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test/run.py errors

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test/run.py errors
#1

When I input test/run.py on /resetta_source in rhel5.6 or 6,I all got the follow erros,
[root@localhost rosetta_source]# test/run.py -database /rosetta/rosetta_database
Identifying platform...

Platform found: debug/linux/2.6/64/x86/gcc/
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./protocols.test --database atabase
bash: ./protocols.test: No such file or directory
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./core.test --database atabase
bash: ./core.test: No such file or directory
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./ObjexxFCL.test --database atabase
Running 0 tests
All tests passed!
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./numeric.test --database atabase
bash: ./numeric.test: No such file or directory
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./utility.test --database atabase
bash: ./utility.test: No such file or directory
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./apps.test --database atabase
Running 1 test
Test suite: LigandDockTest (test/apps/public/ligand_docking/ligand_dock.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./apps.test --database atabase -run:constant_seed -run:rng mt19937 -in:file:s apps/public/ligand_docking/7cpa_7cpa_input.pdb -in:file:native apps/public/ligand_docking/7cpa_7cpa_native.pdb -out:path:pdb apps/public/ligand_docking -packing:no_optH -docking:randomize2 -docking:uniform_trans 5 -docking:ligand:start_from -1.731 32.589 -5.039 -docking:ligand:minimize_ligand -docking:ligand:harmonic_torsions 10
core.init: Constant seed mode, seed=1111111 seed_offset=0 real_seed=1111111
core.init.random: RandomGenerator:init: Normal mode, seed=1111111 RG_type=mt19937
Warning: Unable to locate database file chemical/residue_type_sets/fa_standard

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

ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 96
apps.test: src/utility/exit.cc:120: void utility::exit(const std::string&, int, const std::string&, int): Assertion `false' failed.
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./devel.test --database atabase
bash: ./devel.test: No such file or directory
Unable to read yaml file with test results build/test/debug/linux/2.6/64/x86/gcc//core.test.yaml - unit test run aborted!

Post Situation: 
Fri, 2011-04-29 06:57
kingljy

A) It appears you haven't compiled the unit tests - did you compile them with "scons mode=release cat=test"? From your other thread, you may be using MPI; you'll need to compile main Rosetta in not-MPI mode beforehand.

B) You're using the wrong database flag; it's just -d. (This may be wrong in the documentation, try test/run.py -help). You may also need the --mode="release" flag if you compile the tests in release mode.

Fri, 2011-04-29 08:22
smlewis

Hi,thank you for your quick reply by email and forum,this is my intall steps after you suggested,
1.scons bin -j8 #debug version
2.scons mode=release cat=test -j8
3.python test/run.py -d /rosetta/rosetta_database
4.scons bin mode=release -j8 #release version
but in 2,I also got some errors:
[root@localhost rosetta_source]# scons mode=release cat=test -j8
scons: Reading SConscript files ...
svn: “.”Not working copy

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File "/rosetta/rosetta_source/SConscript", line 40, in
scons: done reading SConscript files.
scons: Building targets ...
g++ -o build/test/release/linux/2.6/64/x86/gcc/ObjexxFCL.test -Wl,-rpath=/rosetta/rosetta_source/build/src/release/linux/2.6/64/x86/gcc/ build/test/release/linux/2.6/64/x86/gcc/ObjexxFCL/ObjexxFCL.cxxtest.o -Llib -Lexternal/lib -Lbuild/src/release/linux/2.6/64/x86/gcc -L/usr/local/lib -L/usr/lib -lObjexxFCL
/usr/bin/ld: cannot find -lObjexxFCL
collect2: ld returned 1 exit status
g++ -o build/test/release/linux/2.6/64/x86/gcc/apps.test -Wl,-rpath=/rosetta/rosetta_source/build/src/release/linux/2.6/64/x86/gcc/ build/test/release/linux/2.6/64/x86/gcc/apps/public/ligand_docking/ligand_dock.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/apps/apps.cxxtest.o -Llib -Lexternal/lib -Lbuild/src/release/linux/2.6/64/x86/gcc -L/usr/local/lib -L/usr/lib -lprotocols -lcore -lutility -lnumeric -lObjexxFCL -lz
/usr/bin/ld: cannot find -lprotocols
collect2: ld returned 1 exit status
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/fragment/OrderedFragSet.cxxtest.cpp test/core/fragment/OrderedFragSet.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/fragment/picking/FragmentCandidatesTests.cxxtest.cpp test/core/fragment/picking/FragmentCandidatesTests.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/fragment/picking/TorsionBinIO.cxxtest.cpp test/core/fragment/picking/TorsionBinIO.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/fragment/picking/vall/vall.cxxtest.cpp test/core/fragment/picking/vall/vall.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/graph/ArrayPool.cxxtest.cpp test/core/graph/ArrayPool.cxxtest.hh
scons: *** [build/test/release/linux/2.6/64/x86/gcc/ObjexxFCL.test] Error 1
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/graph/DisjointSets.cxxtest.cpp test/core/graph/DisjointSets.cxxtest.hh
scons: *** [build/test/release/linux/2.6/64/x86/gcc/apps.test] Error 1
scons: building terminated because of errors.

Fri, 2011-04-29 09:41
kingljy

You have to compile the unit tests with the same settings you compile the Rosetta library with.

Either:

scons -j8 bin
scons -j8 cat=test

Or:

scons -j8 mode=release bin
scons -j8 cat=test mode=release

Your step 2 (release tests) will fail if you haven't built the release mode libraries yet.

Fri, 2011-04-29 11:23
rmoretti

Thank you,I also have a question,in which directory the commands "scons -j8 mode=release bin
and scons -j8 cat=test mode=release" were used,do the unit tests must be run the command "scons -j8 mode=release bin" on the directory /rosetta/rosetta_source first?

Fri, 2011-04-29 12:30
kingljy

You should run both the "scons -j8 mode=release bin" and the "scons -j8 cat=test mode=release" in the root directory of the Rosetta installation (the one with the src/ and test/ subdirectories).

Unfortunately, the "cat=test" builds aren't smart enough to know about rebuilding the Rosetta library, so you always have to run the equivalent without-"cat=test" scons command *before* you run the with-"cat=test" build command.

Sat, 2011-04-30 12:44
rmoretti

I deleted the main rosetta folder,and reinstall it again,
First,run "scons -j8 mode=release bin" command in /rosetta/rosetta_source directory,it looks like passed.

Second,run "scons -j8 cat=test mode=release" also in /rosetta/rosetta_source directory,it got a error in the last part:
...
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.cpp
scons: *** [build/test/release/linux/2.6/64/x86/gcc/devel/devel.cxxtest.cpp] Source `test/devel/devel.cxxtest.hh' not found, needed by target `build/test/release/linux/2.6/64/x86/gcc/devel/devel.cxxtest.cpp'.
scons: building terminated because of errors.

Third,run "python test/run.py -d /rosetta/rosetta_database" also in /rosetta/rosetta_source directory,it got a error:
[root@localhost rosetta_source]# python test/run.py -d /rosetta/rosetta_database
Identifying platform...

Platform found: debug/linux/2.6/64/x86/gcc/
Paths: cd build/test/debug/linux/2.6/64/x86/gcc/ && command line: ./protocols.test --database /rosetta/rosetta_database
/bin/sh: line 0: cd: build/test/debug/linux/2.6/64/x86/gcc/: No such file or directory
Traceback (most recent call last):
File "test/run.py", line 321, in
if __name__ == "__main__": main(sys.argv)
File "test/run.py", line 314, in main
T.runUnitTests()
File "test/run.py", line 177, in runUnitTests
self.runOneLibUnitTests(platform, lib, yaml_file, log_file)
File "test/run.py", line 151, in runOneLibUnitTests
f = open(log_file, 'w'); f.write(output); f.close()
IOError: [Errno 2] No such file or directory: 'build/test/debug/linux/2.6/64/x86/gcc//protocols.test.log'

How should I do to solve the errors above?

Fri, 2011-04-29 12:56
kingljy

You still need "--mode=release" on your test.py command line. Try "test/run.py -help" for the list of exactly how to phrase it.

Fri, 2011-04-29 15:57
smlewis

smlewis,thank you ,I added "--mode=release" flag in test/run.py,but I also got the error,
[root@localhost rosetta_source]# test/run.py -d /rosetta/rosetta_database -j8 --mode=release
Identifying platform...

Platform found: release/linux/2.6/64/x86/gcc/
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./protocols.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./core.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./ObjexxFCL.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./numeric.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./utility.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./apps.test --database /rosetta/rosetta_database
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./devel.test --database /rosetta/rosetta_database
bash: ./core.test: 没有那个文件或目录
Running 0 tests
All tests passed!
bash: ./protocols.test: No such file or directory
Running 1 test
Test suite: LigandDockTest (test/apps/public/ligand_docking/ligand_dock.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./apps.test --database /rosetta/rosetta_database -run:constant_seed -run:rng mt19937 -in:file:s apps/public/ligand_docking/7cpa_7cpa_input.pdb -in:file:native apps/public/ligand_docking/7cpa_7cpa_native.pdb -out:path:pdb apps/public/ligand_docking -packing:no_optH -docking:randomize2 -docking:uniform_trans 5 -docking:ligand:start_from -1.731 32.589 -5.039 -docking:ligand:minimize_ligand -docking:ligand:harmonic_torsions 10
core.init: Constant seed mode, seed=1111111 seed_offset=0 real_seed=1111111
core.init.random: RandomGenerator:init: Normal mode, seed=1111111 RG_type=mt19937
core.scoring.dunbrack.SingleLigandRotamerLibrary: Read in 10 rotamers for CP1!
core.scoring.dunbrack: Dunbrack library took 0.12 seconds to load from binary
Warning: No AA record found for AQ1; assuming UNK
core.pack.task: Packer task: initialize from command line()
All tests passed!
bash: ./devel.test: No such file or directory
bash: ./utility.test: No such file or directory
bash: ./numeric.test: No such file or directory
Unable to read yaml file with test results build/test/release/linux/2.6/64/x86/gcc//core.test.yaml - unit test run aborted!

Fri, 2011-04-29 18:53
kingljy

It is still reporting that your test binaries are missing. Show me your compile command for testing (should resemble 'python scons.py cat=test mode=release' and its output.

Sat, 2011-04-30 16:38
smlewis

Hi,smlewis,when I input "python scons.py -j8 cat=test mode=release",it showed me that:
al.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/UnfoldedStatePotential.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.cpp test/core/scoring/VirtualResidues.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.cpp test/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.cpp test/core/scoring/constraints/AngleConstraint.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.cpp test/core/scoring/constraints/AtomPairConstraint.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.cpp test/core/scoring/constraints/BigBinConstraint.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.cpp test/core/scoring/constraints/ConstraintSetRemapping.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.cpp test/core/scoring/constraints/ConstraintsEnergy.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.cpp test/core/scoring/constraints/DihedralConstraint.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.cpp
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.cpp test/core/scoring/constraints/GaussianFunc.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.cpp test/core/scoring/constraints/HarmonicFunc.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.cpp test/core/scoring/constraints/SplineFunc.cxxtest.hh
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.cpp test/core/scoring/constraints/util.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.cpp
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.cpp test/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.cpp test/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.cpp test/core/scoring/dunbrack/Dunbrack.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.cpp test/core/scoring/etable/EtableEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.cpp test/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.cpp test/core/scoring/hackelec/HackElecEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.cpp test/core/scoring/hbonds/HBondDatabaseTest.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.cpp test/core/scoring/hbonds/HBondDerivTest.cxxtest.hh

scons: warning: Ignoring corrupt sconsign entry : src/numeric/deriv (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.cpp test/core/scoring/hbonds/HBondEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.cpp test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh

scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/iterator/detail (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in

scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/iterator (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in

scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/preprocessor/seq (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in

scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/preprocessor/seq/detail (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.cpp test/core/scoring/hbonds/HBonds.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.cpp test/core/scoring/hbonds/polynomial.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.cpp test/core/scoring/methods/ChainbreakEnergy.cxxtest.hh
./test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh: In member function 'void HBondFadeIntervalTest::doubleprint(std::ostream&, double)':
./test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh:381: warning: dereferencing type-punned pointer will break strict-aliasing rules
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.cpp test/core/scoring/methods/ContactOrderEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.cpp test/core/scoring/methods/LinearChainbreakEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.cpp test/core/scoring/methods/MMBondAngleEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.cpp test/core/scoring/methods/MMTorsionEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.cpp test/core/scoring/methods/P_AA_Energy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.cpp test/core/scoring/methods/P_AA_pp_Energy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.cpp test/core/scoring/methods/PairEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.cpp test/core/scoring/methods/ProClosureEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.cpp test/core/scoring/methods/RG_Energy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.cpp test/core/scoring/methods/RamachandranEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.cpp test/core/scoring/methods/UnfoldedStateEnergy.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.cpp test/core/scoring/rms_util.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.cpp test/core/scoring/sasa.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.cpp test/core/scoring/symmetry/SymmetricScoreTest.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.cpp test/core/sequence/ScoringSchemes.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.cpp test/core/sequence/SequenceAlignment.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.cpp test/core/sequence/SequenceMapping.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.cpp test/core/sequence/SequenceUtil.cxxtest.hh
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.cpp
external/cxxtest/cxxtestgen.py --have-std --part -o build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.cpp test/core/util/MetricValueIO.cxxtest.hh

scons: warning: Ignoring corrupt sconsign entry : src/utility/tools (('object.__new__(X): X is not a type object (classobj)', , (, , None)))

File "scons.py", line 162, in
g++ -o build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.cpp
scons: *** Source `test/devel/devel.cxxtest.hh' not found, needed by target `build/test/release/linux/2.6/64/x86/gcc/devel/devel.cxxtest.cpp'. Stop.
scons: building terminated because of errors.

Sun, 2011-05-01 00:49
kingljy

This is the problem:

"scons: *** Source `test/devel/devel.cxxtest.hh' not found, needed by target `build/test/release/linux/2.6/64/x86/gcc/devel/devel.cxxtest.cpp'. Stop."

And this describes the solution:
http://www.rosettacommons.org/content/rosetta-321-centos-5-x8664-gcc-sco...

Sun, 2011-05-01 18:04
smlewis

Hi,smlewis,thank you very much,it seems to be working well,
when I run "scons -j8 cat=test mode=release"
...
/gcc/utility/keys/SmallKeyVector.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/keys/UserKey.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/factory/Factory.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/signals/BufferedSignalHub.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/signals/PausableSignalHub.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/signals/SignalHub.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/signals/TokenHub.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/io/izstream.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/io/zipstream.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/pointer/access_ptr.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/pointer/owning_ptr.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/pointer/owning_ptr_MI.cxxtest.o build/test/release/linux/2.6/64/x86/gcc/utility/utility.cxxtest.o -Llib -Lexternal/lib -Lbuild/src/release/linux/2.6/64/x86/gcc -L/usr/local/lib -L/usr/lib -lutility -lObjexxFCL -lz
/usr/bin/ld: skipping incompatible /usr/lib/libz.so when searching for -lz
/usr/bin/ld: skipping incompatible /usr/lib/libz.a when searching for -lz
/usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libc.so when searching for -lc
/usr/bin/ld: skipping incompatible /usr/lib/libc.a when searching for -lc
Copy("build/test/release/linux/2.6/64/x86/gcc//utility/io/no_final_newline.txt", "test/utility/io/no_final_newline.txt")
scons: done building targets.
when I run "test/run.py -d /rosetta/rosetta_database -j8 --mode=release"
...
0.81 0.00 0.89 -0.04 0.29
protocols.moves.ScoreMover: E(i) 97 -3.95 1.86 1.68 1.36 4.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -0.15 0.08 1.67 -1.91 0.02
protocols.moves.ScoreMover: E(i) 98 -5.37 0.89 1.33 0.83 3.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.88 0.06 2.50 1.41 0.02
protocols.moves.ScoreMover: E(i) 99 -4.05 2.25 2.56 2.00 0.00 -0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.06 0.15 2.73 -0.01 0.56
protocols.moves.ScoreMover: E(i) 100 -3.98 0.95 2.08 1.10 0.00 -0.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -0.53 0.11 5.70 -0.16 -0.65
protocols.moves.ScoreMover: E(i) 101 -8.48 1.23 3.58 6.95 0.00 0.00 0.00 0.00 -0.02 0.00 0.00 0.00 0.00 0.00 -0.70 0.04 3.28 0.40 0.51
protocols.moves.ScoreMover: E(i) 102 -9.33 12.62 7.73 11.00 0.00 -0.64 0.00 0.00 -0.64 0.00 0.00 0.00 0.00 0.00 -0.97 0.21 28.26 -0.25 -0.98
protocols.moves.ScoreMover: E(i) 103 -3.38 0.71 2.00 2.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.91 0.00 13.82 -0.13 -0.34
protocols.moves.ScoreMover: E(i) 104 -3.75 2.57 3.71 1.53 0.00 0.00 0.00 0.00 0.00 -0.03 0.00 0.00 0.00 0.00 0.25 0.16 2.64 -0.27 -0.27
protocols.moves.ScoreMover: E(i) 105 -1.71 1.96 1.65 0.60 0.00 -0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.98 0.15 4.67 0.12 -0.89
protocols.moves.ScoreMover: E(i) 106 -1.12 0.70 0.88 0.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.69 0.17 15.76 0.35 -0.34
protocols.moves.ScoreMover: E(i) 107 -3.19 2.10 2.60 1.10 0.00 -0.03 0.00 0.00 0.00 -0.03 0.00 0.00 0.00 0.00 0.93 0.18 12.99 0.09 -0.97
protocols.moves.ScoreMover: E(i) 108 -1.64 3.57 1.35 0.00 0.00 0.00 0.00 0.00 -0.02 0.00 0.00 0.00 0.00 0.00 0.96 0.07 0.00 -1.81 -0.17
protocols.moves.ScoreMover: E(i) 109 -3.39 1.11 2.04 2.51 0.00 -0.25 0.00 0.00 0.00 -0.06 0.00 0.00 0.00 0.00 -0.33 0.04 8.40 -0.36 -0.81
protocols.moves.ScoreMover: E(i) 110 -2.44 4.82 1.86 0.33 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.92 0.10 0.71 -0.06 -0.37
protocols.moves.ScoreMover: E(i) 111 -4.96 0.84 4.32 2.92 0.00 -0.23 0.00 0.00 -0.37 -0.43 0.00 0.00 0.00 0.00 0.95 0.00 9.82 1.03 -0.98
protocols.moves.ScoreMover: E(i) 112 -7.51 1.30 3.66 6.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -1.40 0.50 3.29 0.11 0.63
protocols.moves.ScoreMover: E(i) 113 -5.13 3.06 3.32 2.21 0.00 0.00 0.00 0.00 -0.66 0.00 0.00 0.00 0.00 0.00 -0.41 0.02 3.32 -0.41 -0.10
protocols.moves.ScoreMover: E(i) 114 -4.08 1.79 3.13 0.89 2.31 -0.34 0.00 0.00 0.00 -0.06 0.00 0.00 0.00 0.00 -0.41 0.05 2.40 0.05 0.56
protocols.moves.ScoreMover: E(i) 115 -4.30 5.97 3.04 0.77 2.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 20.00 0.00 5.13 -2.81 0.02
protocols.moves.ScoreMover: E(i) 116 -2.97 5.88 2.66 2.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 18.19 0.00 -0.10
protocols.moves.ScoreMover: total_energy fa_atr -605.070
protocols.moves.ScoreMover: total_energy fa_rep 821.455
protocols.moves.ScoreMover: total_energy fa_sol 385.544
protocols.moves.ScoreMover: total_energy fa_intra_rep 531.407
protocols.moves.ScoreMover: total_energy pro_close 17.217
protocols.moves.ScoreMover: total_energy fa_pair -21.232
protocols.moves.ScoreMover: total_energy hbond_sr_bb -63.928
protocols.moves.ScoreMover: total_energy hbond_lr_bb -1.274
protocols.moves.ScoreMover: total_energy hbond_bb_sc -6.158
protocols.moves.ScoreMover: total_energy hbond_sc -1.953
protocols.moves.ScoreMover: total_energy dslf_ss_dst 0.000
protocols.moves.ScoreMover: total_energy dslf_cs_ang 0.000
protocols.moves.ScoreMover: total_energy dslf_ss_dih 0.000
protocols.moves.ScoreMover: total_energy dslf_ca_dih 0.000
protocols.moves.ScoreMover: total_energy rama 127.207
protocols.moves.ScoreMover: total_energy omega 10.675
protocols.moves.ScoreMover: total_energy fa_dun 829.572
protocols.moves.ScoreMover: total_energy p_aa_pp -30.636
protocols.moves.ScoreMover: total_energy ref -30.360
protocols.moves.ScoreMover: dslf_ca_dih dslf_cs_ang dslf_ss_dih dslf_ss_dst fa_atr fa_dun fa_intra_rep fa_pair fa_rep fa_sol hbond_bb_sc hbond_lr_bb hbond_sc hbond_sr_bb omega p_aa_pp pro_close rama ref total_score
protocols.moves.ScoreMover: 0.000 0.000 0.000 0.000 -484.056 464.560 2.126 -10.404 361.440 250.604 -7.204 -1.490 -2.149 -37.398 5.337 -9.804 17.217 25.441 -30.360 543.861
protocols.moves.ScoreMover: ------------------------------------------------------------
Scores Weight Raw Score Wghtd.Score
------------------------------------------------------------
fa_atr 0.800 -605.070 -484.056
fa_rep 0.440 821.455 361.440
fa_sol 0.650 385.544 250.604
fa_intra_rep 0.004 531.407 2.126
pro_close 1.000 17.217 17.217
fa_pair 0.490 -21.232 -10.404
hbond_sr_bb 0.585 -63.928 -37.398
hbond_lr_bb 1.170 -1.274 -1.490
hbond_bb_sc 1.170 -6.158 -7.204
hbond_sc 1.100 -1.953 -2.149
dslf_ss_dst 0.500 0.000 0.000
dslf_cs_ang 2.000 0.000 0.000
dslf_ss_dih 5.000 0.000 0.000
dslf_ca_dih 5.000 0.000 0.000
rama 0.200 127.207 25.441
omega 0.500 10.675 5.337
fa_dun 0.560 829.572 464.560
p_aa_pp 0.320 -30.636 -9.804
ref 1.000 -30.360 -30.360
---------------------------------------------------
Total weighted score: 543.861

End Scoring -score:patch score12 test
End Scoring tests
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
Test suite: RigidBodyMoverTests (test/protocols/moves/RigidBodyMover.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
protocols.moves.RigidBodyMover: Randomize: Jump (before): RT -0.741525 0.289074 0.605456 -0.643594 -0.561425 -0.520182 0.189547 -0.775396 0.602357 -17.8087 -14.756 0.651526
protocols.moves.RigidBodyMover: Randomize: Rot (before): 43.5465 33.1704 32.848
protocols.geometry.RB_geometry: random_reorientation_matrix phi: 7.31801 psi: 22.3378 theta: 149.67
protocols.moves.RigidBodyMover: Randomize: Jump (after): RT 0.344677 -0.744406 0.571889 0.93802 0.249584 -0.24047 0.0362735 0.619328 0.784294 -20.0674 -11.9204 4.27313
protocols.moves.RigidBodyMover: Randomize: Rot (after): 43.5465 33.1704 32.848
protocols.moves.RigidBodyMover: Randomize: ---
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
protocols.moves.RigidBodyMover: Spin: Jump (before): RT -0.741525 0.289074 0.605456 -0.643594 -0.561425 -0.520182 0.189547 -0.775396 0.602357 -17.8087 -14.756 0.651526
protocols.moves.RigidBodyMover: Spin: Rot (before: 43.5465 33.1704 32.848
protocols.moves.RigidBodyMover: Spin: Jump (after): RT -0.834199 0.421317 -0.355815 -0.502856 -0.316281 0.804427 0.22638 0.849976 0.475703 -18.0229 -13.3583 4.77134
protocols.moves.RigidBodyMover: Spin: Rot (after): 43.5465 33.1704 32.848
protocols.moves.RigidBodyMover: Spin: ---
core.init: Mini-Rosetta version 已导出 from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue CYS_p:CtermProteinFull 301
core.conformation.Conformation: Found disulfide between residues 1 122
core.conformation.Conformation: current variant for 1 CYS
core.conformation.Conformation: current variant for 122 CYS
core.conformation.Conformation: current variant for 1 CYD
core.conformation.Conformation: current variant for 122 CYD
core.conformation.Conformation: Found disulfide between residues 42 58
core.conformation.Conformation: current variant for 42 CYS
core.conformation.Conformation: current variant for 58 CYS
core.conformation.Conformation: current variant for 42 CYD
core.conformation.Conformation: current variant for 58 CYD
core.conformation.Conformation: Found disulfide between residues 136 201
core.conformation.Conformation: current variant for 136 CYS
core.conformation.Conformation: current variant for 201 CYS
core.conformation.Conformation: current variant for 136 CYD
core.conformation.Conformation: current variant for 201 CYD
core.conformation.Conformation: Found disulfide between residues 168 182
core.conformation.Conformation: current variant for 168 CYS
core.conformation.Conformation: current variant for 182 CYS
core.conformation.Conformation: current variant for 168 CYD
core.conformation.Conformation: current variant for 182 CYD
core.conformation.Conformation: Found disulfide between residues 191 220
core.conformation.Conformation: current variant for 191 CYS
core.conformation.Conformation: current variant for 220 CYS
core.conformation.Conformation: current variant for 191 CYD
core.conformation.Conformation: current variant for 220 CYD
core.conformation.Conformation: Found disulfide between residues 254 283
core.conformation.Conformation: current variant for 254 CYS
core.conformation.Conformation: current variant for 283 CYS
core.conformation.Conformation: current variant for 254 CYD
core.conformation.Conformation: current variant for 283 CYD
core.conformation.Conformation: Found disulfide between residues 261 280
core.conformation.Conformation: current variant for 261 CYS
core.conformation.Conformation: current variant for 280 CYS
core.conformation.Conformation: current variant for 261 CYD
core.conformation.Conformation: current variant for 280 CYD
core.conformation.Conformation: Found disulfide between residues 269 301
core.conformation.Conformation: current variant for 269 CYS
core.conformation.Conformation: current variant for 301 CYS
core.conformation.Conformation: current variant for 269 CYD
core.conformation.Conformation: current variant for 301 CYD
core.pack.task: Packer task: initialize from command line()
protocols.moves.RigidBodyMover: Translate: Jump (before): RT -0.741525 0.289074 0.605456 -0.643594 -0.561425 -0.520182 0.189547 -0.775396 0.602357 -17.8087 -14.756 0.651526
protocols.moves.RigidBodyMover: Translate: Jump (after): RT -0.741525 0.289074 0.605456 -0.643594 -0.561425 -0.520182 0.189547 -0.775396 0.602357 -18.6155 -15.327 0.803288
Test suite: MoversTest (test/protocols/moves/MoversTest.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database -no_optH
Testing: SmallMover...
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue LEU_p:CtermProteinFull 116
core.pack.task: Packer task: initialize from command line()
End SmallMover test
Testing: ShearMover...
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue LEU_p:CtermProteinFull 116
core.pack.task: Packer task: initialize from command line()
End ShearMover test
Test suite: ContainerMoversTest (test/protocols/moves/MoverContainer.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
Test suite: BackrubMoverTest (test/protocols/moves/BackrubMover.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.conformation.Conformation: [ WARNING ] missing heavyatom: OXT on residue LEU_p:CtermProteinFull 116
core.pack.task: Packer task: initialize from command line()
protocols.moves.BackrubMover.cxxtest: Attempting 3 residue segment
protocols.moves.BackrubMover.cxxtest: Attempting 3 residue segment (reversed)
protocols.moves.BackrubMover.cxxtest: Attempting 2 residue segment
protocols.moves.BackrubMover.cxxtest: Attempting 3 atom segment
protocols.moves.BackrubMover.cxxtest: Attempting 3 residue segment (duplicate)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 2 rsd= 2 to atomno= 2 rsd= 4 already exists, ignoring
protocols.moves.BackrubMover.cxxtest: Attempting 3 residue segment (invalid)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 7 rsd= 1 to atomno= 2 rsd= 3 invalid, ignoring
protocols.moves.BackrubMover.cxxtest: Attempting 2 atom segment (short)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 2 rsd= 1 to atomno= 3 rsd= 1 too short, ignoring
protocols.moves.BackrubMover.cxxtest: Attempting 2 atom segment (short, reversed)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 3 rsd= 1 to atomno= 2 rsd= 1 too short, ignoring
protocols.moves.BackrubMover.cxxtest: Attempting 1 atom segment (ultra short)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 3 rsd= 1 to atomno= 3 rsd= 1 too short, ignoring
protocols.moves.BackrubMover.cxxtest: Attempting 2 residue segment (N atoms)
protocols.moves.BackrubMover: Warning: Backrub segment atomno= 1 rsd= 1 to atomno= 1 rsd= 2 invalid, ignoring
protocols.moves.BackrubMover.cxxtest: Rotating segment 1
protocols.moves.BackrubMover.cxxtest: Rotating lysine side chain segment
core.io.database: Database file opened: /rosetta/rosetta_database/branch_angle/branch_angle_1.txt
core.io.database: Database file opened: /rosetta/rosetta_database/branch_angle/branch_angle_2.txt
Test suite: TorsionSamplingKinematicPerturberTests (test/protocols/moves/kinematic_closure/TorsionSamplingKinematicPerturber.cxxtest.hh)
core.init: Mini-Rosetta version Exported from unknown
core.init: command: ./protocols.test --database /rosetta/rosetta_database
core.pack.task: Packer task: initialize from command line()
All tests passed!
Unable to read yaml file with test results build/test/release/linux/2.6/64/x86/gcc//devel.test.yaml - unit test run aborted!

Tue, 2011-05-03 01:23
kingljy

You can run it with --mute-"all" to get rid of the Rosetta output and only see the testing output.

You can modify this line:
UnitTestExecutable = ["protocols.test", "core.test", "ObjexxFCL.test", "numeric.test", "utility.test", "apps.test", "devel.test"]

by removing devel.test to make it stop complaining about the absence of devel.

Tue, 2011-05-03 06:32
smlewis

Hi smlewis,
I have done according to your suggestions,it showed me that follow,it's ok now?
[root@localhost rosetta_source]# test/run.py -d /rosetta/rosetta_database -j8 --mode=release --mute all
Identifying platform...

Platform found: release/linux/2.6/64/x86/gcc/
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./protocols.test --database /rosetta/rosetta_database -mute all
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./core.test --database /rosetta/rosetta_database -mute all
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./ObjexxFCL.test --database /rosetta/rosetta_database -mute all
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./numeric.test --database /rosetta/rosetta_database -mute all
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./utility.test --database /rosetta/rosetta_database -mute all
Paths: cd build/test/release/linux/2.6/64/x86/gcc/ && command line: ./apps.test --database /rosetta/rosetta_database -mute all
Running 0 tests
All tests passed!
Running 82 tests
Test suite: HistogramTests (test/numeric/interpolation/Histogram.cxxtest.hh)
Test suite: FFTTests (test/numeric/fourier/fft.cxxtest.hh)
Test suite: Cubic_spline_tests (test/numeric/interpolation/spline/Cubic_spline.cxxtest.hh)
Test suite: Bicubic_spline_tests (test/numeric/interpolation/spline/Bicubic_spline.cxxtest.hh)
Test suite: WeightedSamplerTests (test/numeric/random/WeightedSampler.cxxtest.hh)
Test suite: ReservoirSamplingTests (test/numeric/random/reservoir_sample.cxxtest.hh)
Test suite: BoundingBoxTests (test/numeric/geometry/BoundingBox.cxxtest.hh)
Test suite: KDTreeTests (test/numeric/kdtree/kdtree.cxxtest.hh)
Test suite: agglomerative_hierarchical_clusteringTest (test/numeric/agglomerative_hierarchical_clustering.cxxtest.hh)
Test suite: ClusteringTreeNodeTest (test/numeric/ClusteringTreeNode.cxxtest.hh)

Test suite: XYZVectorTests (test/numeric/xyzVector.cxxtest.hh)
Test suite: XYZTripleTests (test/numeric/xyzTriple.cxxtest.hh)
Test suite: XYZMatrixTests (test/numeric/xyzMatrix.cxxtest.hh)
Test suite: XYZFunctionsTests (test/numeric/xyz.functions.cxxtest.hh)
Test suite: RandomSystemTests (test/numeric/random.cxxtest.hh)
Test suite: QuaternionTests (test/numeric/Quaternion.cxxtest.hh)
Test suite: StatisticsFunctionsTests (test/numeric/statistics.functions.cxxtest.hh)
Test suite: NumericFunctionsTests (test/numeric/numeric.functions.cxxtest.hh)
Test suite: MultiDimensionalHistogramTests (test/numeric/MultiDimensionalHistogram.cxxtest.hh)
Test suite: HomogenousTransformTests (test/numeric/HomogeneousTransform.cxxtest.hh)
Test suite: ConversionsTests (test/numeric/conversions.cxxtest.hh)
Test suite: NumericUtilTests (test/numeric/util.cxxtest.hh)
All tests passed!
Running 1 test
Test suite: LigandDockTest (test/apps/public/ligand_docking/ligand_dock.cxxtest.hh)
All tests passed!
Running 113 tests
Test suite: OwningPtrMITests (test/utility/pointer/owning_ptr_MI.cxxtest.hh)
Test suite: OwningPtrTests (test/utility/pointer/owning_ptr.cxxtest.hh)
Test suite: AccessPtrTests (test/utility/pointer/access_ptr.cxxtest.hh)
Test suite: ZipStreamTests (test/utility/io/zipstream.cxxtest.hh)

Test Line 1
Test Line 2
Test suite: IZStreamTests (test/utility/io/izstream.cxxtest.hh)
Test suite: TokenHubTests (test/utility/signals/TokenHub.cxxtest.hh)
Test suite: SignalHubTests (test/utility/signals/SignalHub.cxxtest.hh)
Test suite: PausableSignalHubTests (test/utility/signals/PausableSignalHub.cxxtest.hh)
Test suite: BufferedSignalHubTests (test/utility/signals/BufferedSignalHub.cxxtest.hh)
Test suite: FactoryTests (test/utility/factory/Factory.cxxtest.hh)
Test suite: UserKeyTests (test/utility/keys/UserKey.cxxtest.hh)
Test suite: SmallKeyVectorTests (test/utility/keys/SmallKeyVector.cxxtest.hh)
Test suite: SmallKeyMapTests (test/utility/keys/SmallKeyMap.cxxtest.hh)
Test suite: Key4VectorTests (test/utility/keys/Key4Vector.cxxtest.hh)
Test suite: Key4TupleTests (test/utility/keys/Key4Tuple.cxxtest.hh)
Test suite: KeyVectorTests (test/utility/keys/ClassKeyVector.cxxtest.hh)
Test suite: KeyMapTests (test/utility/keys/ClassKeyMap.cxxtest.hh)
Test suite: AutoKeyTests (test/utility/keys/AutoKey.cxxtest.hh)
Test suite: PathNameTests (test/utility/file/PathName.cxxtest.hh)
Test suite: FileSysUtilTests (test/utility/file/file_sys_util.cxxtest.hh)
Test suite: Sqlite3ConnectionManagerTests (test/utility/sql_database/Sqlite3ConnectionManager.cxxtest.hh)
Test suite: StringUtilTests (test/utility/string_util.cxxtest.hh)
Test suite: VectorLTests (test/utility/vectorL.cxxtest.hh)
Test suite: Vector1BoolTests (test/utility/vector1_bool.cxxtest.hh)
Test suite: Vector1_Tests (test/utility/vector1.cxxtest.hh)
Test suite: Vector0Tests (test/utility/vector0.cxxtest.hh)
Test suite: UToolsTests (test/utility/UTools.cxxtest.hh)
Test suite: OrderedTupleTests (test/utility/OrderedTuple.cxxtest.hh)
Test suite: LexicographicalIteratorTests (test/utility/LexicographicalIterator.cxxtest.hh)
Test suite: integer_mappingTests (test/utility/integer_mapping.cxxtest.hh)
Test suite: in_place_listTests (test/utility/in_place_list.cxxtest.hh)
Test suite: heapTests (test/utility/heap.cxxtest.hh)
Test suite: BitVectorTests (test/utility/BitVector.cxxtest.hh)
Test suite: BitSetTests (test/utility/BitSet.cxxtest.hh)
All tests passed!
Running 311 tests
Test suite: rtmin_setup_Tests (test/core/pack/scmin/rtmin_setup.cxxtest.hh)
Test suite: SCMinMultifuncTests (test/core/pack/scmin/SCMinMultifunc.cxxtest.hh)
Test suite: SCMinMinimizerMapTests (test/core/pack/scmin/SCMinMinimizerMap.cxxtest.hh)
Test suite: AtomTreeCollectionTests (test/core/pack/scmin/AtomTreeCollection.cxxtest.hh)
Test suite: RotamerSubsetsTest (test/core/pack/rotamer_set/RotamerSubsets.cxxtest.hh)
Test suite: RotamerSetsTests (test/core/pack/rotamer_set/RotamerSet.cxxtest.hh)
Test suite: TaskOperationsTests (test/core/pack/task/operation/TaskOperations.cxxtest.hh)
Test suite: Resfile_Silent (test/core/pack/task/Resfile_Silent.cxxtest.hh)
Test suite: FixHisTautomerTest (test/core/pack/task/fix_his_tautomer.cxxtest.hh)
Test suite: ResfileReaderTests (test/core/pack/task/ResfileReader.cxxtest.hh)
Test suite: SymmetricRotamerTrials (test/core/pack/SymmetricRotamerTrials.cxxtest.hh)
Test suite: RotamerTrials (test/core/pack/RotamerTrials.cxxtest.hh)
Test suite: min_pack_Tests (test/core/pack/min_pack.cxxtest.hh)
Test suite: InteractionGraphFactoryTests (test/core/pack/interaction_graph/InteractionGraphFactory.cxxtest.hh)
~DoubleLazyIG: used 0 bytes instead of 0
~DoubleLazyIG: used 0 bytes instead of 0
Test suite: RotamerDotsTests (test/core/pack/interaction_graph/RotamerDots.cxxtest.hh)
Test suite: HPatchInteractionGraphTests (test/core/pack/interaction_graph/HPatchInteractionGraph.cxxtest.hh)
Test suite: SurfaceInteractionGraphTests (test/core/pack/interaction_graph/SurfaceInteractionGraph.cxxtest.hh)
Test suite: FASTERInteractionGraphTests (test/core/pack/interaction_graph/FASTERInteractionGraph.cxxtest.hh)
Test suite: FASTERAnnealerTests (test/core/pack/annealer/FASTERAnnealer.cxxtest.hh)
Test suite: DunbrackTest (test/core/scoring/dunbrack/Dunbrack.cxxtest.hh)

In DunbrackTest::test_dunbrack_best_rotamer_energy:
./test/core/scoring/dunbrack/Dunbrack.cxxtest.hh:219: Error: Assertion failed: best_rotamerE <= this_rotamerE
./test/core/scoring/dunbrack/Dunbrack.cxxtest.hh:219: Error: Assertion failed: best_rotamerE <= this_rotamerE
./test/core/scoring/dunbrack/Dunbrack.cxxtest.hh:219: Error: Assertion failed: best_rotamerE <= this_rotamerE
CXXTEST_ERROR: test_dunbrack_best_rotamer_energy Failed!
Test suite: FullatomCustomPairDistanceEnergyTests (test/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.hh)
Test suite: ParticleSwarmMinimizerTests (test/core/optimization/ParticleSwarmMinimizer.cxxtest.hh)
Test suite: MinimizerTests (test/core/optimization/Minimizer.cxxtest.hh)
Test suite: CarbonHBondEnergyTests (test/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.hh)
Test suite: HackElecEnergyTests (test/core/scoring/hackelec/HackElecEnergy.cxxtest.hh)
Test suite: MMTorsionScoreTests (test/core/mm/MMTorsionScore.cxxtest.hh)
Test suite: MMTorsionLibraryTests (test/core/mm/MMTorsionLibrary.cxxtest.hh)
Test suite: MMBondAngleScoreTests (test/core/mm/MMBondAngleScore.cxxtest.hh)
Test suite: MMBondAngleLibraryTests (test/core/mm/MMBondAngleLibrary.cxxtest.hh)
Test suite: GeometricSolEnergyTests (test/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.hh)
Test suite: SplineFuncTests (test/core/scoring/constraints/SplineFunc.cxxtest.hh)
Test suite: ConstraintUtilTests (test/core/scoring/constraints/util.cxxtest.hh)
Test suite: GaussianFuncTests (test/core/scoring/constraints/GaussianFunc.cxxtest.hh)
Test suite: HarmonicFuncTests (test/core/scoring/constraints/HarmonicFunc.cxxtest.hh)
Test suite: DihedralConstraintTests (test/core/scoring/constraints/DihedralConstraint.cxxtest.hh)
Test suite: ConstraintsEnergyTests (test/core/scoring/constraints/ConstraintsEnergy.cxxtest.hh)
Test suite: ConstraintSetRemappingTests (test/core/scoring/constraints/ConstraintSetRemapping.cxxtest.hh)
Test suite: BigBinConstraintTests (test/core/scoring/constraints/BigBinConstraint.cxxtest.hh)
Test suite: AtomPairConstraintTests (test/core/scoring/constraints/AtomPairConstraint.cxxtest.hh)
Test suite: AngleConstraintTests (test/core/scoring/constraints/AngleConstraint.cxxtest.hh)
Test suite: CartGridTest (test/core/grid/CartGrid.cxxtest.hh)
Test suite: MetricValueIOTest (test/core/util/MetricValueIO.cxxtest.hh)
Test suite: InterfaceTest (test/core/conformation/Interface.cxxtest.hh)
Test suite: ConformationTests (test/core/conformation/Conformation.cxxtest.hh)
Test suite: ConformationAtomTest (test/core/conformation/Atom.cxxtest.hh)
Test suite: PoseUtilTests (test/core/pose/util.cxxtest.hh)
Test suite: PoseTests (test/core/pose/Pose.cxxtest.hh)
Test suite: PDBPoseMapTests (test/core/pose/PDBPoseMap.cxxtest.hh)
Test suite: PDBInfoTests (test/core/pose/PDBInfo.cxxtest.hh)
Test suite: OrderedFragSetTest (test/core/fragment/OrderedFragSet.cxxtest.hh)
Test suite: IndependentBBTorsionSRFDTests (test/core/fragment/IndependentBBTorsionSRFD.cxxtest.hh)
Test suite: FragmentConstantLengthTest (test/core/fragment/ConstantLengthFragments.cxxtest.hh)
Test suite: EtableEnergyTests (test/core/scoring/etable/EtableEnergy.cxxtest.hh)
Test suite: Symmetric_Binary_Protein_Silent_File_Tests (test/core/io/silent/symmetric_binary_protein_silent.cxxtest.hh)
Test suite: Binary_Protein_Silent_File_Tests (test/core/io/silent/binary_protein_silent.cxxtest.hh)
Test suite: PDBSilentStruct_Tests (test/core/io/silent/pdb_silent.cxxtest.hh)
Test suite: ProteinSilentStructTests (test/core/io/silent/protein_silent.cxxtest.hh)
Test suite: FoldTreeTest (test/core/kinematics/FoldTree.cxxtest.hh)
Test suite: FragmentCandidatesTests (test/core/fragment/picking/FragmentCandidatesTests.cxxtest.hh)
Test suite: TorsionBinIOTests (test/core/fragment/picking/TorsionBinIO.cxxtest.hh)
Test suite: AutomorphismTest (test/core/chemical/automorphism.cxxtest.hh)
Test suite: MMAtomTypeSetTests (test/core/chemical/MMAtomTypeSet.cxxtest.hh)
Test suite: AtomTypeSetTests (test/core/chemical/AtomTypeSet.cxxtest.hh)
Test suite: SymmetricConformationTests (test/core/conformation/symmetry/SymmetricConformation.cxxtest.hh)
Test suite: ArrayPoolTests (test/core/graph/ArrayPool.cxxtest.hh)
Test suite: GraphTests (test/core/graph/Graph.cxxtest.hh)
Test suite: DisjointSetsTests (test/core/graph/DisjointSets.cxxtest.hh)
Test suite: AtomTreeDiffTests (test/core/io/atom_tree_diffs/atom_tree_diff.cxxtest.hh)
Test suite: VirtualResidueScoreTest (test/core/scoring/VirtualResidues.cxxtest.hh)
Test suite: UnfoldedStatePotentialTests (test/core/scoring/UnfoldedStatePotential.cxxtest.hh)
Test suite: SurfacePotentialTests (test/core/scoring/SurfacePotential.cxxtest.hh)
Test suite: ScoreTest (test/core/scoring/ScoreTest.cxxtest.hh)
Test suite: SasaTests (test/core/scoring/sasa.cxxtest.hh)
Test suite: RmsUtilTest (test/core/scoring/rms_util.cxxtest.hh)
Test suite: EnvPairPotentialTest (test/core/scoring/EnvPairPotential.cxxtest.hh)
Test suite: EnergyMapTest (test/core/scoring/EnergyMap.cxxtest.hh)
Test suite: SymmetricMinimizerTests (test/core/optimization/symmetry/SymmetricMinimizer.cxxtest.hh)
Test suite: FullatomDisulfideEnergyTests (test/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.hh)
Test suite: PDB_IO (test/core/io/PDB_IO.cxxtest.hh)
Test suite: UnfoldedStateEnergyTests (test/core/scoring/methods/UnfoldedStateEnergy.cxxtest.hh)
Test suite: RG_Energy_Tests (test/core/scoring/methods/RG_Energy.cxxtest.hh)
Test suite: RamachandranEnergyTests (test/core/scoring/methods/RamachandranEnergy.cxxtest.hh)
Test suite: ProClosureEnergyTests (test/core/scoring/methods/ProClosureEnergy.cxxtest.hh)
Test suite: P_AA_EnergyTests (test/core/scoring/methods/P_AA_Energy.cxxtest.hh)
Test suite: P_AA_pp_EnergyTests (test/core/scoring/methods/P_AA_pp_Energy.cxxtest.hh)
Test suite: PairEnergyTests (test/core/scoring/methods/PairEnergy.cxxtest.hh)
Test suite: MMTorsionEnergyTests (test/core/scoring/methods/MMTorsionEnergy.cxxtest.hh)
Test suite: MMBondAngleEnergyTests (test/core/scoring/methods/MMBondAngleEnergy.cxxtest.hh)
Test suite: LinearChainbreakEnergyTests (test/core/scoring/methods/LinearChainbreakEnergy.cxxtest.hh)
Test suite: ContactOrderEnergy_Tests (test/core/scoring/methods/ContactOrderEnergy.cxxtest.hh)
Test suite: ChainbreakEnergyTests (test/core/scoring/methods/ChainbreakEnergy.cxxtest.hh)
Test suite: HBondDerivTest (test/core/scoring/hbonds/HBondDerivTest.cxxtest.hh)
Test suite: HBondFadeIntervalTest (test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh)
Test suite: HBondDatabaseTest (test/core/scoring/hbonds/HBondDatabaseTest.cxxtest.hh)
Test suite: HBPolyTest (test/core/scoring/hbonds/polynomial.cxxtest.hh)
Test suite: HBondsTest (test/core/scoring/hbonds/HBonds.cxxtest.hh)
Test suite: HBondEnergyTests (test/core/scoring/hbonds/HBondEnergy.cxxtest.hh)
Test suite: SymmetricScoreTest (test/core/scoring/symmetry/SymmetricScoreTest.cxxtest.hh)
Testing score: fa_atr...
Testing score: fa_rep...
Testing score: fa_sol...
Testing score: fa_intra_atr...
Testing score: fa_intra_rep...
Testing score: fa_intra_sol...
Testing score: mm_twist...
Testing score: hack_elec...
Testing score: atom_pair_constraint...
Testing score: coordinate_constraint...
Testing score: hbond_sr_bb...
Comparing the symmetrical score: -88.8243 to the assymetric: -88.8406 difference: 0.0162786
Test suite: SequenceUtilTests (test/core/sequence/SequenceUtil.cxxtest.hh)
Test suite: SequenceAlignmentTests (test/core/sequence/SequenceAlignment.cxxtest.hh)
Test suite: SequenceMappingTests (test/core/sequence/SequenceMapping.cxxtest.hh)
Test suite: ScoringSchemeTests (test/core/sequence/ScoringSchemes.cxxtest.hh)
Test suite: VallTests (test/core/fragment/picking/vall/vall.cxxtest.hh)

Failed 1 of 311 tests
Success rate: 99%
Running 204 tests
Test suite: EntityTests (test/protocols/genetic_algorithm/Entity.cxxtest.hh)
Test suite: RotamerRecoveryTests (test/protocols/rotamer_recovery/RotamerRecovery.cxxtest.hh)
Test suite: RRReporterTests (test/protocols/rotamer_recovery/RRReporter.cxxtest.hh)
Test suite: RRComparerTests (test/protocols/rotamer_recovery/RRComparer.cxxtest.hh)
Test suite: BranchAngleOptimizerTest (test/protocols/branch_angle/BranchAngleOptimizer.cxxtest.hh)
Test suite: WobbleMoverTest (test/protocols/abinitio/WobbleMover.cxxtest.hh)
Test suite: PseudocontactShiftTests (test/protocols/abinitio/PseudocontactShiftEnergy.cxxtest.hh)
Test suite: GunnCostTest (test/protocols/abinitio/GunnCost.cxxtest.hh)
Test suite: FragmentMoverTest (test/protocols/abinitio/FragmentMover.cxxtest.hh)
Test suite: ThreadingMover_Tests (test/protocols/comparative_modeling/ThreadingMover.cxxtest.hh)
Test suite: AlignmentStream_Tests (test/protocols/comparative_modeling/AlignmentStream.cxxtest.hh)
Test suite: CM_Util_Tests (test/protocols/comparative_modeling/util.cxxtest.hh)
Test suite: PlainSilentFileJobDistributorTest (test/protocols/jobdist/PlainSilentFileJobDistributor.cxxtest.hh)
jobdist curr_nstruct: 8 actual curr_nstruct: 8
jobdist curr_nstruct: 9 actual curr_nstruct: 9
Test suite: VoxelSetIteratorTests (test/protocols/match/VoxelSetIterator.cxxtest.hh)
Test suite: RigidLigandBuilderTests (test/protocols/match/RigidLigandBuilder.cxxtest.hh)
Test suite: ScaffoldBuildPointTests (test/protocols/match/ScaffoldBuildPoint.cxxtest.hh)
Test suite: ProteinUpstreamBuilderTests (test/protocols/match/ProteinUpstreamBuilder.cxxtest.hh)
Test suite: ProteinSCSamplerTests (test/protocols/match/ProteinSCSampler.cxxtest.hh)
Test suite: OccupiedSpaceHashTests (test/protocols/match/OccupiedSpaceHash.cxxtest.hh)
Test suite: LigandConformerTests (test/protocols/match/LigandConformer.cxxtest.hh)
Test suite: HasherTests (test/protocols/match/Hasher.cxxtest.hh)
Test suite: ExternalGeomSamplerTests (test/protocols/match/ExternalGeomSampler.cxxtest.hh)
Test suite: BumpGridTests (test/protocols/match/BumpGrid.cxxtest.hh)
Test suite: ResidueTorsionRestraintsTest (test/protocols/ligand_docking/ResidueTorsionRestraints.cxxtest.hh)
Test suite: SegmentSwapTests (test/protocols/forge/build/SegmentSwap.cxxtest.hh)
Test suite: SegmentRebuildTests (test/protocols/forge/build/SegmentRebuild.cxxtest.hh)
new cuts made: 8
FOLD_TREE EDGE 1 4 -1 EDGE 4 8 -1 JEDGE 4 19 1 N C END EDGE 19 20 -1 EDGE 19 9 -1

new cuts made: 6
FOLD_TREE EDGE 1 4 -1 EDGE 4 6 -1 JEDGE 4 12 1 N C END EDGE 12 13 -1 EDGE 12 7 -1

new cuts made: 8
FOLD_TREE EDGE 1 5 -1 EDGE 5 8 -1 JEDGE 5 15 1 N C END EDGE 15 27 -1 EDGE 15 9 -1

new cuts made: 8
FOLD_TREE EDGE 1 4 -1 EDGE 4 8 -1 JEDGE 4 19 1 N C END EDGE 19 20 -1 EDGE 19 9 -1

new cuts made: 6
FOLD_TREE EDGE 1 4 -1 EDGE 4 6 -1 JEDGE 4 12 1 N C END EDGE 12 13 -1 EDGE 12 7 -1

new cuts made: 11
FOLD_TREE EDGE 1 7 -1 EDGE 7 11 -1 JEDGE 7 21 1 CA CA END EDGE 21 12 -1 EDGE 21 27 -1

new cuts made: 6
FOLD_TREE EDGE 1 2 -1 EDGE 2 6 -1 JEDGE 2 19 1 N C END EDGE 19 20 -1 EDGE 19 7 -1

new cuts made: 5
FOLD_TREE EDGE 1 2 -1 EDGE 2 5 -1 JEDGE 2 13 1 N C END EDGE 13 14 -1 EDGE 13 6 -1

new cuts made: 7
FOLD_TREE EDGE 1 2 -1 EDGE 2 7 -1 JEDGE 2 23 1 N C END EDGE 23 24 -1 EDGE 23 8 -1

FOLD_TREE EDGE 11 6 -1 EDGE 6 12 1 EDGE 12 22 -1 EDGE 6 1 -1

FOLD_TREE EDGE 1 7 -1 JEDGE 1 8 1 CA C END EDGE 8 18 -1

FOLD_TREE EDGE 1 9 -1 JEDGE 1 12 1 CA C END EDGE 12 17 -1 EDGE 12 10 -1

FOLD_TREE EDGE 1 9 -1 EDGE 1 10 1 EDGE 10 20 -1

Test suite: SegmentInsertTests (test/protocols/forge/build/SegmentInsert.cxxtest.hh)
Test suite: RelativeConnectRightTests (test/protocols/forge/build/RelativeConnectRight.cxxtest.hh)
Test suite: GrowRightTests (test/protocols/forge/build/GrowRight.cxxtest.hh)
Test suite: GrowLeftTests (test/protocols/forge/build/GrowLeft.cxxtest.hh)
Test suite: ConnectRightTests (test/protocols/forge/build/ConnectRight.cxxtest.hh)
Test suite: BuildManagerTests (test/protocols/forge/build/BuildManager.cxxtest.hh)
new cuts made: 5
FOLD_TREE EDGE 1 4 -1 EDGE 4 5 -1 JEDGE 4 8 1 N C END EDGE 8 18 -1 EDGE 8 6 -1

new cuts made: 15
FOLD_TREE EDGE 3 6 -1 EDGE 6 7 -1 JEDGE 6 10 1 N C END EDGE 10 8 -1 EDGE 3 1 -1 EDGE 10 11 -1 EDGE 11 15 -1 JEDGE 11 19 2 N C END EDGE 19 22 -1 EDGE 19 16 -1

Test suite: BridgeTests (test/protocols/forge/build/Bridge.cxxtest.hh)
Test suite: DDGBindOptEDataTests (test/protocols/optimize_weights/DDGBindOptEData.cxxtest.hh)
Test suite: ArithmeticTests (test/protocols/optimize_weights/Arithmetic.cxxtest.hh)
Test suite: APClusterTest (test/protocols/cluster/APCluster.cxxtest.hh)
Test suite: cout_io (test/protocols/util/cout.cxxtest.hh)
Test suite: Neighbor_CalculatorsTests (test/protocols/toolbox/PoseMetricCalculators/Neighbor_Calculators.cxxtest.hh)
Test suite: DsspTests (test/protocols/jumping/Dssp.cxxtest.hh)
Test suite: JumpingTest (test/protocols/jumping/JumpSetup.cxxtest.hh)
Test suite: MatchConstraintFileInfoTest (test/protocols/enzdes/MatchConstraintFileInfo.cxxtest.hh)
Test suite: PredockRotCenterTest (test/protocols/enzdes/PredockRotCenter.cxxtest.hh)
Test suite: HBondCalculatorsTest (test/protocols/enzdes/HBondCalculatorsTest.cxxtest.hh)
Test suite: LigInterfaceConstraintsTest (test/protocols/enzdes/LigInterfaceConstraints.cxxtest.hh)
Test suite: fold_tree_functions_Tests (test/protocols/forge/methods/fold_tree_functions.cxxtest.hh)
Test suite: ProteinInterfaceDesignOperationTests (test/protocols/toolbox/TaskOperations/ProteinInterfaceDesignOperation.cxxtest.hh)
Test suite: RestrictNonSurfaceToRepackingOperationTests (test/protocols/toolbox/TaskOperations/RestrictNonSurfaceToRepackingOperation.cxxtest.hh)
Test suite: RestrictOperationsTests (test/protocols/toolbox/TaskOperations/RestrictOperations.cxxtest.hh)
Test suite: DockingTest (test/protocols/docking/DockingTest.cxxtest.hh)
Test suite: TaskAwareMinMoverTests (test/protocols/moves/TaskAwareMinMover.cxxtest.hh)
Test suite: TypesetMoversTests (test/protocols/moves/TypesetMovers.cxxtest.hh)
Test suite: ShearMoverTest (test/protocols/moves/ShearMover.cxxtest.hh)
Test suite: SmallMoverTest (test/protocols/moves/SmallMover.cxxtest.hh)
Test suite: ScoreTest (test/protocols/moves/ScoreTest.cxxtest.hh)
Start All Scoring tests
Testing: ScoreMover...
End Scoring -score:patch score12 test
End Scoring tests
Test suite: RigidBodyMoverTests (test/protocols/moves/RigidBodyMover.cxxtest.hh)
Test suite: MoversTest (test/protocols/moves/MoversTest.cxxtest.hh)
Testing: SmallMover...
End SmallMover test
Testing: ShearMover...
End ShearMover test
Test suite: ContainerMoversTest (test/protocols/moves/MoverContainer.cxxtest.hh)
Test suite: BackrubMoverTest (test/protocols/moves/BackrubMover.cxxtest.hh)
Test suite: TorsionSamplingKinematicPerturberTests (test/protocols/moves/kinematic_closure/TorsionSamplingKinematicPerturber.cxxtest.hh)
All tests passed!
-------- Unit test summary --------
Total number of tests: 711
number tests passed: 710
number tests failed: 1
failed tests:
core.test: test_dunbrack_best_rotamer_energy
Success rate: 99%
---------- End of Unit test summary
Done!

Tue, 2011-05-03 07:01
kingljy

The dunbrack failure concerns me; I am looking into it locally, but I don't expect to be able to reproduce it. Is it possible you used an old copy of the database (perhaps from 3.1?)

I am going to make sure that 3.3 ships with the unit tests intact...

Tue, 2011-05-03 07:18
smlewis

I used the database in rosetta3.2.1_bundles.tgz

Tue, 2011-05-03 07:38
kingljy

As I thought it might, this does not duplicate on my machine.

If you look into the code, the comparison that is failing is tested twice, once to low precision and once to high precision. Only the high-precision test is failing. This makes me suspect that it is a numerical noise error that is not exposed on any of the architectures we normally test on (and therefore not a problem). I think you're okay to ignore it; if you want to try to dig into the C++ we can.

Tue, 2011-05-03 07:51
smlewis

python test/run.py -d /rosetta3.2/rosetta_database --mode=release UnitTestExecutable = ["protocols.test", "core.test", "ObjexxFCL.test", "numeric.test", "utility.test", "apps.test", "devel.test"] --mute=MUTE-all
I got following error:

....
Paths: cd build/test/release/linux/3.5/32/x86/gcc/ && command line: ./apps.test --database /rosetta3.2/rosetta_database -mute MUTE-all
Running 1 test
Test suite: LigandDockTest (test/apps/public/ligand_docking/ligand_dock.cxxtest.hh)
core.init: Mini-Rosetta version exported from unknown
core.init: command: ./apps.test --database /rosetta3.2/rosetta_database -mute MUTE-all -run:constant_seed -run:rng mt19937 -in:file:s apps/public/ligand_docking/7cpa_7cpa_input.pdb -in:file:native apps/public/ligand_docking/7cpa_7cpa_native.pdb -out:path:pdb apps/public/ligand_docking -packing:no_optH -docking:randomize2 -docking:uniform_trans 5 -docking:ligand:start_from -1.731 32.589 -5.039 -docking:ligand:minimize_ligand -docking:ligand:harmonic_torsions 10
core.init: Constant seed mode, seed=1111111 seed_offset=0 real_seed=1111111
core.init.random: RandomGenerator:init: Normal mode, seed=1111111 RG_type=mt19937
Warning: Unable to locate database file chemical/residue_type_sets/fa_standard

ERROR: Unable to open file: /rosetta3.2/rosetta_database/chemical/residue_type_sets/fa_standard/residue_types.txt

ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 96
Paths: cd build/test/release/linux/3.5/32/x86/gcc/ && command line: ./devel.test --database /rosetta3.2/rosetta_database -mute MUTE-all
bash: ./devel.test: No such file or directory
Unable to read yaml file with test results build/test/release/linux/3.5/32/x86/gcc//devel.test.yaml - unit test run aborted!

Sat, 2013-08-24 10:54
PoonamPandey