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BGI-Qingdao / TGS-GapCloser

A gap-closing software tool that uses long reads to enhance genome assembly.
GNU General Public License v3.0
179 stars 13 forks source link

big RAM required #38

Closed ardy20 closed 3 years ago

ardy20 commented 3 years ago

Hi Author

I tried this tool on a 500 Mb genome and used 300 Gb of RAM. The tool failed because needed more RAM. Is there any parameter that can limit the RAM requirement (in --ne mode) (no polish mode).

Regards Ardy

adonis316 commented 3 years ago

The memory usage is usually not large for the ne mode, in which the alignment consumes the most memory by minimap2. 300Gb should be enough for a 500Mb genome. Could you provide more details in the log files?

Mengyang