hmehlan

gene prediction failed for UTF-8 encoded genome fasta files with: ``` $ augustus --species=human genome-utf8-bom.fa augustus: ERROR GBProcessor::determineFileType(): Couldn't determine input file type. Found bad character '1' ``` [genome-utf8-bom.fa.gz](https://github.com/Gaius-Augustus/Augustus/files/5414060/genome-utf8-bom.fa.gz)

Augustus training jobs fails when using a single sequence training fasta files encoded in UTF-8 with BOM. The subroutine formatDetector() in https://github.com/Gaius-Augustus/Augustus/blob/master/scripts/helpMod.pm#L153 demand '>' as first character but fails when...

image missing in docs/readme.rnaseq.html

1

The file [readme.rnaseq.html](https://github.com/Gaius-Augustus/Augustus/blob/b7517c1956bccc6132097622c9004a389fb092c5/docs/readme.rnaseq.html#L263) refers to two images, one of which is missing: - aliit.png is available ([docs/aliit.png](https://github.com/Gaius-Augustus/Augustus/blob/master/docs/aliit.png)) - /augustus/images/exonlocalmalus.png is missing (but exists here [docs/exonlocalmalus.png](https://github.com/Gaius-Augustus/Augustus/blob/master/docs/exonlocalmalus.png) and [here](http://bioinf.uni-greifswald.de/augustus/images/exonlocalmalus.png)) Strangely enough, http://bioinf.uni-greifswald.de/augustus/binaries/readme.rnaseq.html...