Johan Nylander

icon indicating a website link http://nylander.github.io/ icon indicating an email [email protected]

icon company @Naturhistoriska, @NBISweden icon location Sweden icon location Bioinformatician at Naturhistoriska riksmuseet (NRM). Affiliated with Stockholm University.

Results 14 issues of Johan Nylander

Change Nexus syntax in output from Bio::AlignIO::nexus

1 comment

Hi, the nexus syntax output from Bio::AlignIO::nexus is at odds with current nexus standards. For example, the BioPerl module writes ``` format interleave datatype=dna gap=- symbols="CTANG"; ``` but the software...

Update gaas_create_annotation_project.pl to current work-flow demands

4 comment

There is a need to update `gaas_create_annotation_project.pl` to current work-flow demands. A pull-request is soon to be submitted. This note is for adding it to the list of tasks to...

enhancement

run_treeshrink.py fails with python 3.10

6 comment

FYK, After a recent local upgrade of my Ubuntu Linux OS --- which brought python to version 3.10.4 --- `run_treeshrink.py` no longer works. The reason seems to be an outdated...

Compile error for master branch on Ubuntu Linux

3 comment

Hi, I'm failing to compile the code (Error) following git clone and make for the master branch. From the output (below), it looks like bamtools is the culprit? How does...