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Error in job Output #45

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tsuna0804 opened this issue Jun 16, 2023 · 1 comment
Open

Error in job Output #45

tsuna0804 opened this issue Jun 16, 2023 · 1 comment

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@tsuna0804
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Hi! When I was running MicroExonator, at later process I got errors as follows:

============================================
$ ~/anaconda3/envs/snakemake_env/bin/snakemake -s MicroExonator.smk --use-conda -k -j 10 --rerun-incomplete
Provided cores: 10
Rules claiming more threads will be scaled down.
Job counts:
count jobs
1 Output
1 high_confident_filters
1 quant
3

rule Output:
input: Round2/TOTAL.ME_centric.txt, Round2/TOTAL.sample_cov_filter.txt, Round2/TOTAL.ME_centric.ME_matches.txt
output: Report/out_filtered_ME.txt, Report/out_low_scored_ME.txt, Report/out_shorter_than_3_ME.txt
log: logs/Output.log
jobid: 4

Error in job Output while creating output files Report/out_filtered_ME.txt, Report/out_low_scored_ME.txt, Report/out_shorter_than_3_ME.txt.
RuleException:
CalledProcessError in line 159 of /lustre7/home/tsuna8984/MicroExonator/rules/Round2_post_processing.smk:
Command 'Rscript /lustre7/home/tsuna8984/MicroExonator/src/.snakemake.7ax85rg2.final_filters3.R' returned non-zero exit status 1.
File "/lustre7/home/tsuna8984/MicroExonator/rules/Round2_post_processing.smk", line 159, in __rule_Output
File "/home/tsuna8984/anaconda3/envs/snakemake_env/lib/python3.6/concurrent/futures/thread.py", line 56, in run
Job failed, going on with independent jobs.
Exiting because a job execution failed. Look above for error message

I confirmed that input files actually exist in Round2 directory. I did not make any modifications in the scripts of final_filters3.R. Could you give me any idea to solve this?
Thank you.

@tsuna0804
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Output.log was as follows:

mixtools package, version 1.2.0, Released 2020-02-05
This package is based upon work supported by the National Science Foundation under Grant No. SES-0518772.

Error in if (any(s.hyp == 0)) s.hyp[which(s.hyp == 0)] = runif(sum(s.hyp == :
missing value where TRUE/FALSE needed
Calls: normalmixEM -> normalmix.init
Execution halted

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