Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

When running metabolic-c, I get the following error: #197

Open
hyShen-hzau opened this issue Oct 14, 2024 · 0 comments
Open

When running metabolic-c, I get the following error: #197

hyShen-hzau opened this issue Oct 14, 2024 · 0 comments

Comments

@hyShen-hzau
Copy link

Describe the bug
When I run ‘perl METABOLIC-C.pl -in-gn /data_SSD/home/newshy/Metabolic/Sharp/test -r /data_SSD/home/newshy/Metabolic/test2.txt -o result3 -t 15’, a bug occurs. My input file is a fasta file. However, the error in the log is ‘Error: reads file does not look like a FASTQ file’.

To Reproduce
Steps to reproduce the behavior:

  1. Go to 'METABOLIC_log.log'
  2. Click on '....'
  3. Scroll down to
  4. [2024-10-13 22:57:20] Drawing element cycling diagrams...
    Renaming result4/All_gene_collections.gene.scaffold.3.bt2.tmp to result4/All_gene_collections.gene.scaffold.3.bt2
    Renaming result4/All_gene_collections.gene.scaffold.4.bt2.tmp to result4/All_gene_collections.gene.scaffold.4.bt2
    Renaming result4/All_gene_collections.gene.scaffold.1.bt2.tmp to result4/All_gene_collections.gene.scaffold.1.bt2
    Renaming result4/All_gene_collections.gene.scaffold.2.bt2.tmp to result4/All_gene_collections.gene.scaffold.2.bt2
    Renaming result4/All_gene_collections.gene.scaffold.rev.1.bt2.tmp to result4/All_gene_collections.gene.scaffold.rev.1.bt2
    Renaming result4/All_gene_collections.gene.scaffold.rev.2.bt2.tmp to result4/All_gene_collections.gene.scaffold.rev.2.bt2
    Renaming result4/All_gene_collections.gene.scaffold.3.bt2.tmp to result4/All_gene_collections.gene.scaffold.3.bt2
    Renaming result4/All_gene_collections.gene.scaffold.4.bt2.tmp to result4/All_gene_collections.gene.scaffold.4.bt2
    Renaming result4/All_gene_collections.gene.scaffold.1.bt2.tmp to result4/All_gene_collections.gene.scaffold.1.bt2
    Renaming result4/All_gene_collections.gene.scaffold.2.bt2.tmp to result4/All_gene_collections.gene.scaffold.2.bt2
    Renaming result4/All_gene_collections.gene.scaffold.rev.1.bt2.tmp to result4/All_gene_collections.gene.scaffold.rev.1.bt2
    Renaming result4/All_gene_collections.gene.scaffold.rev.2.bt2.tmp to result4/All_gene_collections.gene.scaffold.rev.2.bt2
    Error: reads file does not look like a FASTQ file
    Error: reads file does not look like a FASTQ file
    terminate called after throwing an instance of 'int'
    terminate called after throwing an instance of 'int'
    (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped)
    (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped)
    Illegal division by zero at METABOLIC-C.pl line 2097.
    Illegal division by zero at METABOLIC-C.pl line 2097.

Expected behavior
A clear and concise description of what you expected to happen.

Screenshots
If applicable, add screenshots to help explain your problem.

Additional context
METABOLIC.log

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant