Tool runtime

[BGI2016]

Hello @ibn-salem @priesgo @ozlemmuslu @martinloewer @mostafiz2010
My data is 260 million distinct sequencing reads（2×150 nt）.When I predicted GFs with the Easyfuse 1.3.6 from my data, the software ran for eight days. why run time is so long?Hope to get your reply.

Kind Regards,
Lily

[Tesson98]

Hi @ibn-salem @priesgo @ozlemmuslu @martinloewer @mostafiz2010

I have also met this problem with paried rna-seq fastq.gz files of 29 samples(2 * ~3G * 29samples).
Within them 24/29 succeed in the output but the remaining 5 samples were stuck in the soapfuse prediction step (4 samples, succeed in upstream prediction steps) or in the fetchdata step ( 1 sample, succeed in upstream steps).
I have to ended related slurm jobs while running for 7 days. Could you help me with this problem？

Really glad to get your replies.
If you want more detailed information please just contact me.
Thank you so much!

Best regards,
Tesson

[whiffen-cann]

@Tesson98 @priesgo
I also encounter the same problem. When I use Docker to run EasyFuse, I always report an error in the fetchdata.py step.

[pintoa1-mskcc]

I also encounter extremely long run times, and then soapfuse will die randomly....