Failure to find libraries during build

[Anonymous]

I’m trying to build Rosetta 3.0 on Ubuntu 10.4. I think I’ve solved all the problems on the Ubuntu side of things, but I think I’m having a problem with the code itself now. When I run SCons, I get the following error.

/usr/bin/ld: cannot find -lz
collect2: ld returned 1 exit status
scons: *** [build/src/release/linux/2.6/32/x86/gcc/libutility.so] Error 1

From what I can gather, it goes looking for a dynamic library and I think it’s got the wrong target location. What can I do to correct the target location?

[Anonymous]

Finally! An Ubuntu build problem, not a windows problem! (I have Ubuntu, and no access to windows machines, so I’m mostly clueless on helping build on windows).

Open the package manager and install zlib1g-dev. Building rosetta needs the dev package, not just zlib1g. If your machine is 32 bit, that should be sufficient; we can modify your site.settings to include 64-bit libraries otherwise.

[Anonymous]

Thanks for your reply. It builds now, so that’s progress. I’m not sure if it’s building correctly, though. I had the following problems with the unit tests.

ERROR: Unused “free” argument specified: core.test

ERROR: Unable to open file: ./chemical/residue_type_sets/fa_standard/residue_types.txt

[Anonymous]

Those errors are indicative of a correct build that’s being run incorrectly. (You may be the first non-developer to even RUN the unit tests…they’re not really meant for the public, but they’re not worth the trouble to remove).

The second error means you’ve failed to specify a path to the database properly. It will cause the first error under some circumstances.

The “main” way to run them is from the main mini directory, type:

test/run.py -database /path/to/database

If you are trying to run just one library’s worth, navigate to build/test/a/bunch/of/folders/ until you find, say, core.test.

Then, core.test -datbase /path/to/database plus other options.

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