bonsai-team / matam

Mapping-Assisted Targeted-Assembly for Metagenomics
GNU Affero General Public License v3.0
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Specify the --cpu 4 but only 1 cpu was utilized #118

Open zuopengl opened 1 year ago

zuopengl commented 1 year ago

Dears,

Describe the bug I specified the option --cpu with 4, but finally only 1 was used and low memory was utilized. It makes the step of Overlapping-graph building very slow.

Expected behavior I wish it can process Overlapping-graph building parallelly to shorten the time.

Screenshots image

You can see the following screenshots about runtime. The process only completed 1.2% with 1 cpu after running 2 days. Though the command line pointed 4 cpus but only used 1

image

Desktop (please complete the following information): NAME="CentOS Linux" VERSION="7 (Core)" ID="centos" ID_LIKE="rhel fedora" VERSION_ID="7" PRETTY_NAME="CentOS Linux 7 (Core)" ANSI_COLOR="0;31" CPE_NAME="cpe:/o:centos:centos:7" HOME_URL="https://www.centos.org/" BUG_REPORT_URL="https://bugs.centos.org/"

CENTOS_MANTISBT_PROJECT="CentOS-7" CENTOS_MANTISBT_PROJECT_VERSION="7" REDHAT_SUPPORT_PRODUCT="centos" REDHAT_SUPPORT_PRODUCT_VERSION="7"

the following is conda list of conda environment image

the conda version is conda 23.1.0

Look forward to hearing from you!

Best regards! Zuopeng