set.hpp: check for missing prerequisite headers?
configure: WARNING: boost/unordered_set.hpp: see the Autoconf documentation
configure: WARNING: boost/unordered_set.hpp: section "Present But Cannot Be Compiled"
configure: WARNING: boost/unordered_set.hpp: proceeding with the compiler's result
configure: WARNING: ## ----------------------------------- ##
configure: WARNING: ## Report this to abyss-users@bcgsc.ca ##
configure: WARNING: ## ----------------------------------- ##
checking for boost/unordered_set.hpp... no
Thank you!!!
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Biostar
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Andrey Yurchenko •
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Andrey Yurchenko •
2 answers
Hi Andrey,
Not sure, but you may be able to determine the nature of the error by looking in the config.log generated by the configure command.
Assuming you are not able to install boost with a package manager (e.g. apt or yum), you can set up the required boost headers by:
- downloading a recent boost source tarball (e.g. https://sourceforge.net/projects/boost/files/boost/1.61.0/boost_1_61_0.tar.gz)
- unpacking the tarball
- copying the
boostdirectory from the unpacked tarball directory into /home/andrey/include (for example) - adding
--with-boost=/home/andreyto your configure command
The value of --with-boost should be a directory that contains include/boost/unordered_set.hpp underneath it (for example).
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What OS is this? You should also consider emailing the abyss-users list as indicated in the message above.
It is really hard to tell what is wrong from the
configureoutput alone. If you look for the Boost checks in theconfig.logfile it will give you more info about why the checks failed. If you like, you can post your config.log (post here, send e-mail to benv at bcgsc dot ca, or post to GitHub gist) and I can have a look for you.