Hi Nikolaos,
Exactly, you need to change your too.xml file. You could try to solve this with
an if condition:
#if isinstance($input_fasta.datatype,
$__app__.datatypes_registry.get_datatype_by_extension('fastq').__class__):
ln -s $input_fasta $input_fasta.fastq
#elif isinstance($input_fast
thanx Mina, I thought about this. If no one still did this, question is
where to add soft link creation.
Probably in flexbar.xml. Now flexbar supports fasta and fastaq format, also
their gziped/bziped versions.
How to determine data format in Galaxy? I'm not an expert neither in Galaxy
nor biology,
Hi,
You can solve the extension issue using soft links in your tool wrapper.
E.g.:
ln -s $input_fasta $input_fasta.fna
Best,
Mina
Sent from my iPhone
> On Jun 18, 2016, at 12:04, Nikolaos Tur wrote:
>
> Hi,
>
> does someone use latest version of flexbar 2.7 with Galaxy? It seems newest
> fl
Hi,
does someone use latest version of flexbar 2.7 with Galaxy? It seems newest
flexbar changes way how it works with data. Now it requires format
extension for data. But Galaxy operates data with .dat extension in
database/files/.
Also there is flexbar wrapper for version 2.7, so it should be som
