Add small example input & result to git?

[tseemann]

I would like to write a small test of mreps in the conda/brew packages.

[gregorykucherov]

Torsten, thanks for your comments, I'll look into this and will be back to you

[gregorykucherov]

Done. Is this fine?

[tseemann]

That looks good, but it seems to fail?

$ mreps test/sequence.fasta

 *****************************************************************************
 *                              mreps 2.6                                    *
 *                                                                           *
 *                Finding tandem repeats in DNA sequences                    *
 *                                                                           *
 *                      http://mreps.univ-mlv.fr/                            *
 *****************************************************************************

* Processing window [1 : 5145] *

Error: input sequence has incorrect symbol > at position 1

[tseemann]

I think I need -fasta? and the -help is wrong?

% mreps
Too few arguments
Usage: mreps [ options ] { sequencefile | -s sequence }
Try mreps -help

it says i can just give a sequencefile ? does it take "raw" format by default? The Example seems to say not?

Example:
mreps -res 3 -exp 3.0 -from 10000 -to 12000 ecolim52.fas

Maybe the help should be:

Usage:
       mreps [options]  -s <literal sequence>
       mreps [options]  <raw sequence file>
       mreps [options]  -fasta <fasta file>

[gregorykucherov]

corrected