error in running sample

[Krisloveless]

i used this "./sinvict ../mixture_5-95.readcount -o ../" but error occured:"terminate called after throwing an instance of 'boost::exception_detail::clone_implboost::exception_detail::error_info_injector' what(): boost::bad_any_cast: failed conversion using boost::any_cast Aborted (core dumped)"

[Krisloveless]

thank you very much in advance

[ckockan]

Hi Kris, what version of boost are you using? I'm trying to reproduce the error. I noticed something with your command line but that should not be causing the issue:

"./sinvict ../mixture_5-95.readcount -o ../"

• I believe you might have missed the -t flag before the input directory while typing. The program prints an error message and exits if that is missing so that is probably not the cause of the error.
• The parameter after -t should not be a file, it should be a directory that contains only readcount files. Like "../my_mixtures". But still your command line would cause the program to print a message saying that ../mixture_5-95.readcount is not a directory and exit so that is not likely the source of the error either.

That leaves boost version incompatibility as the probable candidate which causes the error but it might help if you copy-and-paste the complete command line and error message along with your boost version.

[Krisloveless]

Hi ckockan,thanks for your reply!I also tried "./sinvict -t ../place/ -o ." but it doesn't work either.(../place is where i put readcount files.) My boost version is the newest version 1.62.0. The make process produced no error.

[Krisloveless]

kris@nanopore:~/sinvict$ ./sinvict -t ../place/ -o .

character conversion failed

SiNVICT: Ultra Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA.

Allowed arguments: -h [ --help ] Print help message. -e [ --error-rate ] arg Error rate for the sequencing platform used. -m [ --min-depth ] arg Minimum Read Depth required for high confidence in a call. -l [ --left-strand-bias ] arg Lower limit for the strand bias value interval to be used in assessing the confidence of a call. -r [ --right-strand-bias ] arg Upper limit for the strand bias value interval to be used in assessing the confidence of a call. -f [ --read-end-fraction ] arg Average position of the called base on the reads supporting the call as a fraction. End values such as 0.01 as useful for filtering read end artifacts. -q [ --qscore-cutoff ] arg Cutoff value for the qScore assigned to each call by the Poisson model used. -t [ --tumor-directory-path ] arg Specifies directory for the input files. -o [ --output-directory-path ] arg Specifies directory for the output files.

terminate called after throwing an instance of 'boost::exception_detail::clone_implboost::exception_detail::error_info_injector' what(): boost::bad_any_cast: failed conversion using boost::any_cast Aborted (core dumped)

[ckockan]

I see. I did not think the command-line was the issue anyway, those cases are handled correctly by sinvict. Most likely something to do with your boost installation/configuration.

In your detailed output I see that boost program options throws a "character conversion failed" error, followed by the initial error message you posted. I can't replicate the same issue with my installation but after some search I might have found a potential solution to your problem. This question on the following link seems very similar to your issue, might be worth checking out to see if any of the suggested solutions work for you as well:

http://stackoverflow.com/questions/35382902/boost-program-options-throws-character-conversion-failed

[Krisloveless]

I tried that but failed. Maybe it has something to do with the boost version. I'll try and see if a lower version could handle this.

[Krisloveless]

Hi ckockan, finally I solve the problem! I delete all the old versions in /usr/include, recompile the program and refresh the ldconfig. Thanks for your patience!