cjw85
commented
1 year ago This is not an error with fastcat:
Command error:
docker: Error response from daemon: mount /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484 to /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/eb90df73f871badc59f5ae0ac15bf809577b236b6a6de32cf9fc95197acf2322: no space left on device.
See 'docker run --help'.is fairly transparent --- your docker container mount ran out of disk space.
Instance parameters { fastq: /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484/4697b90ec163125268b16f16842267e75092c7d394bde65a46172d37cb218098/minION/FirstRun_151222/basecalling/pass, classifier: kraken2, batch_size: 1000, analyse_unclassified: true, database_set: ncbi_16s_18s, store_dir: /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484/4697b90ec163125268b16f16842267e75092c7d394bde65a46172d37cb218098/AppData/Local/EPI2MELabs/app-4.1.3/store_dir, bracken_level: S, port: 8080, host: localhost, out_dir: /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484/e01dbf34c0ac1f05f59d59abea2aeec8f0e81f0e3c205abe7bfde884e1c801c4/instances/wf-metagenomics_42bf296e-208a-4a2b-b168-a74c17632fcc/output, threads: 2, server_threads: 2, kraken_clients: 2, wf: { agent: epi2melabs/4.1.3 } }
Stopped with error epi2me-labs/wf-metagenomics v2.2.0
Nextflow workflow report [blissful_bassi] Workflow execution completed unsuccessfully! The exit status of the task that caused the workflow execution to fail was: 125.
The full error message was:
Error executing process > 'fastcat (1)'
Caused by: Process
fastcat (1)terminated with an error exit status (125)Command executed:
mkdir fastcat_stats fastcat -s pass -r fastcat_stats/per-read-stats.tsv -f fastcat_stats/per-file-stats.tsv pass | bgzip -@ 2 > seqs.fastq.gz
Command exit status: 125
Command output: (empty)
Command error: docker: Error response from daemon: mount /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484 to /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/eb90df73f871badc59f5ae0ac15bf809577b236b6a6de32cf9fc95197acf2322: no space left on device. See 'docker run --help'.
Work dir: /mnt/wsl/docker-desktop-bind-mounts/Ubuntu/44ea73db01058139d03114c2c973956f0331ab0d0328ce6bcc907b73c518c322/5051b9327cc3758e2e77575f824b6b65db8c48aa2b4852e7b7194f7708d51484/e01dbf34c0ac1f05f59d59abea2aeec8f0e81f0e3c205abe7bfde884e1c801c4/instances/wf-metagenomics_42bf296e-208a-4a2b-b168-a74c17632fcc/work/38/d1bbe1aad01f9883f6f734bd980522
Tip: view the complete command output by changing to the process work dir and entering the command
cat .command.out