Thank you for the info.
I haven`t checked the mmdb-dev on my computer before.
I hope the problem can be fixed
and that the tumor can be removed ;-)
Cheers,
Tim
Am 9/30/11 5:06 PM, schrieb William Scott:
> Sorry for this. I will have to fix this over the weekend. They keep messing
> with their tar ball
> upstream, too, without changing the revision number, which is a stage 4B
> metastatic
> brain tumor of a headache.
>
> Also, it isn't the mmdb-dev dependency.
>
> Bill
>
>
> On Sep 30, 2011, at 5:43 AM, Tim Schulte wrote:
>
>> First of all, thanks for your help.
>> Secondly, the error messages I have found are pasted below.
>> If you need I can send as well the whole log file.
>>
>>
>>
>> Am 9/30/11 1:52 PM, schrieb Alexander Hansen:
>>> -----BEGIN PGP SIGNED MESSAGE-----
>>> Hash: SHA1
>>>
>>> On 9/30/11 4:55 AM, Tim Schulte wrote:
>>>> Dear fink users and developers, I have tried to update the CCP4
>>>> software package to the latest version, but got following error
>>>> messages. Any help is appreciated.
>>>>
>>>> *Error after downloading*
>>>>
>>>> The checksum of the file ccp4-6.2.0-core-src.tar.gz of package
>>>> ccp4-6.2.0-102 is incorrect. The most likely cause for this is a
>>>> corrupted or incomplete download Expected:
>>>> bfb843b62401816942cafeb94cdeb051 Actual:
>>>> MD5(1a087d3310d70501ac370804a11f341d)
>>>> SHA1(8d4f00b9d8d3f595157f78ab2214bf7ac8d6b974) It is recommended
>>>> that you download it again. How do you want to proceed?
>>>>
>>>> (1) Give up (2) Delete it and download again (3) Assume it
>>>> is a partial download and try to continue (4) Don't download,
>>>> use existing file
>>>>
>>>>
>>>>
>>>> *Error message when installing the package using option (4):*
>>>>
>>>> ranlib ../liblapack.a ### execution of /var/tmp/tmp.2.0TUY2S
>>>> failed, exit code 2 Removing runtime build-lock... Removing
>>>> build-lock package... /sw/bin/dpkg-lockwait -r
>>>> fink-buildlock-ccp4-6.2.0-102 (Reading database ... 112338 files
>>>> and directories currently installed.) Removing
>>>> fink-buildlock-ccp4-6.2.0-102 ... Reading buildlock packages...
>>> <snip>
>>>
>>>> Failed: phase compiling: ccp4-6.2.0-102 failed
>>>>
>>>> *System information* Package manager version: 0.31.2 Distribution
>>>> version: selfupdate-rsync Thu Sep 29 21:15:50 2011, 10.6, i386
>>>> Trees: local/main stable/main stable/crypto Xcode: 3.2.6
>>>>
>>>>
>>>>
>>> The incorrect source MD5 and your build failure are separate issues.
>>>
>>> We need to see a few lines more output before what you have posted.
>>> fink now builds packages using multiple threads, but one penalty for
>>> that is that a failure in one thread won't necessarily end the others.
>>> Look for an earlier error message.
>> Here are some errors:
>> ...
>>
>> g++ -dynamiclib -single_module ${wl}-undefined ${wl}dynamic_lookup -o
>> .libs/libssm.0.0.0.dylib .libs/ssm_superpose.o .libs/ss_csia.o
>> .libs/ss_vxedge.o .libs/ssm_align.o .libs/ss_graph.o
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lmmdb -lccp4c -lm
>> -install_name /sw/lib/ccp4-6.2.0/libssm.0.dylib -compatibility_version 1
>> -current_version 1.0
>> ld: library not found for -lmmdb
>> collect2: ld returned 1 exit status
>> make[1]: [libssm.la] Error 1 (ignored)
>> /bin/sh ./libtool --tag=CXX --mode=link g++ -O2
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lmmdb -lccp4c
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lccp4c -o superpose
>> superpose.o libssm.la -lm
>> gcc -DHAVE_CONFIG_H -I. -I. -I. -I. -I./../fftw -I. -O2 -DGFORTRAN
>> -DPROTOTYPE -MT fni_15.lo -MD -MP -MF .deps/fni_15.Tpo -c fni_15.c
>> -fno-common -DPIC -o .libs/fni_15.o
>> libtool: link: cannot find the library `libssm.la' or unhandled argument
>> `libssm.la'
>> make[1]: [superpose] Error 1 (ignored)
>> gcc -DHAVE_CONFIG_H -I. -I. -I. -I. -I./../fftw -I. -O2 -DGFORTRAN
>> -DPROTOTYPE -MT fni_15.lo -MD -MP -MF .deps/fni_15.Tpo -c fni_15.c -o
>> fni_15.o>/dev/null 2>&1
>> /bin/sh ./libtool --tag=CXX --mode=link g++ -O2
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lmmdb -lccp4c
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lccp4c -o libssm.la
>> -rpath /sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib ssm_superpose.lo
>> ss_csia.lo ss_vxedge.lo ssm_align.lo ss_graph.lo -lm
>> gfortran -O2 -fno-second-underscore -c ztpmv.f
>> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
>> -I. -I. -I./../fftw -I. -O2 -DGFORTRAN -DPROTOTYPE -MT fni_16.lo -MD -MP
>> -MF ".deps/fni_16.Tpo" -c -o fni_16.lo fni_16.c; \
>> then mv -f ".deps/fni_16.Tpo" ".deps/fni_16.Plo"; else rm -f
>> ".deps/fni_16.Tpo"; exit 1; fi
>> g++ -dynamiclib -single_module ${wl}-undefined ${wl}dynamic_lookup -o
>> .libs/libssm.0.0.0.dylib .libs/ssm_superpose.o .libs/ss_csia.o
>> .libs/ss_vxedge.o .libs/ssm_align.o .libs/ss_graph.o
>> -L/sw/src/fink.build/ccp4-6.2.0-102/ccp4-6.2.0/lib/src -lmmdb -lccp4c -lm
>> -install_name /sw/lib/ccp4-6.2.0/libssm.0.dylib -compatibility_version 1
>> -current_version 1.0
>> ld: library not found for -lmmdb
>> collect2: ld returned 1 exit status
>> make[1]: *** [libssm.la] Error 1
>> make: *** [ssm] Error 2
>> make: *** Waiting for unfinished jobs....
>> ( cd src; make lapackccp4)
>> gfortran -O2 -fno-second-underscore -c ztrsv.f
>> gcc -DHAVE_CONFIG_H -I. -I. -I. -I. -I./../fftw -I. -O2 -DGFORTRAN
>> -DPROTOTYPE -MT fni_16.lo -MD -MP -MF .deps/fni_16.Tpo -c fni_16.c
>> -fno-common -DPIC -o .libs/fni_16.o
>>
>> ...
>>
>>> - -- Alexander Hansen
>>> Fink User Liaison
>>> -----BEGIN PGP SIGNATURE-----
>>> Version: GnuPG v1.4.10 (Darwin)
>>> Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/
>>>
>>> iEYEARECAAYFAk6FrWgACgkQB8UpO3rKjQ8kFACfcfd/JDdQbf+2qKXNbEKTyHyY
>>> IzoAoKG6hNNrnYhBD87Exm/Dc5ayESKy
>>> =RP1M
>>> -----END PGP SIGNATURE-----
> William G. Scott
>
> Contact info:
> http://chemistry.ucsc.edu/~wgscott/
>
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