SLURM集群运行nf-core RNAseq时遇Nextflow插件目录创建失败

在SLURM调度的集群上运行nf-core RNAseq流程时，反复出现以下错误：

[33mWarning: Couldn't create cached classpath folder: /home/irvinng/.nextflow/tmp/launcher/nextflow-one_23.10.1/se439 -- Maybe NXF_HOME is not writable?(B[m curl: (28) Failed to connect to www.nextflow.io port 443 after 300967 ms: Timeout was reached N E X T F L O W  ~  version 23.10.1 ERROR ~ Unable to create plugins dir: /home/irvinng/.nextflow/plugins   -- Check '.nextflow.log' file for details 

nextflow.log中的日志内容：

Mar-10 11:22:32.695 [main] DEBUG nextflow.cli.Launcher - $> nextflow run nf-core/rnaseq -r 3.14.0 -name RNAseq -profile singularity -params-file nf-core_RNAseq/nf-params.json -c nf-core_RNAseq/nextflow.config
Mar-10 11:23:53.787 [main] INFO  nextflow.cli.CmdRun - N E X T F L O W  ~  version 23.10.1
Mar-10 11:23:53.833 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/home/irvinng/.nextflow/plugins; core-plugins: nf-amazon@2.1.4,nf-azure@1.3.3,nf-cloudcache@0.3.0,nf-codecommit@0.1.5,nf-console@1.0.6,nf-ga4gh@1.1.0,nf-google@1.8.3,nf-tower@1.6.3,nf-wave@1.0.1
Mar-10 11:23:53.836 [main] ERROR nextflow.cli.Launcher - Unable to create plugins dir: /home/irvinng/.nextflow/plugins
java.io.IOException: Unable to create plugins dir: /home/irvinng/.nextflow/plugins
    at nextflow.plugin.PluginsFacade.init(PluginsFacade.groovy:195)
    at nextflow.plugin.Plugins.init(Plugins.groovy:41)
    at nextflow.plugin.Plugins.init(Plugins.groovy)
    at nextflow.cli.CmdRun.run(CmdRun.groovy:314)
    at nextflow.cli.Launcher.run(Launcher.groovy:500)
    at nextflow.cli.Launcher.main(Launcher.groovy:672)

已尝试的无效解决方法 #

• 调整.nextflow目录权限：进入/home/irvinng/.nextflow目录执行chmod u+w+x+r命令，问题未解决。
• 指定自定义插件目录：在作业脚本中设置NXF_PLUGINS_DIR环境变量，尝试让Nextflow写入指定路径，但流程仍尝试写入默认的/home/irvinng/.nextflow/plugins目录，问题依旧。作业脚本内容如下：

#!/bin/bash

#SBATCH --time=10:00:00              # Maximum execution time (HH:MM:SS)
#SBATCH --nodes=1                    # Number of nodes
#SBATCH --ntasks=1                   # Number of tasks (MPI processes)
#SBATCH --cpus-per-task=32           # Number of CPU cores per task
#SBATCH --mem=300G                   # Total memory allocated (in GB)
#SBATCH --mail-type=ALL              # Send email on job start, end, and abort


################################################################################
# Load modules
source /path/to/conda.sh
conda activate /path/to/nf-core
################################################################################

module load apptainer

NXF_PLUGINS_DIR=nf-core_RNAseq/.nextflow/plugins
nextflow run nf-core/rnaseq -r 3.14.0 -name RNAseq -profile singularity -params-file nf-params.json -c nextflow.config

mamba deactivate

• 重新安装Nextflow：将Nextflow从/home/irvinng/bin目录移至nf-core_RNAseq目录重新安装，问题未解决。

内容的提问来源于stack exchange，提问作者Shortytot