Open albaguillen13 opened 3 years ago
Hi, everyone
I'm trying to run Megahit for the first time, and I have an error when trying to assemble several of my samples. This is the error:
2020-11-03 13:11:49 - Error occurs, please refer to /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/log for detail 2020-11-03 13:11:49 - Command: /home/i2sysbio/miniconda3/bin/megahit_core assemble -s /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/tmp/k27/27 -o /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/intermediate_contigs/k27 -t 1 --min_standalone 300 --prune_level 2 --merge_len 20 --merge_similar 0.95 --cleaning_rounds 5 --disconnect_ratio 0.1 --low_local_ratio 0.2 --cleaning_rounds 5 --min_depth 2 --bubble_level 2 --max_tip_len -1 --careful_bubble; Exit code -11
I've been trying to increase the number of k-mers because my samples are tricky and came from complex environments, but I get the same error.
I attach the log file. log.txt
DO you think that putting --kmin-1pass is an option to solve this? Or is just because my computer doesn't have enough power. AMD Ryzen 7 2700X Eight-Core Processor x 16 CPUs x64 bits. RAM: 64Gb SSD: 491.2 GB
Thank you, so much Alba
https://github.com/voutcn/megahit/issues/310#issuecomment-2211734034
USMortality
commented
2 months ago
Hi, everyone
I'm trying to run Megahit for the first time, and I have an error when trying to assemble several of my samples. This is the error:
2020-11-03 13:11:49 - Error occurs, please refer to /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/log for detail 2020-11-03 13:11:49 - Command: /home/i2sysbio/miniconda3/bin/megahit_core assemble -s /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/tmp/k27/27 -o /home/i2sysbio/Documentos/Projectes/JULI/PS_Funct/megahit/prova/intermediate_contigs/k27 -t 1 --min_standalone 300 --prune_level 2 --merge_len 20 --merge_similar 0.95 --cleaning_rounds 5 --disconnect_ratio 0.1 --low_local_ratio 0.2 --cleaning_rounds 5 --min_depth 2 --bubble_level 2 --max_tip_len -1 --careful_bubble; Exit code -11
I've been trying to increase the number of k-mers because my samples are tricky and came from complex environments, but I get the same error.
I attach the log file. log.txt
DO you think that putting --kmin-1pass is an option to solve this? Or is just because my computer doesn't have enough power. AMD Ryzen 7 2700X Eight-Core Processor x 16 CPUs x64 bits. RAM: 64Gb SSD: 491.2 GB
Thank you, so much Alba