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

Error encountered with "ct: true" while using the 1.0.4 singularity. #13

Open
BohBio opened this issue Jul 12, 2022 · 0 comments
Open

Comments

@BohBio
Copy link

BohBio commented Jul 12, 2022

Update:
While I could run the singularity program, once I add "ct: true", following are the error messages I receive:
invalid field ct, expected one of: 'alpha', 'beta', 'dp', 'edge_mutation', 'edit_fraction',
'fwd_is_reverse', 'input_bam', 'junction_overhang', 'keep_all_edited', 'known_snp', 'min_variant_coverage', 'non_ag',
'reference', 'rev_is_reverse', 'reverse_stranded_library', 'single_end', 'skip_duplicate_removal'

Please do let me know how to incorporate the ct flag.

(can ignore: "I have tried using the cwl based method to run the example data, but I ran into quite a bit of errors (possibly owing to conflicts arising from Python 2.7 and 3.8, I think). Thus, I would much appreciate if there can be an explanation for using Sailor (1.2.0 ?) using bash.")

Thanks!

@BohBio BohBio changed the title Usage with bash (for beginner) Error encountered with "ct: true" while using the 1.0.4 singularity. Jul 14, 2022
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