Matthew J. Oldach

One issue is that I need to supply `-B $PWD` and prefix the `/RUFUS` subdirectory, like so `$ singularity exec -B $PWD rufus.sif $PWD/RUFUS/runRufus.sh`. However, I'm getting a `libjellyfish-2.0.so.2` error...

Hi @kohrar > I've only done a cursory test with RUFUS after building the image and then running it with `docker run --rm -ti rufus bash` Did you not try...

Hello @kohrar thank you very much for providing that detailed explanation and reproducible example! > I am not mounting an external version of RUFUS into the image as you are...

So the job ran for 24 hours but failed: `Slurm Job_id=2711 Name=rufus_test Ended, Run time 1-00:08:45, COMPLETED, ExitCode 0` ``` sort: invalid option -- 'T' sort: invalid option -- 'O'...

> your Samtools isn’t working properly, you either don’t have it installed or you have a very old version Correct, as I showed in my above post the following command...

Any update on this @jandrewrfarrell ? (@kohrar) We urgently need this working. Thanks

Could the error be happening here: ``` (base) mtg@mtg-ThinkPad-P53:~$ sudo add-apt-repository -y ppa:webupd8team/java Ign:1 http://dl.google.com/linux/chrome/deb stable InRelease Hit:2 https://dl.yarnpkg.com/debian stable InRelease Hit:3 http://dl.google.com/linux/chrome/deb stable Release Hit:4 http://ca.archive.ubuntu.com/ubuntu eoan InRelease Hit:5...

Okay I've updated to `Java 8` ``` (venv) mtg@mtg-ThinkPad-P53:~/GenESysV$ java -version openjdk version "1.8.0_252" OpenJDK Runtime Environment (build 1.8.0_252-8u252-b09-1ubuntu1-b09) OpenJDK 64-Bit Server VM (build 25.252-b09, mixed mode) ``` Now I...

Hi @jianxinwang I've deactivated `conda` and tried again. ``` (base) mtg@mtg-ThinkPad-P53:~/bin/GenESysV$ conda deactivate mtg@mtg-ThinkPad-P53:~/bin/GenESysV$ source venv/bin/activate ``` This time it looks like the issue is it cannot find `elasticsearch` -...

> Hi Matt, I recommend that you start an installation from a clean ubuntu environment or do a test install on a virtualbox running Ubuntu as guest OS. I opened...