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3-align output files are missing #50032
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This repository contains several thousands of recipes! |
There's no "3-align" recipe in Bioconda. This looks like an error from Snakemake, so you should find the |
How to solve it:
Select jobs to execute...
[Wed Aug 14 14:31:51 2024]
rule indexGraph:
input: 2-processGraph/unitig-unrolled-hifi-resolved.gfa
output: 3-align/graph.index, 3-align/diploid.index
log: 3-align/index.err
jobid: 100
reason: Missing output files: 3-align/graph.index, 3-align/diploid.index
resources: tmpdir=/tmp, job_id=1, n_cpus=1, mem_gb=1, time_h=24
Waiting at most 2 seconds for missing files.
MissingOutputException in rule indexGraph in file /home/liux/miniconda3/envs/Genomic/lib/verkko/Snakefiles/3-alignONT.sm, line 24:
Job 100 completed successfully, but some output files are missing. Missing files after 2 seconds. This might be due to filesystem latency. If that is the case, consider to increase the wait time with --latency-wait:
3-align/graph.index
3-align/diploid.index
Exiting because a job execution failed. Look above for error message
Complete log: .snakemake/log/2024-08-14T143150.185221.snakemake.log
ERROR!
Not running final consensus since no rukki paths provided!
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