RUFUS

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Docker Image

44

Is there a Docker image available for RUFUS?

ksarathbabu

Running time when using CRAM input

1

Hi, I tried the latest version of RUFUS to run CRAM files (because the -cr option was not available in the version I have from 2018). However, the run takes...

mkohailan

Because of the hard dependency to gcc 4.9, I've created a Dockerfile to help build RUFUS in a container based on your build instructions. It's quick and dirty, but it...

kohrar

testRun failure

17

Trying to build RUFUS with gcc version ``` [moldach@cedar1 TOOL_TMP_DIR]$ wget https://github.com/jandrewrfarrell/RUFUS/archive/V1.0.tar.gz --2021-01-29 11:44:34-- https://github.com/jandrewrfarrell/RUFUS/archive/V1.0.tar.gz Resolving github.com (github.com)... 140.82.114.3 Connecting to github.com (github.com)|140.82.114.3|:443... connected. HTTP request sent, awaiting response... 302...

moldach

RUFUS creates incomplete VCF header

1

I've noticed the genotype in the `FORMAT` field is often `0/0, 0/0, 0/0` so there is likely some filtering I need to do. I was hoping to use `gatk VariantFiltration`...

moldach

Segmentation Fault

2

Hello, I got this error while running RUFUS, I haven't had this problem before with any of my previous runs. I've run it around 7 times. > /net/apps/x86_64/RUFUS/scripts/Overlap.sh: line 92:...

yoyosef

END and SVLEN for SVs inconsistent with ref/alt alleles

2

Hi, I have a few variants here that are giving me errors when I try to annotate them in VEP, with a warning related to the END coordinate in the...

oleraj

Description of variant ids

1

Hi, Can you explain what is the difference between the different variant ids? I don't see any documentation about this. For example, here are the most common variant types I...

oleraj

Running RUFUS on a file system shared across machines

1

Is there a way to run RUFUS (runTest.sh, clean.sh, plus anything else a standard user would do) with directed output? In this scenario, RUFUS lives on an NFS share. But...

jbsysadmin

`cc1plus: error: unrecognized command line option "-std=c++11"` I cannot update gcc on my server. Do you mind amending your code so I and others with older gcc versions will be...

dantaki