Chris Odhams

Running pipeline offline in trusted research environemnt

1

Hi, Following up on a previous issue: [319](https://github.com/gagneurlab/drop/issues/319) I am attempting to run the pipeline in a **secure research environment where outbound internet access is prohibited** for patient confidentiality. "The...

Estimated run-time for FRASER2

13

Hi, I was wondering how long a typical FRASER2 run is expected to be? If I peek at an ongoing job, it seems to hang or not update for at...

DROP_1.3.3.yaml package update required?

9

Hi, I've installed DROP v1.3.3 as per: `mamba env create -f DROP_1.3.3.yaml` taken from: https://www.cmm.in.tum.de/public/paper/drop_analysis/DROP_1.3.3.yaml When running the demo, OUTRIDER throws an error in the `pvalsOutrider.R` script at the line...

Error in rule AberrantSplicing_pipeline_Counting_01_1_countRNA_splitReads_samplewise_R

7

Hi, Not sure if this is the same error as #395 - which requires internet connection. Note that I am not possible to get internet connection as I am working...

Error in rule Index

6

Hi DROP Team, I'm having issues running the Aberrant Expression module in the DROP pipeline. It's not obvious whether it's the same issue reported in #222, so I decided to...