-
I try to run viralrecon for 86 samples. It seems the pipeline gets stuck and I cannot figure out why. I did run the pipeline on my local machine (14 cores, 128 GB memory) with standard configuration l…
-
Hello,
I'm trying to run this pipeline with as many annotators as possible. However I can only output a couple of them. One that I cannot output is Mutect2 - it seems sarek skips that process, even…
-
Hi Maxime, thank you for incorporating ASCAT to the toolset of Sarek, it will be very useful for CNV analysis!
However, I have the issue now that when executing the somatic VC procedure, even when a…
-
Change lassoresult List of QBIC, QAIC, QAICc estimates from the mylasso function. It's no longer called "mylasso" function.
Also change function scale (name of func) and name of file (scales.R). …
-
Pro:Geo-uploader StefanC$ java -jar geo-uploader-cli-1.2-jar-with-dependencies.jar -p QXXXX -o test -c config.yaml
11:34:45.557 [main] DEBUG life.qbic.cli.main.MainEntryPoint - Starting Main tool
1…
-
Hi Timo.
could you please take a look at this:
`heumos@wave ~/Downloads> java -cp geo-uploader-cli.jar life.qbic.cli.main.MainEntryPoint -u afaaj01 -p QMSUI -o geo_output/ -c config.yaml
Parse co…
-
Dear All,
I have similar problem which you explained in the other post (). I am using singularity profile.
My config file is:
profiles {
standard {
process.executor = 'local'
…
-
## Bug report
### Expected behavior and actual behavior
I am trying to run an ATAC-seq pipeline by nf-core using a conda profile but the command fails and reports a Java-related MissingProperty…
-
Huhu,
we could add a setup for integration tests. Integration tests are often times slow and are communicating with databases, writing files and more. A separation of different test setups would al…
-
Right now the portlet loads its configuration file, `config.yaml`, as a resource from the classpath.
When the portlet (class `life.qbic.portal.portlet.StatisticsPortlet`) is initialized, it provid…