Running RosettaScripts, but got an error “src/utility/options/OptionCollection.cc, line 1153, No values of the appropriate type”

[Anonymous]

Hello,

I’m a new user wants to run a RosettaScripts with disulfize mover, but right after I start the scripts, I got the following crash report. Any comments or suggestions on how to solve the issues? Thanks a million.

[START_CRASH_REPORT]

[ROSETTA_VERSION]: 2020.08+release.cb1caba

[COMMIT_DATE]: 2020-02-21T14:46:08.581859

[APPLICATION]: UNKNOWN APPLICATION

[MODE]: Release

[EXTRAS]: default

[OS]: GNU/Linux

[COMPILER]: GCC version “8.3.0”

[STDLIB]: libstdc++ version 20190406

[START_OPTIONS]

NO OPTIONS SPECIFIED

[END_OPTIONS]

[START_BACKTRACE]: RAW_LIBC

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libcore.6.so(backtrace_string[abi:cxx11](int)+0x43) [0x7f06198572e3]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libutility.so(utility::excn::Exception::Exception(char const*, int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)+0xe4) [0x7f061509c144]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libutility.so(utility::options::OptionCollection::set_option_value_cl(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::list<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >&)+0x4bb) [0x7f0614ff7cab]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libutility.so(utility::options::OptionCollection::load_option_cl(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::list<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)+0x108) [0x7f0614ffa9f8]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libutility.so(utility::options::OptionCollection::load(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::list<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > >&, bool)+0x149) [0x7f0614ffdd39]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libutility.so(utility::options::OptionCollection::load(int, char* const*, bool)+0x136) [0x7f0614ffe646]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libcore.6.so(core::init::init_options(int, char**)+0x1f) [0x7f06198aa74f]

/home/zhoubin/Desktop/rosetta_3.12/main/source/build/src/release/linux/5.4/64/x86/gcc/8/default/libcore.6.so(core::init::init(int, char**)+0x29) [0x7f06198ae959]

rosetta_scripts.default.linuxgccrelease() [0x4023ba]

/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xeb) [0x7f061445809b]

rosetta_scripts.default.linuxgccrelease() [0x40294a]

[END_BACKTRACE]

[FILE]: src/utility/options/OptionCollection.cc

[LINE]: 1153

[START_MESSAGE]

No values of the appropriate type specified for multi-valued option -in:file:s

[END_MESSAGE]

[END_CRASH_REPORT]

[Anonymous]

It looks like you need to pass a pdb file using the -s option.  Or -l.  What is your cmd-line input?

[Anonymous]

Here is the command line I used for running the scripts:

rosetta_scripts.static.linuxgccrelease -s <Test.pdb> -use_input_sc -nstruct 20 -ex1 -ex2 -parser:protocol DisulfScan.xml 

Thanks,

Bin

[Anonymous]

I realized that my filename has angle brackets, after I removed the brackets, the scripts are running smoothly. Thanks. 

[Author]

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