[MINC-users] Building bicpl-1.6.4 on Ubuntu 12.04

[Andrew Janke]

Hi Andrew,

Sorry, I should have been more clear, you'll need to build the
dependencies using the new packaging system. Libtool then picks up the
libraries from the .la files in these for subsequent packages.

In this case my memory tells me it's EBTKS that you need to build from
scratch so that the .la files for it include the correct things. In
this case -lpbm



a

On 4 June 2014 23:50, Andrew Wood <andrew at biospective.com> wrote:
> Hi Andrew,
>
> I'd grabbed bicpl-1.6.4 from http://packages.bic.mni.mcgill.ca/tgz/. I've
> switched over to the CMake system where possible, but the bicpl releases
> all predate Vlad's CMake build system, so are we not stuck with libtool for
> this?
>
> I could grab a release from Github, but I'd just be rerunning the
> autotools, no?
>
> Thanks,
> Andrew
>
>
> On Tue, Jun 3, 2014 at 9:12 PM, Andrew Janke <a.janke at gmail.com> wrote:
>
>> Hi Andrew,
>>
>> No you haven't made a mistake with the configure args. It's a
>> shortcoming of how libtool is handled in the old MINC build system for
>> binary packages packages.
>>
>> If you build MINC from source (any release) or use any of the later
>> packages (mni-toolkit) you shouldn't see this problem.
>>
>> In any case I'd recommend shifting to Vlad's new CMake build system
>> for MINC as very little of the old autoconf/make code will now be kept
>> up to date.
>>
>> ta
>>
>>
>> a
>>
>>
>> On 4 June 2014 06:53, Andrew Wood <andrew at biospective.com> wrote:
>> > Hi all,
>> >
>> > I'm trying to build bicpl-1.6.4 on Ubuntu 12.04 and am having some
>> trouble.
>> >
>> > Here's my configure command:
>> > ./configure --with-minc2 --with-build-path=/usr/local/bic/
>> --with-image-ppm
>> >
>> > Everything goes well until the Testing/ subdirectory, where I get this:
>> >
>> > gcc -g -O2 -o test_rgb_io test_rgb_io.o  -L/usr/local/bic//lib
>> > ../.libs/libbicpl.a -lppm -lvolume_io2 -lminc2 /usr/lib/libhdf5.so
>> > -lpthread -lz -lnetcdf -lm
>> > /usr/bin/ld: ../.libs/libbicpl.a(rgb_io.o): undefined reference to symbol
>> > 'pm_freerow'
>> > /usr/bin/ld: note: 'pm_freerow' is defined in DSO /usr/lib64/libpbm.so.9
>> so
>> > try adding it to the linker command line
>> > /usr/lib64/libpbm.so.9: could not read symbols: Invalid operation
>> >
>> >
>> > Manually running the gcc command with "-lpbm" at the end, as suggested by
>> > the prompt, works fine. Is there a good reason that the build system
>> isn't
>> > passing along the linker flags? Have I made a mistake with the configure
>> > args?
>> >
>> > Thanks,
>> > Andrew
>> > _______________________________________________
>> > MINC-users at bic.mni.mcgill.ca
>> > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>> _______________________________________________
>> MINC-users at bic.mni.mcgill.ca
>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>>
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users