segmentation fault when running example prediction

[0xaf1f]

When running the commands under the section "Prediction" at http://kplogo.wi.mit.edu/manual.html#examples, I get a segmentation fault after the second command.

I've tried this on CentOS 6 and from within a Debian 9 container with the same results. This is with the latest release 1.0.

$ kpLogo gRNA.txt -weighted -o model_training
[Tue Jul 18 17:15:22 2017] Summary: 
[Tue Jul 18 17:15:22 2017]    Input       :   gRNA.txt
[Tue Jul 18 17:15:22 2017]    Background  :   local
[Tue Jul 18 17:15:22 2017]    Output      :   model_training.*
[Tue Jul 18 17:15:22 2017]    alphabet    :   ACGT
[Tue Jul 18 17:15:22 2017]    min_kmer    :   1
[Tue Jul 18 17:15:22 2017]    max_kmer    :   4
[Tue Jul 18 17:15:22 2017]    min_shift   :   0
[Tue Jul 18 17:15:22 2017]    max_shift   :   0
[Tue Jul 18 17:15:22 2017]    p           :   1.010000
[Tue Jul 18 17:15:22 2017]    start at    :   1
[Tue Jul 18 17:15:22 2017] 1841 sequences loaded from gRNA.txt
[Tue Jul 18 17:15:22 2017] making frequency logo...
[Tue Jul 18 17:15:22 2017] making information content logo...
[Tue Jul 18 17:15:22 2017] fixed position: 25   26
[Tue Jul 18 17:15:22 2017] fixed residual  : G  G
[Tue Jul 18 17:15:22 2017] 340 exact kmers to be tested
[Tue Jul 18 17:15:22 2017] 9288 tests (kmer x position x shifts) will be performed
[Tue Jul 18 17:15:23 2017] 5941 positional kmers with p <1.010000
[Tue Jul 18 17:15:24 2017] plotting the most significant kmer at each position...
G
G
[Tue Jul 18 17:15:24 2017] plotting single nucleotide profile...
[Tue Jul 18 17:15:27 2017] Done!
$ kpLogo gRNA.txt -predict model_training
[Tue Jul 18 17:15:31 2017] Summary: 
[Tue Jul 18 17:15:31 2017]    Input       :   gRNA.txt
[Tue Jul 18 17:15:31 2017]    Background  :   local
[Tue Jul 18 17:15:31 2017]    Output      :   kpLogo.*
[Tue Jul 18 17:15:31 2017]    alphabet    :   ACGT
[Tue Jul 18 17:15:31 2017]    min_kmer    :   1
[Tue Jul 18 17:15:31 2017]    max_kmer    :   4
[Tue Jul 18 17:15:31 2017]    min_shift   :   0
[Tue Jul 18 17:15:31 2017]    max_shift   :   0
[Tue Jul 18 17:15:31 2017]    p           :   1.010000
[Tue Jul 18 17:15:31 2017]    start at    :   1
[Tue Jul 18 17:15:31 2017] 1841 sequences loaded from gRNA.txt
[Tue Jul 18 17:15:31 2017] making frequency logo...
[Tue Jul 18 17:15:32 2017] making information content logo...
[Tue Jul 18 17:15:32 2017] fixed position: 25   26
[Tue Jul 18 17:15:32 2017] fixed residual  : G  G
[Tue Jul 18 17:15:32 2017] === prediction mode ===
[Tue Jul 18 17:15:32 2017] building model from file: model_training.pass.p.cutoff.txt
[Tue Jul 18 17:15:32 2017] - 5719 positional kmers included in the model
[Tue Jul 18 17:15:32 2017] scoring input sequences using the model...
[Tue Jul 18 17:15:33 2017] - done
Segmentation fault

[xuebingwu]

I've identified bugs that could potentially cause this error. Please try the updated version from the master branch.

[0xaf1f]

Alright, I don't see the segfault anymore. Thanks for tagging a new release!