Long running time or bug?

neherlab / pan-genome-analysis

Processing pipeline for pan-genome visulization and exploration

http://pangenome.de

GNU General Public License v3.0

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Long running time or bug? #35

Open Zick007 opened 4 years ago

Zick007 commented 4 years ago

Hi,

I runned the command-line ./panX.py -fn /.data/MyData -sl T_species

Everything seemed good till step 6 I think... Now this step is running for 10 minutes. I only have 5 gbk files to compare in MyData. Is it normal? Should I let it continue or it's a bug?

I already checked and I've correctly installed all dependencies.

Also, I encountered the same problem when I launched the test.sh script...

Thank you!

fmalmeida commented 4 years ago

I have the same issue here. However the step is running for more than a day. I have even tried the parameter -nslbut it seems that the pipeline have ignored it.

FilipeMatteoli commented 4 years ago

Same here, 22 minutes running on 11 genomes using 14 threads. Maybe skipping step 6 is an option?

"====== time for step06: 22.01 minutes (1320.48 seconds)"