SalmonTE

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Exiting because a job execution failed. Look above for error message

1

Hello, I got an error when running salmonTE : "Error in rule run_salmon_gz" and don't understand why. I put here the error that I see in terminal, could you help...

sophimagine

snakelike bash

1

Hi, I'm getting this error message after executing SalmonTE.py quant: one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode! Do you have any...

Kiliankleemann

/Users/kiliankleemann/SalmonTE/salmon/darwin/bin/salmon quant -i /Users/kiliankleemann/SalmonTE/reference/mm -l A -r /var/folders/p1/w5vpt8z97n3f8xvc8kzc87nc0000gn/T/tmpvc3znywe/DE12NGSUKBR137309_1.fastq.gz -o /Volumes/OhneTitel/Anne_BMDM_try_August_2023/SalmonTE_output/DE12NGSUKBR137309_1 -p 4 2>/dev/null (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)

Kiliankleemann

Error in rule run_salmon_fq

3

Hi, I am trying to use `SalmonTE.py quant --reference=hs example`, but I faced a problem like below. Could you suggest a solution? I tried `brew install tbb `, but I...

h20gg702

Quant mode seg fault due to erroneous functional call following salmon quant

2

The quantification mode results in a seg fault error. This is due to calling a function that is designed for your test mode. The EXPR.csv is not made in quant...

michaelSkaro

Hi, I've noticed that SalmonTE still uses the rather old salmon version v0.8.2 and I would kindly like to ask for the rationale to do so. The newer version v1.10.0...

tycho-kirchner

make my own index

4

Hi developer, I just want to make sure I am on the right track to make my own index. Because repbase is not openable, I downloaded the fasta file from...

h20gg702

Hi, thank you for this great tool, however I keep getting an error with snakemake. Is it a problem with the version? - 8.20.5? Which version is compatible? 2024-09-29 14:01:46,298...

Walda007